---
_id: '15009'
abstract:
- lang: eng
text: Since the commercialization of brine shrimp (genus Artemia) in the 1950s,
this lineage, and in particular the model species Artemia franciscana, has been
the subject of extensive research. However, our understanding of the genetic mechanisms
underlying various aspects of their reproductive biology, including sex determination,
is still lacking. This is partly due to the scarcity of genomic resources for
Artemia species and crustaceans in general. Here, we present a chromosome-level
genome assembly of A. franciscana (Kellogg 1906), from the Great Salt Lake, United
States. The genome is 1 GB, and the majority of the genome (81%) is scaffolded
into 21 linkage groups using a previously published high-density linkage map.
We performed coverage and FST analyses using male and female genomic and transcriptomic
reads to quantify the extent of differentiation between the Z and W chromosomes.
Additionally, we quantified the expression levels in male and female heads and
gonads and found further evidence for dosage compensation in this species.
article_number: evae006
article_processing_charge: Yes
article_type: original
author:
- first_name: Vincent K
full_name: Bett, Vincent K
id: 57854184-AAE0-11E9-8D04-98D6E5697425
last_name: Bett
- first_name: Ariana
full_name: Macon, Ariana
id: 2A0848E2-F248-11E8-B48F-1D18A9856A87
last_name: Macon
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Marwan N
full_name: Elkrewi, Marwan N
id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425
last_name: Elkrewi
orcid: 0000-0002-5328-7231
citation:
ama: Bett VK, Macon A, Vicoso B, Elkrewi MN. Chromosome-level assembly of Artemia
franciscana sheds light on sex chromosome differentiation. Genome Biology and
Evolution. 2024;16(1). doi:10.1093/gbe/evae006
apa: Bett, V. K., Macon, A., Vicoso, B., & Elkrewi, M. N. (2024). Chromosome-level
assembly of Artemia franciscana sheds light on sex chromosome differentiation.
Genome Biology and Evolution. Oxford University Press. https://doi.org/10.1093/gbe/evae006
chicago: Bett, Vincent K, Ariana Macon, Beatriz Vicoso, and Marwan N Elkrewi. “Chromosome-Level
Assembly of Artemia Franciscana Sheds Light on Sex Chromosome Differentiation.”
Genome Biology and Evolution. Oxford University Press, 2024. https://doi.org/10.1093/gbe/evae006.
ieee: V. K. Bett, A. Macon, B. Vicoso, and M. N. Elkrewi, “Chromosome-level assembly
of Artemia franciscana sheds light on sex chromosome differentiation,” Genome
Biology and Evolution, vol. 16, no. 1. Oxford University Press, 2024.
ista: Bett VK, Macon A, Vicoso B, Elkrewi MN. 2024. Chromosome-level assembly of
Artemia franciscana sheds light on sex chromosome differentiation. Genome Biology
and Evolution. 16(1), evae006.
mla: Bett, Vincent K., et al. “Chromosome-Level Assembly of Artemia Franciscana
Sheds Light on Sex Chromosome Differentiation.” Genome Biology and Evolution,
vol. 16, no. 1, evae006, Oxford University Press, 2024, doi:10.1093/gbe/evae006.
short: V.K. Bett, A. Macon, B. Vicoso, M.N. Elkrewi, Genome Biology and Evolution
16 (2024).
date_created: 2024-02-18T23:01:02Z
date_published: 2024-01-20T00:00:00Z
date_updated: 2024-02-26T09:59:30Z
day: '20'
ddc:
- '570'
department:
- _id: BeVi
doi: 10.1093/gbe/evae006
external_id:
pmid:
- '38245839'
file:
- access_level: open_access
checksum: 106a40f10443b2e7ba66749844ebbdf1
content_type: application/pdf
creator: dernst
date_created: 2024-02-26T09:54:59Z
date_updated: 2024-02-26T09:54:59Z
file_id: '15029'
file_name: 2024_GBE_Bett.pdf
file_size: 5213306
relation: main_file
success: 1
file_date_updated: 2024-02-26T09:54:59Z
has_accepted_license: '1'
intvolume: ' 16'
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
publication: Genome Biology and Evolution
publication_identifier:
eissn:
- 1759-6653
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
related_material:
record:
- id: '14705'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Chromosome-level assembly of Artemia franciscana sheds light on sex chromosome
differentiation
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 16
year: '2024'
...
---
_id: '12521'
abstract:
- lang: eng
text: Differentiated X chromosomes are expected to have higher rates of adaptive
divergence than autosomes, if new beneficial mutations are recessive (the “faster-X
effect”), largely because these mutations are immediately exposed to selection
in males. The evolution of X chromosomes after they stop recombining in males,
but before they become hemizygous, has not been well explored theoretically. We
use the diffusion approximation to infer substitution rates of beneficial and
deleterious mutations under such a scenario. Our results show that selection is
less efficient on diploid X loci than on autosomal and hemizygous X loci under
a wide range of parameters. This “slower-X” effect is stronger for genes affecting
primarily (or only) male fitness, and for sexually antagonistic genes. These unusual
dynamics suggest that some of the peculiar features of X chromosomes, such as
the differential accumulation of genes with sex-specific functions, may start
arising earlier than previously appreciated.
acknowledgement: We thank the Vicoso and Barton groups and ISTA Scientific Computing
Unit. We also thank two anonymous reviewers for their valuable comments. This work
was supported by the European Research Council under the European Union’s Horizon
2020 research and innovation program (grant agreements no. 715257 and no. 716117).
article_number: qrac004
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Andrea
full_name: Mrnjavac, Andrea
id: 353FAC84-AE61-11E9-8BFC-00D3E5697425
last_name: Mrnjavac
- first_name: Kseniia
full_name: Khudiakova, Kseniia
id: 4E6DC800-AE37-11E9-AC72-31CAE5697425
last_name: Khudiakova
orcid: 0000-0002-6246-1465
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: 'Mrnjavac A, Khudiakova K, Barton NH, Vicoso B. Slower-X: Reduced efficiency
of selection in the early stages of X chromosome evolution. Evolution Letters.
2023;7(1). doi:10.1093/evlett/qrac004'
apa: 'Mrnjavac, A., Khudiakova, K., Barton, N. H., & Vicoso, B. (2023). Slower-X:
Reduced efficiency of selection in the early stages of X chromosome evolution.
Evolution Letters. Oxford University Press. https://doi.org/10.1093/evlett/qrac004'
chicago: 'Mrnjavac, Andrea, Kseniia Khudiakova, Nicholas H Barton, and Beatriz Vicoso.
“Slower-X: Reduced Efficiency of Selection in the Early Stages of X Chromosome
Evolution.” Evolution Letters. Oxford University Press, 2023. https://doi.org/10.1093/evlett/qrac004.'
ieee: 'A. Mrnjavac, K. Khudiakova, N. H. Barton, and B. Vicoso, “Slower-X: Reduced
efficiency of selection in the early stages of X chromosome evolution,” Evolution
Letters, vol. 7, no. 1. Oxford University Press, 2023.'
ista: 'Mrnjavac A, Khudiakova K, Barton NH, Vicoso B. 2023. Slower-X: Reduced efficiency
of selection in the early stages of X chromosome evolution. Evolution Letters.
7(1), qrac004.'
mla: 'Mrnjavac, Andrea, et al. “Slower-X: Reduced Efficiency of Selection in the
Early Stages of X Chromosome Evolution.” Evolution Letters, vol. 7, no.
1, qrac004, Oxford University Press, 2023, doi:10.1093/evlett/qrac004.'
short: A. Mrnjavac, K. Khudiakova, N.H. Barton, B. Vicoso, Evolution Letters 7 (2023).
date_created: 2023-02-06T13:59:12Z
date_published: 2023-02-01T00:00:00Z
date_updated: 2023-08-16T11:44:32Z
day: '01'
ddc:
- '570'
department:
- _id: GradSch
- _id: BeVi
doi: 10.1093/evlett/qrac004
ec_funded: 1
external_id:
isi:
- '001021692200001'
pmid:
- '37065438'
file:
- access_level: open_access
checksum: a240a041cb9b9b7c8ba93a4706674a3f
content_type: application/pdf
creator: dernst
date_created: 2023-08-16T11:43:33Z
date_updated: 2023-08-16T11:43:33Z
file_id: '14068'
file_name: 2023_EvLetters_Mrnjavac.pdf
file_size: 2592189
relation: main_file
success: 1
file_date_updated: 2023-08-16T11:43:33Z
has_accepted_license: '1'
intvolume: ' 7'
isi: 1
issue: '1'
keyword:
- Genetics
- Ecology
- Evolution
- Behavior and Systematics
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 256E75B8-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '716117'
name: Optimal Transport and Stochastic Dynamics
- _id: 250BDE62-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715257'
name: Prevalence and Influence of Sexual Antagonism on Genome Evolution
publication: Evolution Letters
publication_identifier:
issn:
- 2056-3744
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Slower-X: Reduced efficiency of selection in the early stages of X chromosome
evolution'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 7
year: '2023'
...
---
_id: '14604'
abstract:
- lang: eng
text: Sex chromosomes have evolved independently multiple times, but why some are
conserved for more than 100 million years whereas others turnover rapidly remains
an open question. Here, we examine the homology of sex chromosomes across nine
orders of insects, plus the outgroup springtails. We find that the X chromosome
is likely homologous across insects and springtails; the only exception is in
the Lepidoptera, which has lost the X and now has a ZZ/ZW sex-chromosome system.
These results suggest the ancestral insect X chromosome has persisted for more
than 450 million years—the oldest known sex chromosome to date. Further, we propose
that the shrinking of gene content the dipteran X chromosome has allowed for a
burst of sex-chromosome turnover that is absent from other speciose insect orders.
acknowledgement: All computational analyses were performed on the server at Institute
of Science and Technology Austria. We thank Marwan Elkrewi and Vincent Bett for
analytical advice, and Tanja Schwander and Vincent Merel for useful discussions.
We also thank Matthew Hahn for comments on an earlier version of the manuscript.
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Melissa A
full_name: Toups, Melissa A
id: 4E099E4E-F248-11E8-B48F-1D18A9856A87
last_name: Toups
orcid: 0000-0002-9752-7380
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Toups MA, Vicoso B. The X chromosome of insects likely predates the origin
of class Insecta. Evolution. 2023;77(11):2504-2511. doi:10.1093/evolut/qpad169
apa: Toups, M. A., & Vicoso, B. (2023). The X chromosome of insects likely predates
the origin of class Insecta. Evolution. Oxford University Press. https://doi.org/10.1093/evolut/qpad169
chicago: Toups, Melissa A, and Beatriz Vicoso. “The X Chromosome of Insects Likely
Predates the Origin of Class Insecta.” Evolution. Oxford University Press,
2023. https://doi.org/10.1093/evolut/qpad169.
ieee: M. A. Toups and B. Vicoso, “The X chromosome of insects likely predates the
origin of class Insecta,” Evolution, vol. 77, no. 11. Oxford University
Press, pp. 2504–2511, 2023.
ista: Toups MA, Vicoso B. 2023. The X chromosome of insects likely predates the
origin of class Insecta. Evolution. 77(11), 2504–2511.
mla: Toups, Melissa A., and Beatriz Vicoso. “The X Chromosome of Insects Likely
Predates the Origin of Class Insecta.” Evolution, vol. 77, no. 11, Oxford
University Press, 2023, pp. 2504–11, doi:10.1093/evolut/qpad169.
short: M.A. Toups, B. Vicoso, Evolution 77 (2023) 2504–2511.
date_created: 2023-11-26T23:00:54Z
date_published: 2023-11-02T00:00:00Z
date_updated: 2023-11-28T08:25:28Z
day: '02'
ddc:
- '570'
department:
- _id: BeVi
doi: 10.1093/evolut/qpad169
external_id:
pmid:
- '37738212'
file:
- access_level: open_access
checksum: b66dc10edae92d38918d534e64dda77c
content_type: application/pdf
creator: dernst
date_created: 2023-11-28T08:12:15Z
date_updated: 2023-11-28T08:12:15Z
file_id: '14618'
file_name: 2023_Evolution_Toups.pdf
file_size: 1399102
relation: main_file
success: 1
file_date_updated: 2023-11-28T08:12:15Z
has_accepted_license: '1'
intvolume: ' 77'
issue: '11'
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
page: 2504-2511
pmid: 1
publication: Evolution
publication_identifier:
eissn:
- 1558-5646
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
related_material:
link:
- relation: software
url: https://git.ista.ac.at/bvicoso/veryoldx
record:
- id: '14616'
relation: research_data
status: public
- id: '14617'
relation: research_data
status: public
scopus_import: '1'
status: public
title: The X chromosome of insects likely predates the origin of class Insecta
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 77
year: '2023'
...
---
_id: '14616'
abstract:
- lang: eng
text: Sex chromosomes have evolved independently multiple times, but why some are
conserved for more than 100 million years whereas others turnover rapidly remains
an open question. Here, we examine the homology of sex chromosomes across nine
orders of insects, plus the outgroup springtails. We find that the X chromosome
is likely homologous across insects and springtails; the only exception is in
the Lepidoptera, which has lost the X and now has a ZZ/ZW sex chromosome system.
These results suggest the ancestral insect X chromosome has persisted for more
than 450 million years – the oldest known sex chromosome to date. Further, we
propose that the shrinking of gene content of the Dipteran X chromosome has allowed
for a burst of sex-chromosome turnover that is absent from other speciose insect
orders.
article_processing_charge: No
author:
- first_name: Melissa A
full_name: Toups, Melissa A
id: 4E099E4E-F248-11E8-B48F-1D18A9856A87
last_name: Toups
orcid: 0000-0002-9752-7380
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Toups MA, Vicoso B. The X chromosome of insects likely predates the origin
of Class Insecta. 2023. doi:10.5061/DRYAD.HX3FFBGKT
apa: Toups, M. A., & Vicoso, B. (2023). The X chromosome of insects likely predates
the origin of Class Insecta. Dryad. https://doi.org/10.5061/DRYAD.HX3FFBGKT
chicago: Toups, Melissa A, and Beatriz Vicoso. “The X Chromosome of Insects Likely
Predates the Origin of Class Insecta.” Dryad, 2023. https://doi.org/10.5061/DRYAD.HX3FFBGKT.
ieee: M. A. Toups and B. Vicoso, “The X chromosome of insects likely predates the
origin of Class Insecta.” Dryad, 2023.
ista: Toups MA, Vicoso B. 2023. The X chromosome of insects likely predates the
origin of Class Insecta, Dryad, 10.5061/DRYAD.HX3FFBGKT.
mla: Toups, Melissa A., and Beatriz Vicoso. The X Chromosome of Insects Likely
Predates the Origin of Class Insecta. Dryad, 2023, doi:10.5061/DRYAD.HX3FFBGKT.
short: M.A. Toups, B. Vicoso, (2023).
date_created: 2023-11-28T08:01:53Z
date_published: 2023-09-15T00:00:00Z
date_updated: 2023-11-28T08:17:31Z
day: '15'
ddc:
- '570'
department:
- _id: BeVi
doi: 10.5061/DRYAD.HX3FFBGKT
has_accepted_license: '1'
license: https://creativecommons.org/publicdomain/zero/1.0/
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.hx3ffbgkt
month: '09'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
record:
- id: '14604'
relation: used_in_publication
status: public
status: public
title: The X chromosome of insects likely predates the origin of Class Insecta
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14617'
abstract:
- lang: eng
text: Sex chromosomes have evolved independently multiple times, but why some are
conserved for more than 100 million years whereas others turnover rapidly remains
an open question. Here, we examine the homology of sex chromosomes across nine
orders of insects, plus the outgroup springtails. We find that the X chromosome
is likely homologous across insects and springtails; the only exception is in
the Lepidoptera, which has lost the X and now has a ZZ/ZW sex chromosome system.
These results suggest the ancestral insect X chromosome has persisted for more
than 450 million years – the oldest known sex chromosome to date. Further, we
propose that the shrinking of gene content of the Dipteran X chromosome has allowed
for a burst of sex-chromosome turnover that is absent from other speciose insect
orders.
article_processing_charge: No
author:
- first_name: Melissa A
full_name: Toups, Melissa A
id: 4E099E4E-F248-11E8-B48F-1D18A9856A87
last_name: Toups
orcid: 0000-0002-9752-7380
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Toups MA, Vicoso B. The X chromosome of insects likely predates the origin
of Class Insecta. 2023. doi:10.5281/ZENODO.8138705
apa: Toups, M. A., & Vicoso, B. (2023). The X chromosome of insects likely predates
the origin of Class Insecta. Zenodo. https://doi.org/10.5281/ZENODO.8138705
chicago: Toups, Melissa A, and Beatriz Vicoso. “The X Chromosome of Insects Likely
Predates the Origin of Class Insecta.” Zenodo, 2023. https://doi.org/10.5281/ZENODO.8138705.
ieee: M. A. Toups and B. Vicoso, “The X chromosome of insects likely predates the
origin of Class Insecta.” Zenodo, 2023.
ista: Toups MA, Vicoso B. 2023. The X chromosome of insects likely predates the
origin of Class Insecta, Zenodo, 10.5281/ZENODO.8138705.
mla: Toups, Melissa A., and Beatriz Vicoso. The X Chromosome of Insects Likely
Predates the Origin of Class Insecta. Zenodo, 2023, doi:10.5281/ZENODO.8138705.
short: M.A. Toups, B. Vicoso, (2023).
date_created: 2023-11-28T08:04:03Z
date_published: 2023-09-15T00:00:00Z
date_updated: 2023-11-28T08:25:28Z
day: '15'
ddc:
- '570'
department:
- _id: BeVi
doi: 10.5281/ZENODO.8138705
has_accepted_license: '1'
main_file_link:
- open_access: '1'
url: https://doi.org/10.5281/zenodo.8138705
month: '09'
oa: 1
oa_version: Published Version
other_data_license: MIT License
publisher: Zenodo
related_material:
record:
- id: '14604'
relation: used_in_publication
status: public
status: public
title: The X chromosome of insects likely predates the origin of Class Insecta
type: research_data_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14077'
abstract:
- lang: eng
text: "The regulatory architecture of gene expression is known to differ substantially
between sexes in Drosophila, but most studies performed\r\nso far used whole-body
data and only single crosses, which may have limited their scope to detect patterns
that are robust across tissues\r\nand biological replicates. Here, we use allele-specific
gene expression of parental and reciprocal hybrid crosses between 6 Drosophila\r\nmelanogaster
inbred lines to quantify cis- and trans-regulatory variation in heads and gonads
of both sexes separately across 3 replicate\r\ncrosses. Our results suggest that
female and male heads, as well as ovaries, have a similar regulatory architecture.
On the other hand,\r\ntestes display more and substantially different cis-regulatory
effects, suggesting that sex differences in the regulatory architecture that\r\nhave
been previously observed may largely derive from testis-specific effects. We also
examine the difference in cis-regulatory variation\r\nof genes across different
levels of sex bias in gonads and heads. Consistent with the idea that intersex
correlations constrain expression\r\nand can lead to sexual antagonism, we find
more cis variation in unbiased and moderately biased genes in heads. In ovaries,
reduced cis\r\nvariation is observed for male-biased genes, suggesting that cis
variants acting on these genes in males do not lead to changes in ovary\r\nexpression.
Finally, we examine the dominance patterns of gene expression and find that sex-
and tissue-specific patterns of inheritance\r\nas well as trans-regulatory variation
are highly variable across biological crosses, although these were performed in
highly controlled\r\nexperimental conditions. This highlights the importance of
using various genetic backgrounds to infer generalizable patterns."
acknowledged_ssus:
- _id: ScienComp
acknowledgement: We thank members of the Vicoso Group for comments on the manuscript,
the Scientific Computing Unit at ISTA for technical support, and 2 anonymous reviewers
for useful feedback. GP is the recipient of a DOC Fellowship of the Austrian Academy
of Sciences at the Institute of Science and Technology Austria (DOC 25817) and received
funding from the European Union’s Horizon 2020 research and innovation program under
the Marie Skłodowska-Curie Grant (agreement no. 665385).
article_processing_charge: Yes
article_type: original
author:
- first_name: Gemma
full_name: Puixeu Sala, Gemma
id: 33AB266C-F248-11E8-B48F-1D18A9856A87
last_name: Puixeu Sala
orcid: 0000-0001-8330-1754
- first_name: Ariana
full_name: Macon, Ariana
id: 2A0848E2-F248-11E8-B48F-1D18A9856A87
last_name: Macon
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: 'Puixeu Sala G, Macon A, Vicoso B. Sex-specific estimation of cis and trans
regulation of gene expression in heads and gonads of Drosophila melanogaster.
G3: Genes, Genomes, Genetics. 2023;13(8). doi:10.1093/g3journal/jkad121'
apa: 'Puixeu Sala, G., Macon, A., & Vicoso, B. (2023). Sex-specific estimation
of cis and trans regulation of gene expression in heads and gonads of Drosophila
melanogaster. G3: Genes, Genomes, Genetics. Oxford University Press. https://doi.org/10.1093/g3journal/jkad121'
chicago: 'Puixeu Sala, Gemma, Ariana Macon, and Beatriz Vicoso. “Sex-Specific Estimation
of Cis and Trans Regulation of Gene Expression in Heads and Gonads of Drosophila
Melanogaster.” G3: Genes, Genomes, Genetics. Oxford University Press, 2023.
https://doi.org/10.1093/g3journal/jkad121.'
ieee: 'G. Puixeu Sala, A. Macon, and B. Vicoso, “Sex-specific estimation of cis
and trans regulation of gene expression in heads and gonads of Drosophila melanogaster,”
G3: Genes, Genomes, Genetics, vol. 13, no. 8. Oxford University Press,
2023.'
ista: 'Puixeu Sala G, Macon A, Vicoso B. 2023. Sex-specific estimation of cis and
trans regulation of gene expression in heads and gonads of Drosophila melanogaster.
G3: Genes, Genomes, Genetics. 13(8).'
mla: 'Puixeu Sala, Gemma, et al. “Sex-Specific Estimation of Cis and Trans Regulation
of Gene Expression in Heads and Gonads of Drosophila Melanogaster.” G3: Genes,
Genomes, Genetics, vol. 13, no. 8, Oxford University Press, 2023, doi:10.1093/g3journal/jkad121.'
short: 'G. Puixeu Sala, A. Macon, B. Vicoso, G3: Genes, Genomes, Genetics 13 (2023).'
date_created: 2023-08-18T06:52:14Z
date_published: 2023-08-01T00:00:00Z
date_updated: 2023-12-13T12:15:37Z
day: '01'
ddc:
- '570'
department:
- _id: BeVi
- _id: NiBa
- _id: GradSch
doi: 10.1093/g3journal/jkad121
ec_funded: 1
external_id:
isi:
- '001002997200001'
file:
- access_level: open_access
checksum: c62e29fc7c5efbf8356f4c60cab4a2d1
content_type: application/pdf
creator: dernst
date_created: 2023-11-07T09:00:19Z
date_updated: 2023-11-07T09:00:19Z
file_id: '14498'
file_name: 2023_G3_Puixeu.pdf
file_size: 845642
relation: main_file
success: 1
file_date_updated: 2023-11-07T09:00:19Z
has_accepted_license: '1'
intvolume: ' 13'
isi: 1
issue: '8'
keyword:
- Genetics (clinical)
- Genetics
- Molecular Biology
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
- _id: 9B9DFC9E-BA93-11EA-9121-9846C619BF3A
grant_number: '25817'
name: 'Sexual conflict: resolution, constraints and biomedical implications'
publication: 'G3: Genes, Genomes, Genetics'
publication_identifier:
issn:
- 2160-1836
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
related_material:
record:
- id: '12933'
relation: research_data
status: public
- id: '14058'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Sex-specific estimation of cis and trans regulation of gene expression in heads
and gonads of Drosophila melanogaster
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13
year: '2023'
...
---
_id: '14613'
abstract:
- lang: eng
text: 'Many insects carry an ancient X chromosome - the Drosophila Muller element
F - that likely predates their origin. Interestingly, the X has undergone turnover
in multiple fly species (Diptera) after being conserved for more than 450 MY.
The long evolutionary distance between Diptera and other sequenced insect clades
makes it difficult to infer what could have contributed to this sudden increase
in rate of turnover. Here, we produce the first genome and transcriptome of a
long overlooked sister-order to Diptera: Mecoptera. We compare the scorpionfly
Panorpa cognata X-chromosome gene content, expression, and structure, to that
of several dipteran species as well as more distantly-related insect orders (Orthoptera
and Blattodea). We find high conservation of gene content between the mecopteran
X and the dipteran Muller F element, as well as several shared biological features,
such as the presence of dosage compensation and a low amount of genetic diversity,
consistent with a low recombination rate. However, the two homologous X chromosomes
differ strikingly in their size and number of genes they carry. Our results therefore
support a common ancestry of the mecopteran and ancestral dipteran X chromosomes,
and suggest that Muller element F shrank in size and gene content after the split
of Diptera and Mecoptera, which may have contributed to its turnover in dipteran
insects.'
acknowledged_ssus:
- _id: ScienComp
acknowledgement: "We thank the Vicoso lab for their assistance with specimen collection,
and Tim Connallon for valuable comments and suggestions on earlier versions of the
manuscript. Computational resources and support were provided by the Scientific
Computing unit at the ISTA. This research was supported by grants from the Austrian
Science Foundation to C.L.\r\n(FWF ESP 39), and to B.V. (FWF SFB F88-10)."
article_number: msad245
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Clementine
full_name: Lasne, Clementine
id: 02225f57-50d2-11eb-9ed8-8c92b9a34237
last_name: Lasne
orcid: 0000-0002-1197-8616
- first_name: Marwan N
full_name: Elkrewi, Marwan N
id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425
last_name: Elkrewi
orcid: 0000-0002-5328-7231
- first_name: Melissa A
full_name: Toups, Melissa A
id: 4E099E4E-F248-11E8-B48F-1D18A9856A87
last_name: Toups
orcid: 0000-0002-9752-7380
- first_name: Lorena Alexandra
full_name: Layana Franco, Lorena Alexandra
id: 02814589-eb8f-11eb-b029-a70074f3f18f
last_name: Layana Franco
orcid: 0000-0002-1253-6297
- first_name: Ariana
full_name: Macon, Ariana
id: 2A0848E2-F248-11E8-B48F-1D18A9856A87
last_name: Macon
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Lasne C, Elkrewi MN, Toups MA, Layana Franco LA, Macon A, Vicoso B. The scorpionfly
(Panorpa cognata) genome highlights conserved and derived features of the peculiar
dipteran X chromosome. Molecular Biology and Evolution. 2023;40(12). doi:10.1093/molbev/msad245
apa: Lasne, C., Elkrewi, M. N., Toups, M. A., Layana Franco, L. A., Macon, A., &
Vicoso, B. (2023). The scorpionfly (Panorpa cognata) genome highlights conserved
and derived features of the peculiar dipteran X chromosome. Molecular Biology
and Evolution. Oxford University Press. https://doi.org/10.1093/molbev/msad245
chicago: Lasne, Clementine, Marwan N Elkrewi, Melissa A Toups, Lorena Alexandra
Layana Franco, Ariana Macon, and Beatriz Vicoso. “The Scorpionfly (Panorpa Cognata)
Genome Highlights Conserved and Derived Features of the Peculiar Dipteran X Chromosome.”
Molecular Biology and Evolution. Oxford University Press, 2023. https://doi.org/10.1093/molbev/msad245.
ieee: C. Lasne, M. N. Elkrewi, M. A. Toups, L. A. Layana Franco, A. Macon, and B.
Vicoso, “The scorpionfly (Panorpa cognata) genome highlights conserved and derived
features of the peculiar dipteran X chromosome,” Molecular Biology and Evolution,
vol. 40, no. 12. Oxford University Press, 2023.
ista: Lasne C, Elkrewi MN, Toups MA, Layana Franco LA, Macon A, Vicoso B. 2023.
The scorpionfly (Panorpa cognata) genome highlights conserved and derived features
of the peculiar dipteran X chromosome. Molecular Biology and Evolution. 40(12),
msad245.
mla: Lasne, Clementine, et al. “The Scorpionfly (Panorpa Cognata) Genome Highlights
Conserved and Derived Features of the Peculiar Dipteran X Chromosome.” Molecular
Biology and Evolution, vol. 40, no. 12, msad245, Oxford University Press,
2023, doi:10.1093/molbev/msad245.
short: C. Lasne, M.N. Elkrewi, M.A. Toups, L.A. Layana Franco, A. Macon, B. Vicoso,
Molecular Biology and Evolution 40 (2023).
date_created: 2023-11-27T16:14:37Z
date_published: 2023-12-01T00:00:00Z
date_updated: 2024-02-21T12:18:35Z
day: '01'
ddc:
- '570'
department:
- _id: BeVi
doi: 10.1093/molbev/msad245
external_id:
pmid:
- '37988296'
file:
- access_level: open_access
checksum: 47c1c72fb499f26ea52d216b242208c8
content_type: application/pdf
creator: dernst
date_created: 2024-01-02T11:39:38Z
date_updated: 2024-01-02T11:39:38Z
file_id: '14727'
file_name: 2023_MolecularBioEvo_Lasne.pdf
file_size: 8623505
relation: main_file
success: 1
file_date_updated: 2024-01-02T11:39:38Z
has_accepted_license: '1'
intvolume: ' 40'
issue: '12'
keyword:
- Genetics
- Molecular Biology
- Ecology
- Evolution
- Behavior and Systematics
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 34ae1506-11ca-11ed-8bc3-c14f4c474396
grant_number: F8810
name: The highjacking of meiosis for asexual reproduction
- _id: ebb230e0-77a9-11ec-83b8-87a37e0241d3
grant_number: ESP39 49461
name: Mechanisms and Evolution of Reproductive Plasticity
publication: Molecular Biology and Evolution
publication_identifier:
eissn:
- 1537-1719
issn:
- 0737-4038
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
related_material:
link:
- description: News on ISTA webpage
relation: press_release
url: https://ista.ac.at/en/news/on-the-hunt/
record:
- id: '14614'
relation: research_data
status: public
scopus_import: '1'
status: public
title: The scorpionfly (Panorpa cognata) genome highlights conserved and derived features
of the peculiar dipteran X chromosome
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 40
year: '2023'
...
---
_id: '10767'
abstract:
- lang: eng
text: The t-haplotype of mice is a classical model for autosomal transmission distortion.
A largely non-recombining variant of the proximal region of chromosome 17, it
is transmitted to more than 90% of the progeny of heterozygous males through the
disabling of sperm carrying a standard chromosome. While extensive genetic and
functional work has shed light on individual genes involved in drive, much less
is known about the evolution and function of the rest of its hundreds of genes.
Here, we characterize the sequence and expression of dozens of t-specific transcripts
and of their chromosome 17 homologues. Many genes showed reduced expression of
the t-allele, but an equal number of genes showed increased expression of their
t-copy, consistent with increased activity or a newly evolved function. Genes
on the t-haplotype had a significantly higher non-synonymous substitution rate
than their homologues on the standard chromosome, with several genes harbouring
dN/dS ratios above 1. Finally, the t-haplotype has acquired at least two genes
from other chromosomes, which show high and tissue-specific expression. These
results provide a first overview of the gene content of this selfish element,
and support a more dynamic evolutionary scenario than expected of a large genomic
region with almost no recombination.
acknowledgement: "This project has received funding from the European Research Council
under the European Union’s Horizon 2020 research and innovation program (grant agreement
no. 715257) and from the Swiss National Science Foundation (grant no. 310030_189145).\r\nWe
thank Jari Garbely of the Department of Evolutionary Biology and Environmental Studies,
University of Zurich, Zurich, Switzerland, for conducting the PCR verification.
Barbara\r\nKonig, Gabi Stichel and A.K.L. collected mouse tissue samples, from the
field study led by R.K.K. "
article_processing_charge: No
article_type: original
author:
- first_name: Réka K
full_name: Kelemen, Réka K
id: 48D3F8DE-F248-11E8-B48F-1D18A9856A87
last_name: Kelemen
- first_name: Marwan N
full_name: Elkrewi, Marwan N
id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425
last_name: Elkrewi
orcid: 0000-0002-5328-7231
- first_name: Anna K.
full_name: Lindholm, Anna K.
last_name: Lindholm
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: 'Kelemen RK, Elkrewi MN, Lindholm AK, Vicoso B. Novel patterns of expression
and recruitment of new genes on the t-haplotype, a mouse selfish chromosome. Proceedings
of the Royal Society B: Biological Sciences. 2022;289(1968):20211985. doi:10.1098/rspb.2021.1985'
apa: 'Kelemen, R. K., Elkrewi, M. N., Lindholm, A. K., & Vicoso, B. (2022).
Novel patterns of expression and recruitment of new genes on the t-haplotype,
a mouse selfish chromosome. Proceedings of the Royal Society B: Biological
Sciences. The Royal Society. https://doi.org/10.1098/rspb.2021.1985'
chicago: 'Kelemen, Réka K, Marwan N Elkrewi, Anna K. Lindholm, and Beatriz Vicoso.
“Novel Patterns of Expression and Recruitment of New Genes on the T-Haplotype,
a Mouse Selfish Chromosome.” Proceedings of the Royal Society B: Biological
Sciences. The Royal Society, 2022. https://doi.org/10.1098/rspb.2021.1985.'
ieee: 'R. K. Kelemen, M. N. Elkrewi, A. K. Lindholm, and B. Vicoso, “Novel patterns
of expression and recruitment of new genes on the t-haplotype, a mouse selfish
chromosome,” Proceedings of the Royal Society B: Biological Sciences, vol.
289, no. 1968. The Royal Society, p. 20211985, 2022.'
ista: 'Kelemen RK, Elkrewi MN, Lindholm AK, Vicoso B. 2022. Novel patterns of expression
and recruitment of new genes on the t-haplotype, a mouse selfish chromosome. Proceedings
of the Royal Society B: Biological Sciences. 289(1968), 20211985.'
mla: 'Kelemen, Réka K., et al. “Novel Patterns of Expression and Recruitment of
New Genes on the T-Haplotype, a Mouse Selfish Chromosome.” Proceedings of the
Royal Society B: Biological Sciences, vol. 289, no. 1968, The Royal Society,
2022, p. 20211985, doi:10.1098/rspb.2021.1985.'
short: 'R.K. Kelemen, M.N. Elkrewi, A.K. Lindholm, B. Vicoso, Proceedings of the
Royal Society B: Biological Sciences 289 (2022) 20211985.'
date_created: 2022-02-20T23:01:31Z
date_published: 2022-02-09T00:00:00Z
date_updated: 2023-08-02T14:26:07Z
day: '09'
ddc:
- '570'
department:
- _id: BeVi
doi: 10.1098/rspb.2021.1985
ec_funded: 1
external_id:
isi:
- '000752812800012'
pmid:
- '35135349'
file:
- access_level: open_access
checksum: 27042a3706ae52a919fed1ac114bf7bb
content_type: application/pdf
creator: dernst
date_created: 2022-02-21T08:17:38Z
date_updated: 2022-02-21T08:17:38Z
file_id: '10779'
file_name: 2022_ProceedingsRoyalSocB_Kelemen.pdf
file_size: 2366976
relation: main_file
success: 1
file_date_updated: 2022-02-21T08:17:38Z
has_accepted_license: '1'
intvolume: ' 289'
isi: 1
issue: '1968'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: '20211985'
pmid: 1
project:
- _id: 250BDE62-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715257'
name: Prevalence and Influence of Sexual Antagonism on Genome Evolution
publication: 'Proceedings of the Royal Society B: Biological Sciences'
publication_identifier:
eissn:
- '14712954'
publication_status: published
publisher: The Royal Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Novel patterns of expression and recruitment of new genes on the t-haplotype,
a mouse selfish chromosome
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 289
year: '2022'
...
---
_id: '11703'
abstract:
- lang: eng
text: Polyploidization may precipitate dramatic changes to the genome, including
chromosome rearrangements, gene loss, and changes in gene expression. In dioecious
plants, the sex-determining mechanism may also be disrupted by polyploidization,
with the potential evolution of hermaphroditism. However, while dioecy appears
to have persisted through a ploidy transition in some species, it is unknown whether
the newly formed polyploid maintained its sex-determining system uninterrupted,
or whether dioecy re-evolved after a period of hermaphroditism. Here, we develop
a bioinformatic pipeline using RNA-sequencing data from natural populations to
demonstrate that the allopolyploid plant Mercurialis canariensis directly inherited
its sex-determining region from one of its diploid progenitor species, M. annua,
and likely remained dioecious through the transition. The sex-determining region
of M. canariensis is smaller than that of its diploid progenitor, suggesting that
the non-recombining region of M. annua expanded subsequent to the polyploid origin
of M. canariensis. Homeologous pairs show partial sexual subfunctionalization.
We discuss the possibility that gene duplicates created by polyploidization might
contribute to resolving sexual antagonism.
acknowledgement: "JRP was supported by the Swiss National Science Foundation (https://www.snf.ch/en),
Sinergia grant 26073998. BV was supported by the European Research Council (https://erc.europa.eu/)
under the European Union’s Horizon 2020 research and innovation program, grant number
715257. The funders had no role in study design, data collection and analysis, decision
to publish, or preparation of the manuscript.\r\nPlants were grown in Lausanne by
Aline Revel, and RNA extraction and library preparation were performed by Dessislava
Savova Bianchi. All sequencing and the IsoSeq3 analysis were carried out by Center
for Integrative Genomics at the University of Lausanne. All other computational
analyses were performed on the server at IST Austria."
article_number: e1010226
article_processing_charge: No
article_type: original
author:
- first_name: Melissa A
full_name: Toups, Melissa A
id: 4E099E4E-F248-11E8-B48F-1D18A9856A87
last_name: Toups
orcid: 0000-0002-9752-7380
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: John R.
full_name: Pannell, John R.
last_name: Pannell
citation:
ama: Toups MA, Vicoso B, Pannell JR. Dioecy and chromosomal sex determination are
maintained through allopolyploid speciation in the plant genus Mercurialis. PLoS
Genetics. 2022;18(7). doi:10.1371/journal.pgen.1010226
apa: Toups, M. A., Vicoso, B., & Pannell, J. R. (2022). Dioecy and chromosomal
sex determination are maintained through allopolyploid speciation in the plant
genus Mercurialis. PLoS Genetics. Public Library of Science. https://doi.org/10.1371/journal.pgen.1010226
chicago: Toups, Melissa A, Beatriz Vicoso, and John R. Pannell. “Dioecy and Chromosomal
Sex Determination Are Maintained through Allopolyploid Speciation in the Plant
Genus Mercurialis.” PLoS Genetics. Public Library of Science, 2022. https://doi.org/10.1371/journal.pgen.1010226.
ieee: M. A. Toups, B. Vicoso, and J. R. Pannell, “Dioecy and chromosomal sex determination
are maintained through allopolyploid speciation in the plant genus Mercurialis,”
PLoS Genetics, vol. 18, no. 7. Public Library of Science, 2022.
ista: Toups MA, Vicoso B, Pannell JR. 2022. Dioecy and chromosomal sex determination
are maintained through allopolyploid speciation in the plant genus Mercurialis.
PLoS Genetics. 18(7), e1010226.
mla: Toups, Melissa A., et al. “Dioecy and Chromosomal Sex Determination Are Maintained
through Allopolyploid Speciation in the Plant Genus Mercurialis.” PLoS Genetics,
vol. 18, no. 7, e1010226, Public Library of Science, 2022, doi:10.1371/journal.pgen.1010226.
short: M.A. Toups, B. Vicoso, J.R. Pannell, PLoS Genetics 18 (2022).
date_created: 2022-07-31T22:01:48Z
date_published: 2022-07-06T00:00:00Z
date_updated: 2023-08-03T12:17:12Z
day: '06'
ddc:
- '570'
department:
- _id: BeVi
doi: 10.1371/journal.pgen.1010226
ec_funded: 1
external_id:
isi:
- '000886643100006'
pmid:
- '35793353'
file:
- access_level: open_access
checksum: aa4c137f82635e700856c359dccfaa0a
content_type: application/pdf
creator: dernst
date_created: 2022-08-01T07:49:25Z
date_updated: 2022-08-01T07:49:25Z
file_id: '11708'
file_name: 2022_PLoSGenetics_Toups.pdf
file_size: 1620272
relation: main_file
success: 1
file_date_updated: 2022-08-01T07:49:25Z
has_accepted_license: '1'
intvolume: ' 18'
isi: 1
issue: '7'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 250BDE62-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715257'
name: Prevalence and Influence of Sexual Antagonism on Genome Evolution
publication: PLoS Genetics
publication_identifier:
eissn:
- 1553-7404
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
scopus_import: '1'
status: public
title: Dioecy and chromosomal sex determination are maintained through allopolyploid
speciation in the plant genus Mercurialis
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 18
year: '2022'
...
---
_id: '12248'
abstract:
- lang: eng
text: Eurasian brine shrimp (genus Artemia) have closely related sexual and asexual
lineages of parthenogenetic females, which produce rare males at low frequencies.
Although they are known to have ZW chromosomes, these are not well characterized,
and it is unclear whether they are shared across the clade. Furthermore, the underlying
genetic architecture of the transmission of asexuality, which can occur when rare
males mate with closely related sexual females, is not well understood. We produced
a chromosome-level assembly for the sexual Eurasian species Artemia sinica and
characterized in detail the pair of sex chromosomes of this species. We combined
this new assembly with short-read genomic data for the sexual species Artemia
sp. Kazakhstan and several asexual lineages of Artemia parthenogenetica, allowing
us to perform an in-depth characterization of sex-chromosome evolution across
the genus. We identified a small differentiated region of the ZW pair that is
shared by all sexual and asexual lineages, supporting the shared ancestry of the
sex chromosomes. We also inferred that recombination suppression has spread to
larger sections of the chromosome independently in the American and Eurasian lineages.
Finally, we took advantage of a rare male, which we backcrossed to sexual females,
to explore the genetic basis of asexuality. Our results suggest that parthenogenesis
is likely partly controlled by a locus on the Z chromosome, highlighting the interplay
between sex determination and asexuality.
acknowledged_ssus:
- _id: ScienComp
acknowledgement: "This work was supported by the European Research Council under the
European Union’s Horizon 2020 research and innovation program (grant agreement no.
715257) and by the Austrian Science Foundation (FWF SFB F88-10).\r\nWe thank the
Vicoso group for comments on the manuscript and the ISTA Scientific computing team
and the Vienna Biocenter Sequencing facility for technical support."
article_number: iyac123
article_processing_charge: No
article_type: original
author:
- first_name: Marwan N
full_name: Elkrewi, Marwan N
id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425
last_name: Elkrewi
orcid: 0000-0002-5328-7231
- first_name: Uladzislava
full_name: Khauratovich, Uladzislava
id: 5eba06f4-97d8-11ed-9f8f-d826ebdd9434
last_name: Khauratovich
- first_name: Melissa A
full_name: Toups, Melissa A
id: 4E099E4E-F248-11E8-B48F-1D18A9856A87
last_name: Toups
orcid: 0000-0002-9752-7380
- first_name: Vincent K
full_name: Bett, Vincent K
id: 57854184-AAE0-11E9-8D04-98D6E5697425
last_name: Bett
- first_name: Andrea
full_name: Mrnjavac, Andrea
id: 353FAC84-AE61-11E9-8BFC-00D3E5697425
last_name: Mrnjavac
- first_name: Ariana
full_name: Macon, Ariana
id: 2A0848E2-F248-11E8-B48F-1D18A9856A87
last_name: Macon
- first_name: Christelle
full_name: Fraisse, Christelle
id: 32DF5794-F248-11E8-B48F-1D18A9856A87
last_name: Fraisse
orcid: 0000-0001-8441-5075
- first_name: Luca
full_name: Sax, Luca
id: 701c5602-97d8-11ed-96b5-b52773c70189
last_name: Sax
- first_name: Ann K
full_name: Huylmans, Ann K
id: 4C0A3874-F248-11E8-B48F-1D18A9856A87
last_name: Huylmans
orcid: 0000-0001-8871-4961
- first_name: Francisco
full_name: Hontoria, Francisco
last_name: Hontoria
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Elkrewi MN, Khauratovich U, Toups MA, et al. ZW sex-chromosome evolution and
contagious parthenogenesis in Artemia brine shrimp. Genetics. 2022;222(2).
doi:10.1093/genetics/iyac123
apa: Elkrewi, M. N., Khauratovich, U., Toups, M. A., Bett, V. K., Mrnjavac, A.,
Macon, A., … Vicoso, B. (2022). ZW sex-chromosome evolution and contagious parthenogenesis
in Artemia brine shrimp. Genetics. Oxford University Press. https://doi.org/10.1093/genetics/iyac123
chicago: Elkrewi, Marwan N, Uladzislava Khauratovich, Melissa A Toups, Vincent K
Bett, Andrea Mrnjavac, Ariana Macon, Christelle Fraisse, et al. “ZW Sex-Chromosome
Evolution and Contagious Parthenogenesis in Artemia Brine Shrimp.” Genetics.
Oxford University Press, 2022. https://doi.org/10.1093/genetics/iyac123.
ieee: M. N. Elkrewi et al., “ZW sex-chromosome evolution and contagious parthenogenesis
in Artemia brine shrimp,” Genetics, vol. 222, no. 2. Oxford University
Press, 2022.
ista: Elkrewi MN, Khauratovich U, Toups MA, Bett VK, Mrnjavac A, Macon A, Fraisse
C, Sax L, Huylmans AK, Hontoria F, Vicoso B. 2022. ZW sex-chromosome evolution
and contagious parthenogenesis in Artemia brine shrimp. Genetics. 222(2), iyac123.
mla: Elkrewi, Marwan N., et al. “ZW Sex-Chromosome Evolution and Contagious Parthenogenesis
in Artemia Brine Shrimp.” Genetics, vol. 222, no. 2, iyac123, Oxford University
Press, 2022, doi:10.1093/genetics/iyac123.
short: M.N. Elkrewi, U. Khauratovich, M.A. Toups, V.K. Bett, A. Mrnjavac, A. Macon,
C. Fraisse, L. Sax, A.K. Huylmans, F. Hontoria, B. Vicoso, Genetics 222 (2022).
date_created: 2023-01-16T09:56:10Z
date_published: 2022-10-01T00:00:00Z
date_updated: 2024-03-27T23:30:47Z
day: '01'
ddc:
- '570'
department:
- _id: BeVi
doi: 10.1093/genetics/iyac123
ec_funded: 1
external_id:
isi:
- '000850270300001'
pmid:
- '35977389'
file:
- access_level: open_access
checksum: f79ff5383e882ea3f95f3da47a78029d
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T08:59:58Z
date_updated: 2023-01-30T08:59:58Z
file_id: '12440'
file_name: 2022_Genetics_Elkrewi.pdf
file_size: 1347136
relation: main_file
success: 1
file_date_updated: 2023-01-30T08:59:58Z
has_accepted_license: '1'
intvolume: ' 222'
isi: 1
issue: '2'
keyword:
- Genetics
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 250BDE62-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715257'
name: Prevalence and Influence of Sexual Antagonism on Genome Evolution
- _id: 34ae1506-11ca-11ed-8bc3-c14f4c474396
grant_number: F8810
name: The highjacking of meiosis for asexual reproduction
publication: Genetics
publication_identifier:
issn:
- 1943-2631
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
related_material:
record:
- id: '11653'
relation: research_data
status: public
scopus_import: '1'
status: public
title: ZW sex-chromosome evolution and contagious parthenogenesis in Artemia brine
shrimp
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 222
year: '2022'
...
---
_id: '9908'
abstract:
- lang: eng
text: About eight million animal species are estimated to live on Earth, and all
except those belonging to one subphylum are invertebrates. Invertebrates are incredibly
diverse in their morphologies, life histories, and in the range of the ecological
niches that they occupy. A great variety of modes of reproduction and sex determination
systems is also observed among them, and their mosaic-distribution across the
phylogeny shows that transitions between them occur frequently and rapidly. Genetic
conflict in its various forms is a long-standing theory to explain what drives
those evolutionary transitions. Here, we review (1) the different modes of reproduction
among invertebrate species, highlighting sexual reproduction as the probable ancestral
state; (2) the paradoxical diversity of sex determination systems; (3) the different
types of genetic conflicts that could drive the evolution of such different systems.
article_number: '1136'
article_processing_charge: Yes
article_type: review
author:
- first_name: Marion A L
full_name: Picard, Marion A L
id: 2C921A7A-F248-11E8-B48F-1D18A9856A87
last_name: Picard
orcid: 0000-0002-8101-2518
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Stéphanie
full_name: Bertrand, Stéphanie
last_name: Bertrand
- first_name: Hector
full_name: Escriva, Hector
last_name: Escriva
citation:
ama: Picard MAL, Vicoso B, Bertrand S, Escriva H. Diversity of modes of reproduction
and sex determination systems in invertebrates, and the putative contribution
of genetic conflict. Genes. 2021;12(8). doi:10.3390/genes12081136
apa: Picard, M. A. L., Vicoso, B., Bertrand, S., & Escriva, H. (2021). Diversity
of modes of reproduction and sex determination systems in invertebrates, and the
putative contribution of genetic conflict. Genes. MDPI. https://doi.org/10.3390/genes12081136
chicago: Picard, Marion A L, Beatriz Vicoso, Stéphanie Bertrand, and Hector Escriva.
“Diversity of Modes of Reproduction and Sex Determination Systems in Invertebrates,
and the Putative Contribution of Genetic Conflict.” Genes. MDPI, 2021.
https://doi.org/10.3390/genes12081136.
ieee: M. A. L. Picard, B. Vicoso, S. Bertrand, and H. Escriva, “Diversity of modes
of reproduction and sex determination systems in invertebrates, and the putative
contribution of genetic conflict,” Genes, vol. 12, no. 8. MDPI, 2021.
ista: Picard MAL, Vicoso B, Bertrand S, Escriva H. 2021. Diversity of modes of reproduction
and sex determination systems in invertebrates, and the putative contribution
of genetic conflict. Genes. 12(8), 1136.
mla: Picard, Marion A. L., et al. “Diversity of Modes of Reproduction and Sex Determination
Systems in Invertebrates, and the Putative Contribution of Genetic Conflict.”
Genes, vol. 12, no. 8, 1136, MDPI, 2021, doi:10.3390/genes12081136.
short: M.A.L. Picard, B. Vicoso, S. Bertrand, H. Escriva, Genes 12 (2021).
date_created: 2021-08-15T22:01:27Z
date_published: 2021-08-01T00:00:00Z
date_updated: 2023-08-11T10:42:32Z
day: '01'
ddc:
- '570'
department:
- _id: BeVi
doi: 10.3390/genes12081136
ec_funded: 1
external_id:
isi:
- '000690475900001'
file:
- access_level: open_access
checksum: 744e60e56d290a96da3c91a9779f886f
content_type: application/pdf
creator: asandaue
date_created: 2021-08-16T09:49:35Z
date_updated: 2021-08-16T09:49:35Z
file_id: '9926'
file_name: 2021_Genes_Picard.pdf
file_size: 2297655
relation: main_file
success: 1
file_date_updated: 2021-08-16T09:49:35Z
has_accepted_license: '1'
intvolume: ' 12'
isi: 1
issue: '8'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 250BDE62-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715257'
name: Prevalence and Influence of Sexual Antagonism on Genome Evolution
publication: Genes
publication_identifier:
eissn:
- '20734425'
publication_status: published
publisher: MDPI
quality_controlled: '1'
scopus_import: '1'
status: public
title: Diversity of modes of reproduction and sex determination systems in invertebrates,
and the putative contribution of genetic conflict
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 12
year: '2021'
...
---
_id: '10167'
abstract:
- lang: eng
text: Schistosomes, the human parasites responsible for snail fever, are female-heterogametic.
Different parts of their ZW sex chromosomes have stopped recombining in distinct
lineages, creating “evolutionary strata” of various ages. Although the Z-chromosome
is well characterized at the genomic and molecular level, the W-chromosome has
remained largely unstudied from an evolutionary perspective, as only a few W-linked
genes have been detected outside of the model species Schistosoma mansoni. Here,
we characterize the gene content and evolution of the W-chromosomes of S. mansoni
and of the divergent species S. japonicum. We use a combined RNA/DNA k-mer based
pipeline to assemble around 100 candidate W-specific transcripts in each of the
species. About half of them map to known protein coding genes, the majority homologous
to S. mansoni Z-linked genes. We perform an extended analysis of the evolutionary
strata present in the two species (including characterizing a previously undetected
young stratum in S. japonicum) to infer patterns of sequence and expression evolution
of W-linked genes at different time points after recombination was lost. W-linked
genes show evidence of degeneration, including high rates of protein evolution
and reduced expression. Most are found in young lineage-specific strata, with
only a few high expression ancestral W-genes remaining, consistent with the progressive
erosion of nonrecombining regions. Among these, the splicing factor u2af2 stands
out as a promising candidate for primary sex determination, opening new avenues
for understanding the molecular basis of the reproductive biology of this group.
acknowledged_ssus:
- _id: ScienComp
acknowledgement: The authors thank IT support at IST Austria for providing an optimal
environment for bioinformatic analyses. This work was supported by an Austrian Science
Foundation FWF grant (Project P28842) to B.V.
article_processing_charge: No
article_type: original
author:
- first_name: Marwan N
full_name: Elkrewi, Marwan N
id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425
last_name: Elkrewi
orcid: 0000-0002-5328-7231
- first_name: Mikhail A.
full_name: Moldovan, Mikhail A.
id: c8bb7f32-3315-11ec-b58b-e5950e6c14a0
last_name: Moldovan
orcid: 0000-0002-8876-6494
- first_name: Marion A L
full_name: Picard, Marion A L
id: 2C921A7A-F248-11E8-B48F-1D18A9856A87
last_name: Picard
orcid: 0000-0002-8101-2518
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Elkrewi MN, Moldovan MA, Picard MAL, Vicoso B. Schistosome W-Linked genes inform
temporal dynamics of sex chromosome evolution and suggest candidate for sex determination.
Molecular Biology and Evolution. 2021. doi:10.1093/molbev/msab178
apa: Elkrewi, M. N., Moldovan, M. A., Picard, M. A. L., & Vicoso, B. (2021).
Schistosome W-Linked genes inform temporal dynamics of sex chromosome evolution
and suggest candidate for sex determination. Molecular Biology and Evolution.
Oxford University Press . https://doi.org/10.1093/molbev/msab178
chicago: Elkrewi, Marwan N, Mikhail A. Moldovan, Marion A L Picard, and Beatriz
Vicoso. “Schistosome W-Linked Genes Inform Temporal Dynamics of Sex Chromosome
Evolution and Suggest Candidate for Sex Determination.” Molecular Biology and
Evolution. Oxford University Press , 2021. https://doi.org/10.1093/molbev/msab178.
ieee: M. N. Elkrewi, M. A. Moldovan, M. A. L. Picard, and B. Vicoso, “Schistosome
W-Linked genes inform temporal dynamics of sex chromosome evolution and suggest
candidate for sex determination,” Molecular Biology and Evolution. Oxford
University Press , 2021.
ista: Elkrewi MN, Moldovan MA, Picard MAL, Vicoso B. 2021. Schistosome W-Linked
genes inform temporal dynamics of sex chromosome evolution and suggest candidate
for sex determination. Molecular Biology and Evolution.
mla: Elkrewi, Marwan N., et al. “Schistosome W-Linked Genes Inform Temporal Dynamics
of Sex Chromosome Evolution and Suggest Candidate for Sex Determination.” Molecular
Biology and Evolution, Oxford University Press , 2021, doi:10.1093/molbev/msab178.
short: M.N. Elkrewi, M.A. Moldovan, M.A.L. Picard, B. Vicoso, Molecular Biology
and Evolution (2021).
date_created: 2021-10-21T07:49:12Z
date_published: 2021-06-19T00:00:00Z
date_updated: 2023-08-14T08:03:06Z
day: '19'
ddc:
- '610'
department:
- _id: BeVi
doi: 10.1093/molbev/msab178
external_id:
isi:
- '000741368600009'
pmid:
- '34146097'
file:
- access_level: open_access
checksum: 1b096702fb356d9c0eb88e1b3fcff5f8
content_type: application/pdf
creator: dernst
date_created: 2022-05-06T09:47:18Z
date_updated: 2022-05-06T09:47:18Z
file_id: '11352'
file_name: 2021_MolecularBiolEvolution_Elkrewi.pdf
file_size: 1008594
relation: main_file
success: 1
file_date_updated: 2022-05-06T09:47:18Z
has_accepted_license: '1'
isi: 1
keyword:
- sex chromosomes
- evolutionary strata
- W-linked gene
- sex determining gene
- schistosome parasites
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 250ED89C-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P28842-B22
name: Sex chromosome evolution under male- and female- heterogamety
publication: Molecular Biology and Evolution
publication_identifier:
eissn:
- 1537-1719
issn:
- 0737-4038
publication_status: published
publisher: 'Oxford University Press '
quality_controlled: '1'
scopus_import: '1'
status: public
title: Schistosome W-Linked genes inform temporal dynamics of sex chromosome evolution
and suggest candidate for sex determination
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
year: '2021'
...
---
_id: '10166'
abstract:
- lang: eng
text: While sexual reproduction is widespread among many taxa, asexual lineages
have repeatedly evolved from sexual ancestors. Despite extensive research on the
evolution of sex, it is still unclear whether this switch represents a major transition
requiring major molecular reorganization, and how convergent the changes involved
are. In this study, we investigated the phylogenetic relationship and patterns
of gene expression of sexual and asexual lineages of Eurasian Artemia brine shrimp,
to assess how gene expression patterns are affected by the transition to asexuality.
We find only a few genes that are consistently associated with the evolution of
asexuality, suggesting that this shift may not require an extensive overhauling
of the meiotic machinery. While genes with sex-biased expression have high rates
of expression divergence within Eurasian Artemia, neither female- nor male-biased
genes appear to show unusual evolutionary patterns after sexuality is lost, contrary
to theoretical expectations.
acknowledged_ssus:
- _id: ScienComp
acknowledgement: We thank the Vicoso laboratory, Thomas Lenormand and Tanja Schwander
for helpful discussions, the group of Gonzalo Gajardo, especially Cristian Gallardo-Escárate
and Margarita Parraguez Donoso, for sequencing data and advice, and the IST Scientific
Computing Group for their support. This work was supported by the European Research
Council under the European Union's Horizon 2020 research and innovation program
(grant agreement no. 715257).
article_number: '20211720'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Ann K
full_name: Huylmans, Ann K
id: 4C0A3874-F248-11E8-B48F-1D18A9856A87
last_name: Huylmans
orcid: 0000-0001-8871-4961
- first_name: Ariana
full_name: Macon, Ariana
id: 2A0848E2-F248-11E8-B48F-1D18A9856A87
last_name: Macon
- first_name: Francisco
full_name: Hontoria, Francisco
last_name: Hontoria
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: 'Huylmans AK, Macon A, Hontoria F, Vicoso B. Transitions to asexuality and
evolution of gene expression in Artemia brine shrimp. Proceedings of the Royal
Society B: Biological Sciences. 2021;288(1959). doi:10.1098/rspb.2021.1720'
apa: 'Huylmans, A. K., Macon, A., Hontoria, F., & Vicoso, B. (2021). Transitions
to asexuality and evolution of gene expression in Artemia brine shrimp. Proceedings
of the Royal Society B: Biological Sciences. The Royal Society. https://doi.org/10.1098/rspb.2021.1720'
chicago: 'Huylmans, Ann K, Ariana Macon, Francisco Hontoria, and Beatriz Vicoso.
“Transitions to Asexuality and Evolution of Gene Expression in Artemia Brine Shrimp.”
Proceedings of the Royal Society B: Biological Sciences. The Royal Society,
2021. https://doi.org/10.1098/rspb.2021.1720.'
ieee: 'A. K. Huylmans, A. Macon, F. Hontoria, and B. Vicoso, “Transitions to asexuality
and evolution of gene expression in Artemia brine shrimp,” Proceedings of the
Royal Society B: Biological Sciences, vol. 288, no. 1959. The Royal Society,
2021.'
ista: 'Huylmans AK, Macon A, Hontoria F, Vicoso B. 2021. Transitions to asexuality
and evolution of gene expression in Artemia brine shrimp. Proceedings of the Royal
Society B: Biological Sciences. 288(1959), 20211720.'
mla: 'Huylmans, Ann K., et al. “Transitions to Asexuality and Evolution of Gene
Expression in Artemia Brine Shrimp.” Proceedings of the Royal Society B: Biological
Sciences, vol. 288, no. 1959, 20211720, The Royal Society, 2021, doi:10.1098/rspb.2021.1720.'
short: 'A.K. Huylmans, A. Macon, F. Hontoria, B. Vicoso, Proceedings of the Royal
Society B: Biological Sciences 288 (2021).'
date_created: 2021-10-21T07:46:06Z
date_published: 2021-09-22T00:00:00Z
date_updated: 2024-02-21T12:40:29Z
day: '22'
ddc:
- '595'
department:
- _id: BeVi
doi: 10.1098/rspb.2021.1720
ec_funded: 1
external_id:
isi:
- '000697643700001'
pmid:
- '34547909'
file:
- access_level: open_access
checksum: 76e7f253b7040bca2ad76f82bd7c45c0
content_type: application/pdf
creator: cchlebak
date_created: 2021-10-22T11:48:02Z
date_updated: 2021-10-22T11:48:02Z
file_id: '10172'
file_name: 2021_ProRoSocBBioSci_Huylmans.pdf
file_size: 995806
relation: main_file
success: 1
file_date_updated: 2021-10-22T11:48:02Z
has_accepted_license: '1'
intvolume: ' 288'
isi: 1
issue: '1959'
keyword:
- asexual reproduction
- parthenogenesis
- sex-biased genes
- sexual conflict
- automixis
- crustaceans
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 250BDE62-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715257'
name: Prevalence and Influence of Sexual Antagonism on Genome Evolution
publication: 'Proceedings of the Royal Society B: Biological Sciences'
publication_identifier:
eissn:
- 1471-2954
issn:
- 0962-8452
publication_status: published
publisher: The Royal Society
quality_controlled: '1'
related_material:
link:
- relation: supplementary_material
url: https://doi.org/10.6084/m9.figshare.c.5615488.v1
record:
- id: '9949'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Transitions to asexuality and evolution of gene expression in Artemia brine
shrimp
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 288
year: '2021'
...
---
_id: '9949'
article_processing_charge: No
author:
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Vicoso B. Data from Hyulmans et al 2021, “Transitions to asexuality and evolution
of gene expression in Artemia brine shrimp.” 2021. doi:10.15479/AT:ISTA:9949
apa: Vicoso, B. (2021). Data from Hyulmans et al 2021, “Transitions to asexuality
and evolution of gene expression in Artemia brine shrimp.” Institute of Science
and Technology Austria. https://doi.org/10.15479/AT:ISTA:9949
chicago: Vicoso, Beatriz. “Data from Hyulmans et Al 2021, ‘Transitions to Asexuality
and Evolution of Gene Expression in Artemia Brine Shrimp.’” Institute of Science
and Technology Austria, 2021. https://doi.org/10.15479/AT:ISTA:9949.
ieee: B. Vicoso, “Data from Hyulmans et al 2021, ‘Transitions to asexuality and
evolution of gene expression in Artemia brine shrimp.’” Institute of Science and
Technology Austria, 2021.
ista: Vicoso B. 2021. Data from Hyulmans et al 2021, ‘Transitions to asexuality
and evolution of gene expression in Artemia brine shrimp’, Institute of Science
and Technology Austria, 10.15479/AT:ISTA:9949.
mla: Vicoso, Beatriz. Data from Hyulmans et Al 2021, “Transitions to Asexuality
and Evolution of Gene Expression in Artemia Brine Shrimp.” Institute of Science
and Technology Austria, 2021, doi:10.15479/AT:ISTA:9949.
short: B. Vicoso, (2021).
date_created: 2021-08-21T13:44:22Z
date_published: 2021-08-24T00:00:00Z
date_updated: 2024-02-21T12:40:30Z
day: '24'
department:
- _id: BeVi
doi: 10.15479/AT:ISTA:9949
file:
- access_level: open_access
checksum: 90461837eed66beac6fa302993cf0ca9
content_type: application/zip
creator: bvicoso
date_created: 2021-08-21T13:43:59Z
date_updated: 2021-08-21T13:43:59Z
file_id: '9950'
file_name: Data.zip
file_size: 139188306
relation: main_file
success: 1
file_date_updated: 2021-08-21T13:43:59Z
has_accepted_license: '1'
month: '08'
oa: 1
oa_version: None
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '10166'
relation: used_in_publication
status: public
status: public
title: Data from Hyulmans et al 2021, "Transitions to asexuality and evolution of
gene expression in Artemia brine shrimp"
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '8099'
abstract:
- lang: eng
text: Sewall Wright developed FST for describing population differentiation and
it has since been extended to many novel applications, including the detection
of homomorphic sex chromosomes. However, there has been confusion regarding the
expected estimate of FST for a fixed difference between the X‐ and Y‐chromosome
when comparing males and females. Here, we attempt to resolve this confusion by
contrasting two common FST estimators and explain why they yield different estimates
when applied to the case of sex chromosomes. We show that this difference is true
for many allele frequencies, but the situation characterized by fixed differences
between the X‐ and Y‐chromosome is among the most extreme. To avoid additional
confusion, we recommend that all authors using FST clearly state which estimator
of FST their work uses.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: William J
full_name: Gammerdinger, William J
id: 3A7E01BC-F248-11E8-B48F-1D18A9856A87
last_name: Gammerdinger
orcid: 0000-0001-9638-1220
- first_name: Melissa A
full_name: Toups, Melissa A
id: 4E099E4E-F248-11E8-B48F-1D18A9856A87
last_name: Toups
orcid: 0000-0002-9752-7380
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: 'Gammerdinger WJ, Toups MA, Vicoso B. Disagreement in FST estimators: A case
study from sex chromosomes. Molecular Ecology Resources. 2020;20(6):1517-1525.
doi:10.1111/1755-0998.13210'
apa: 'Gammerdinger, W. J., Toups, M. A., & Vicoso, B. (2020). Disagreement in
FST estimators: A case study from sex chromosomes. Molecular Ecology Resources.
Wiley. https://doi.org/10.1111/1755-0998.13210'
chicago: 'Gammerdinger, William J, Melissa A Toups, and Beatriz Vicoso. “Disagreement
in FST Estimators: A Case Study from Sex Chromosomes.” Molecular Ecology Resources.
Wiley, 2020. https://doi.org/10.1111/1755-0998.13210.'
ieee: 'W. J. Gammerdinger, M. A. Toups, and B. Vicoso, “Disagreement in FST estimators:
A case study from sex chromosomes,” Molecular Ecology Resources, vol.
20, no. 6. Wiley, pp. 1517–1525, 2020.'
ista: 'Gammerdinger WJ, Toups MA, Vicoso B. 2020. Disagreement in FST estimators:
A case study from sex chromosomes. Molecular Ecology Resources. 20(6), 1517–1525.'
mla: 'Gammerdinger, William J., et al. “Disagreement in FST Estimators: A Case Study
from Sex Chromosomes.” Molecular Ecology Resources, vol. 20, no. 6, Wiley,
2020, pp. 1517–25, doi:10.1111/1755-0998.13210.'
short: W.J. Gammerdinger, M.A. Toups, B. Vicoso, Molecular Ecology Resources 20
(2020) 1517–1525.
date_created: 2020-07-07T08:56:16Z
date_published: 2020-11-01T00:00:00Z
date_updated: 2023-09-05T16:07:08Z
day: '01'
ddc:
- '570'
department:
- _id: BeVi
doi: 10.1111/1755-0998.13210
ec_funded: 1
external_id:
isi:
- '000545451200001'
pmid:
- '32543001'
file:
- access_level: open_access
checksum: 3d87ebb8757dcd504f20c618b72e6575
content_type: application/pdf
creator: dernst
date_created: 2020-11-26T11:46:43Z
date_updated: 2020-11-26T11:46:43Z
file_id: '8814'
file_name: 2020_MolecularEcologyRes_Gammerdinger.pdf
file_size: 820428
relation: main_file
success: 1
file_date_updated: 2020-11-26T11:46:43Z
has_accepted_license: '1'
intvolume: ' 20'
isi: 1
issue: '6'
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
page: 1517-1525
pmid: 1
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
- _id: 250ED89C-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P28842-B22
name: Sex chromosome evolution under male- and female- heterogamety
publication: Molecular Ecology Resources
publication_identifier:
eissn:
- 1755-0998
issn:
- 1755-098X
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Disagreement in FST estimators: A case study from sex chromosomes'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 20
year: '2020'
...
---
_id: '6755'
abstract:
- lang: eng
text: 'Differentiated sex chromosomes are accompanied by a difference in gene dose
between X/Z-specific and autosomal genes. At the transcriptomic level, these sex-linked
genes can lead to expression imbalance, or gene dosage can be compensated by epigenetic
mechanisms and results into expression level equalization. Schistosoma mansoni
has been previously described as a ZW species (i.e., female heterogamety, in opposition
to XY male heterogametic species) with a partial dosage compensation, but underlying
mechanisms are still unexplored. Here, we combine transcriptomic (RNA-Seq) and
epigenetic data (ChIP-Seq against H3K4me3, H3K27me3,andH4K20me1histonemarks) in
free larval cercariae and intravertebrate parasitic stages. For the first time,
we describe differences in dosage compensation status in ZW females, depending
on the parasitic status: free cercariae display global dosage compensation, whereas
intravertebrate stages show a partial dosage compensation. We also highlight regional
differences of gene expression along the Z chromosome in cercariae, but not in
the intravertebrate stages. Finally, we feature a consistent permissive chromatin
landscape of the Z chromosome in both sexes and stages. We argue that dosage compensation
in schistosomes is characterized by chromatin remodeling mechanisms in the Z-specific
region.'
acknowledged_ssus:
- _id: CampIT
article_processing_charge: No
article_type: original
author:
- first_name: Marion A L
full_name: Picard, Marion A L
id: 2C921A7A-F248-11E8-B48F-1D18A9856A87
last_name: Picard
orcid: 0000-0002-8101-2518
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: David
full_name: Roquis, David
last_name: Roquis
- first_name: Ingo
full_name: Bulla, Ingo
last_name: Bulla
- first_name: Ronaldo C.
full_name: Augusto, Ronaldo C.
last_name: Augusto
- first_name: Nathalie
full_name: Arancibia, Nathalie
last_name: Arancibia
- first_name: Christoph
full_name: Grunau, Christoph
last_name: Grunau
- first_name: Jérôme
full_name: Boissier, Jérôme
last_name: Boissier
- first_name: Céline
full_name: Cosseau, Céline
last_name: Cosseau
citation:
ama: 'Picard MAL, Vicoso B, Roquis D, et al. Dosage compensation throughout the
Schistosoma mansoni lifecycle: Specific chromatin landscape of the Z chromosome.
Genome biology and evolution. 2019;11(7):1909-1922. doi:10.1093/gbe/evz133'
apa: 'Picard, M. A. L., Vicoso, B., Roquis, D., Bulla, I., Augusto, R. C., Arancibia,
N., … Cosseau, C. (2019). Dosage compensation throughout the Schistosoma mansoni
lifecycle: Specific chromatin landscape of the Z chromosome. Genome Biology
and Evolution. Oxford Academic Press. https://doi.org/10.1093/gbe/evz133'
chicago: 'Picard, Marion A L, Beatriz Vicoso, David Roquis, Ingo Bulla, Ronaldo
C. Augusto, Nathalie Arancibia, Christoph Grunau, Jérôme Boissier, and Céline
Cosseau. “Dosage Compensation throughout the Schistosoma Mansoni Lifecycle: Specific
Chromatin Landscape of the Z Chromosome.” Genome Biology and Evolution.
Oxford Academic Press, 2019. https://doi.org/10.1093/gbe/evz133.'
ieee: 'M. A. L. Picard et al., “Dosage compensation throughout the Schistosoma
mansoni lifecycle: Specific chromatin landscape of the Z chromosome,” Genome
biology and evolution, vol. 11, no. 7. Oxford Academic Press, pp. 1909–1922,
2019.'
ista: 'Picard MAL, Vicoso B, Roquis D, Bulla I, Augusto RC, Arancibia N, Grunau
C, Boissier J, Cosseau C. 2019. Dosage compensation throughout the Schistosoma
mansoni lifecycle: Specific chromatin landscape of the Z chromosome. Genome biology
and evolution. 11(7), 1909–1922.'
mla: 'Picard, Marion A. L., et al. “Dosage Compensation throughout the Schistosoma
Mansoni Lifecycle: Specific Chromatin Landscape of the Z Chromosome.” Genome
Biology and Evolution, vol. 11, no. 7, Oxford Academic Press, 2019, pp. 1909–22,
doi:10.1093/gbe/evz133.'
short: M.A.L. Picard, B. Vicoso, D. Roquis, I. Bulla, R.C. Augusto, N. Arancibia,
C. Grunau, J. Boissier, C. Cosseau, Genome Biology and Evolution 11 (2019) 1909–1922.
date_created: 2019-08-04T21:59:18Z
date_published: 2019-07-01T00:00:00Z
date_updated: 2023-08-29T06:53:58Z
day: '01'
ddc:
- '570'
department:
- _id: BeVi
doi: 10.1093/gbe/evz133
external_id:
isi:
- '000484039500018'
pmid:
- '31273378'
file:
- access_level: open_access
checksum: f9e8f6863a406dcc5a36b2be001c138c
content_type: application/pdf
creator: dernst
date_created: 2019-08-05T07:55:02Z
date_updated: 2020-07-14T12:47:39Z
file_id: '6765'
file_name: 2019_GenomeBiology_Picard.pdf
file_size: 580205
relation: main_file
file_date_updated: 2020-07-14T12:47:39Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
issue: '7'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 1909-1922
pmid: 1
publication: Genome biology and evolution
publication_identifier:
eissn:
- 1759-6653
publication_status: published
publisher: Oxford Academic Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Dosage compensation throughout the Schistosoma mansoni lifecycle: Specific
chromatin landscape of the Z chromosome'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 11
year: '2019'
...
---
_id: '7146'
abstract:
- lang: eng
text: Prevailing models of sex-chromosome evolution were largely inspired by the
stable and highly differentiated XY pairs of model organisms, such as those of
mammals and flies. Recent work has uncovered an incredible diversity of sex-determining
systems, bringing some of the assumptions of these traditional models into question.
One particular question that has arisen is what drives some sex chromosomes to
be maintained over millions of years and differentiate fully, while others are
replaced by new sex-determining chromosomes before differentiation has occurred.
Here, I review recent data on the variability of sex-determining genes and sex
chromosomes in different non-model vertebrates and invertebrates, and discuss
some theoretical models that have been put forward to account for this diversity.
article_processing_charge: No
article_type: original
author:
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Vicoso B. Molecular and evolutionary dynamics of animal sex-chromosome turnover.
Nature Ecology & Evolution. 2019;3(12):1632-1641. doi:10.1038/s41559-019-1050-8
apa: Vicoso, B. (2019). Molecular and evolutionary dynamics of animal sex-chromosome
turnover. Nature Ecology & Evolution. Springer Nature. https://doi.org/10.1038/s41559-019-1050-8
chicago: Vicoso, Beatriz. “Molecular and Evolutionary Dynamics of Animal Sex-Chromosome
Turnover.” Nature Ecology & Evolution. Springer Nature, 2019. https://doi.org/10.1038/s41559-019-1050-8.
ieee: B. Vicoso, “Molecular and evolutionary dynamics of animal sex-chromosome turnover,”
Nature Ecology & Evolution, vol. 3, no. 12. Springer Nature, pp. 1632–1641,
2019.
ista: Vicoso B. 2019. Molecular and evolutionary dynamics of animal sex-chromosome
turnover. Nature Ecology & Evolution. 3(12), 1632–1641.
mla: Vicoso, Beatriz. “Molecular and Evolutionary Dynamics of Animal Sex-Chromosome
Turnover.” Nature Ecology & Evolution, vol. 3, no. 12, Springer Nature,
2019, pp. 1632–41, doi:10.1038/s41559-019-1050-8.
short: B. Vicoso, Nature Ecology & Evolution 3 (2019) 1632–1641.
date_created: 2019-12-04T16:05:25Z
date_published: 2019-11-25T00:00:00Z
date_updated: 2023-09-06T11:18:59Z
day: '25'
department:
- _id: BeVi
doi: 10.1038/s41559-019-1050-8
ec_funded: 1
external_id:
isi:
- '000500728800009'
intvolume: ' 3'
isi: 1
issue: '12'
language:
- iso: eng
month: '11'
oa_version: None
page: 1632-1641
project:
- _id: 250BDE62-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715257'
name: Prevalence and Influence of Sexual Antagonism on Genome Evolution
publication: Nature Ecology & Evolution
publication_identifier:
issn:
- 2397-334X
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Molecular and evolutionary dynamics of animal sex-chromosome turnover
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 3
year: '2019'
...
---
_id: '6621'
abstract:
- lang: eng
text: We read with great interest the recent work in PNAS by Bergero et al. (1)
describing differences in male and female recombination patterns on the guppy
(Poecilia reticulata) sex chromosome. We fully agree that recombination in males
is largely confined to the ends of the sex chromosome. Bergero et al. interpret
these results to suggest that our previous findings of population-level variation
in the degree of sex chromosome differentiation in this species (2) are incorrect.
However, we suggest that their results are entirely consistent with our previous
report, and that their interpretation presents a false controversy.
article_processing_charge: No
article_type: letter_note
author:
- first_name: Alison E.
full_name: Wright, Alison E.
last_name: Wright
- first_name: Iulia
full_name: Darolti, Iulia
last_name: Darolti
- first_name: Natasha I.
full_name: Bloch, Natasha I.
last_name: Bloch
- first_name: Vicencio
full_name: Oostra, Vicencio
last_name: Oostra
- first_name: Benjamin A.
full_name: Sandkam, Benjamin A.
last_name: Sandkam
- first_name: Séverine D.
full_name: Buechel, Séverine D.
last_name: Buechel
- first_name: Niclas
full_name: Kolm, Niclas
last_name: Kolm
- first_name: Felix
full_name: Breden, Felix
last_name: Breden
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Judith E.
full_name: Mank, Judith E.
last_name: Mank
citation:
ama: Wright AE, Darolti I, Bloch NI, et al. On the power to detect rare recombination
events. Proceedings of the National Academy of Sciences of the United States
of America. 2019;116(26):12607-12608. doi:10.1073/pnas.1905555116
apa: Wright, A. E., Darolti, I., Bloch, N. I., Oostra, V., Sandkam, B. A., Buechel,
S. D., … Mank, J. E. (2019). On the power to detect rare recombination events.
Proceedings of the National Academy of Sciences of the United States of America.
Proceedings of the National Academy of Sciences. https://doi.org/10.1073/pnas.1905555116
chicago: Wright, Alison E., Iulia Darolti, Natasha I. Bloch, Vicencio Oostra, Benjamin
A. Sandkam, Séverine D. Buechel, Niclas Kolm, Felix Breden, Beatriz Vicoso, and
Judith E. Mank. “On the Power to Detect Rare Recombination Events.” Proceedings
of the National Academy of Sciences of the United States of America. Proceedings
of the National Academy of Sciences, 2019. https://doi.org/10.1073/pnas.1905555116.
ieee: A. E. Wright et al., “On the power to detect rare recombination events,”
Proceedings of the National Academy of Sciences of the United States of America,
vol. 116, no. 26. Proceedings of the National Academy of Sciences, pp. 12607–12608,
2019.
ista: Wright AE, Darolti I, Bloch NI, Oostra V, Sandkam BA, Buechel SD, Kolm N,
Breden F, Vicoso B, Mank JE. 2019. On the power to detect rare recombination events.
Proceedings of the National Academy of Sciences of the United States of America.
116(26), 12607–12608.
mla: Wright, Alison E., et al. “On the Power to Detect Rare Recombination Events.”
Proceedings of the National Academy of Sciences of the United States of America,
vol. 116, no. 26, Proceedings of the National Academy of Sciences, 2019, pp. 12607–08,
doi:10.1073/pnas.1905555116.
short: A.E. Wright, I. Darolti, N.I. Bloch, V. Oostra, B.A. Sandkam, S.D. Buechel,
N. Kolm, F. Breden, B. Vicoso, J.E. Mank, Proceedings of the National Academy
of Sciences of the United States of America 116 (2019) 12607–12608.
date_created: 2019-07-07T21:59:25Z
date_published: 2019-06-25T00:00:00Z
date_updated: 2023-10-17T12:44:15Z
day: '25'
department:
- _id: BeVi
doi: 10.1073/pnas.1905555116
external_id:
isi:
- '000472719100010'
pmid:
- '31213531'
intvolume: ' 116'
isi: 1
issue: '26'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1073/pnas.1905555116
month: '06'
oa: 1
oa_version: Published Version
page: 12607-12608
pmid: 1
publication: Proceedings of the National Academy of Sciences of the United States
of America
publication_status: published
publisher: Proceedings of the National Academy of Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: On the power to detect rare recombination events
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 116
year: '2019'
...
---
_id: '6418'
abstract:
- lang: eng
text: Males and females of Artemia franciscana, a crustacean commonly used in the
aquarium trade, are highly dimorphic. Sex is determined by a pair of ZW chromosomes,
but the nature and extent of differentiation of these chromosomes is unknown.
Here, we characterize the Z chromosome by detecting genomic regions that show
lower genomic coverage in female than in male samples, and regions that harbor
an excess of female-specific SNPs. We detect many Z-specific genes, which no longer
have homologs on the W, but also Z-linked genes that appear to have diverged very
recently from their existing W-linked homolog. We assess patterns of male and
female expression in two tissues with extensive morphological dimorphism, gonads,
and heads. In agreement with their morphology, sex-biased expression is common
in both tissues. Interestingly, the Z chromosome is not enriched for sex-biased
genes, and seems to in fact have a mechanism of dosage compensation that leads
to equal expression in males and in females. Both of these patterns are contrary
to most ZW systems studied so far, making A. franciscana an excellent model for
investigating the interplay between the evolution of sexual dimorphism and dosage
compensation, as well as Z chromosome evolution in general.
acknowledged_ssus:
- _id: ScienComp
article_processing_charge: No
author:
- first_name: Ann K
full_name: Huylmans, Ann K
id: 4C0A3874-F248-11E8-B48F-1D18A9856A87
last_name: Huylmans
orcid: 0000-0001-8871-4961
- first_name: Melissa A
full_name: Toups, Melissa A
id: 4E099E4E-F248-11E8-B48F-1D18A9856A87
last_name: Toups
orcid: 0000-0002-9752-7380
- first_name: Ariana
full_name: Macon, Ariana
id: 2A0848E2-F248-11E8-B48F-1D18A9856A87
last_name: Macon
- first_name: William J
full_name: Gammerdinger, William J
id: 3A7E01BC-F248-11E8-B48F-1D18A9856A87
last_name: Gammerdinger
orcid: 0000-0001-9638-1220
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Huylmans AK, Toups MA, Macon A, Gammerdinger WJ, Vicoso B. Sex-biased gene
expression and dosage compensation on the Artemia franciscana Z-chromosome. Genome
biology and evolution. 2019;11(4):1033-1044. doi:10.1093/gbe/evz053
apa: Huylmans, A. K., Toups, M. A., Macon, A., Gammerdinger, W. J., & Vicoso,
B. (2019). Sex-biased gene expression and dosage compensation on the Artemia franciscana
Z-chromosome. Genome Biology and Evolution. Oxford University Press. https://doi.org/10.1093/gbe/evz053
chicago: Huylmans, Ann K, Melissa A Toups, Ariana Macon, William J Gammerdinger,
and Beatriz Vicoso. “Sex-Biased Gene Expression and Dosage Compensation on the
Artemia Franciscana Z-Chromosome.” Genome Biology and Evolution. Oxford
University Press, 2019. https://doi.org/10.1093/gbe/evz053.
ieee: A. K. Huylmans, M. A. Toups, A. Macon, W. J. Gammerdinger, and B. Vicoso,
“Sex-biased gene expression and dosage compensation on the Artemia franciscana
Z-chromosome,” Genome biology and evolution, vol. 11, no. 4. Oxford University
Press, pp. 1033–1044, 2019.
ista: Huylmans AK, Toups MA, Macon A, Gammerdinger WJ, Vicoso B. 2019. Sex-biased
gene expression and dosage compensation on the Artemia franciscana Z-chromosome.
Genome biology and evolution. 11(4), 1033–1044.
mla: Huylmans, Ann K., et al. “Sex-Biased Gene Expression and Dosage Compensation
on the Artemia Franciscana Z-Chromosome.” Genome Biology and Evolution,
vol. 11, no. 4, Oxford University Press, 2019, pp. 1033–44, doi:10.1093/gbe/evz053.
short: A.K. Huylmans, M.A. Toups, A. Macon, W.J. Gammerdinger, B. Vicoso, Genome
Biology and Evolution 11 (2019) 1033–1044.
date_created: 2019-05-13T07:58:38Z
date_published: 2019-04-01T00:00:00Z
date_updated: 2024-02-21T12:45:41Z
day: '01'
ddc:
- '570'
department:
- _id: BeVi
doi: 10.1093/gbe/evz053
ec_funded: 1
external_id:
isi:
- '000476569800003'
file:
- access_level: open_access
checksum: 7d0ede297b6741f3dc89cd59017c7642
content_type: application/pdf
creator: dernst
date_created: 2019-05-14T08:29:38Z
date_updated: 2020-07-14T12:47:29Z
file_id: '6446'
file_name: 2019_GBE_Huylmans.pdf
file_size: 1256303
relation: main_file
file_date_updated: 2020-07-14T12:47:29Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
issue: '4'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 1033-1044
project:
- _id: 250BDE62-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715257'
name: Prevalence and Influence of Sexual Antagonism on Genome Evolution
publication: Genome biology and evolution
publication_identifier:
eissn:
- 1759-6653
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
related_material:
record:
- id: '6060'
relation: popular_science
status: public
scopus_import: '1'
status: public
title: Sex-biased gene expression and dosage compensation on the Artemia franciscana
Z-chromosome
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 11
year: '2019'
...
---
_id: '6060'
article_processing_charge: No
author:
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Vicoso B. Supplementary data for “Sex-biased gene expression and dosage compensation
on the Artemia franciscana Z-chromosome” (Huylman, Toups et al., 2019). . 2019.
doi:10.15479/AT:ISTA:6060
apa: Vicoso, B. (2019). Supplementary data for “Sex-biased gene expression and dosage
compensation on the Artemia franciscana Z-chromosome” (Huylman, Toups et al.,
2019). . Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:6060
chicago: Vicoso, Beatriz. “Supplementary Data for ‘Sex-Biased Gene Expression and
Dosage Compensation on the Artemia Franciscana Z-Chromosome’ (Huylman, Toups et
Al., 2019). .” Institute of Science and Technology Austria, 2019. https://doi.org/10.15479/AT:ISTA:6060.
ieee: B. Vicoso, “Supplementary data for ‘Sex-biased gene expression and dosage
compensation on the Artemia franciscana Z-chromosome’ (Huylman, Toups et al.,
2019). .” Institute of Science and Technology Austria, 2019.
ista: Vicoso B. 2019. Supplementary data for ‘Sex-biased gene expression and dosage
compensation on the Artemia franciscana Z-chromosome’ (Huylman, Toups et al.,
2019). , Institute of Science and Technology Austria, 10.15479/AT:ISTA:6060.
mla: Vicoso, Beatriz. Supplementary Data for “Sex-Biased Gene Expression and
Dosage Compensation on the Artemia Franciscana Z-Chromosome” (Huylman, Toups et
Al., 2019). . Institute of Science and Technology Austria, 2019, doi:10.15479/AT:ISTA:6060.
short: B. Vicoso, (2019).
date_created: 2019-02-28T10:55:15Z
date_published: 2019-02-28T00:00:00Z
date_updated: 2024-02-21T12:45:42Z
day: '28'
department:
- _id: BeVi
doi: 10.15479/AT:ISTA:6060
file:
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checksum: a338a622d728af0e3199cb07e6dd64d3
content_type: application/zip
creator: bvicoso
date_created: 2019-02-28T10:54:27Z
date_updated: 2020-07-14T12:47:17Z
file_id: '6061'
file_name: SupData.zip
file_size: 36646050
relation: main_file
file_date_updated: 2020-07-14T12:47:17Z
has_accepted_license: '1'
month: '02'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '6418'
relation: research_paper
status: public
status: public
title: 'Supplementary data for "Sex-biased gene expression and dosage compensation
on the Artemia franciscana Z-chromosome" (Huylman, Toups et al., 2019). '
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2019'
...
---
_id: '6089'
abstract:
- lang: eng
text: Pleiotropy is the well-established idea that a single mutation affects multiple
phenotypes. If a mutation has opposite effects on fitness when expressed in different
contexts, then genetic conflict arises. Pleiotropic conflict is expected to reduce
the efficacy of selection by limiting the fixation of beneficial mutations through
adaptation, and the removal of deleterious mutations through purifying selection.
Although this has been widely discussed, in particular in the context of a putative
“gender load,” it has yet to be systematically quantified. In this work, we empirically
estimate to which extent different pleiotropic regimes impede the efficacy of
selection in Drosophila melanogaster. We use whole-genome polymorphism data from
a single African population and divergence data from D. simulans to estimate the
fraction of adaptive fixations (α), the rate of adaptation (ωA), and the direction
of selection (DoS). After controlling for confounding covariates, we find that
the different pleiotropic regimes have a relatively small, but significant, effect
on selection efficacy. Specifically, our results suggest that pleiotropic sexual
antagonism may restrict the efficacy of selection, but that this conflict can
be resolved by limiting the expression of genes to the sex where they are beneficial.
Intermediate levels of pleiotropy across tissues and life stages can also lead
to maladaptation in D. melanogaster, due to inefficient purifying selection combined
with low frequency of mutations that confer a selective advantage. Thus, our study
highlights the need to consider the efficacy of selection in the context of antagonistic
pleiotropy, and of genetic conflict in general.
article_processing_charge: No
author:
- first_name: Christelle
full_name: Fraisse, Christelle
id: 32DF5794-F248-11E8-B48F-1D18A9856A87
last_name: Fraisse
orcid: 0000-0001-8441-5075
- first_name: Gemma
full_name: Puixeu Sala, Gemma
id: 33AB266C-F248-11E8-B48F-1D18A9856A87
last_name: Puixeu Sala
orcid: 0000-0001-8330-1754
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Fraisse C, Puixeu Sala G, Vicoso B. Pleiotropy modulates the efficacy of selection
in drosophila melanogaster. Molecular biology and evolution. 2019;36(3):500-515.
doi:10.1093/molbev/msy246
apa: Fraisse, C., Puixeu Sala, G., & Vicoso, B. (2019). Pleiotropy modulates
the efficacy of selection in drosophila melanogaster. Molecular Biology and
Evolution. Oxford University Press. https://doi.org/10.1093/molbev/msy246
chicago: Fraisse, Christelle, Gemma Puixeu Sala, and Beatriz Vicoso. “Pleiotropy
Modulates the Efficacy of Selection in Drosophila Melanogaster.” Molecular
Biology and Evolution. Oxford University Press, 2019. https://doi.org/10.1093/molbev/msy246.
ieee: C. Fraisse, G. Puixeu Sala, and B. Vicoso, “Pleiotropy modulates the efficacy
of selection in drosophila melanogaster,” Molecular biology and evolution,
vol. 36, no. 3. Oxford University Press, pp. 500–515, 2019.
ista: Fraisse C, Puixeu Sala G, Vicoso B. 2019. Pleiotropy modulates the efficacy
of selection in drosophila melanogaster. Molecular biology and evolution. 36(3),
500–515.
mla: Fraisse, Christelle, et al. “Pleiotropy Modulates the Efficacy of Selection
in Drosophila Melanogaster.” Molecular Biology and Evolution, vol. 36,
no. 3, Oxford University Press, 2019, pp. 500–15, doi:10.1093/molbev/msy246.
short: C. Fraisse, G. Puixeu Sala, B. Vicoso, Molecular Biology and Evolution 36
(2019) 500–515.
date_created: 2019-03-10T22:59:19Z
date_published: 2019-03-01T00:00:00Z
date_updated: 2024-02-21T13:59:17Z
day: '01'
department:
- _id: BeVi
- _id: NiBa
doi: 10.1093/molbev/msy246
external_id:
isi:
- '000462585100006'
pmid:
- '30590559'
intvolume: ' 36'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pubmed/30590559
month: '03'
oa: 1
oa_version: Submitted Version
page: 500-515
pmid: 1
project:
- _id: 250ED89C-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P28842-B22
name: Sex chromosome evolution under male- and female- heterogamety
publication: Molecular biology and evolution
publication_identifier:
eissn:
- 1537-1719
issn:
- 0737-4038
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
related_material:
record:
- id: '5757'
relation: popular_science
status: public
scopus_import: '1'
status: public
title: Pleiotropy modulates the efficacy of selection in drosophila melanogaster
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 36
year: '2019'
...
---
_id: '131'
abstract:
- lang: eng
text: 'XY systems usually show chromosome-wide compensation of X-linked genes, while
in many ZW systems, compensation is restricted to a minority of dosage-sensitive
genes. Why such differences arose is still unclear. Here, we combine comparative
genomics, transcriptomics and proteomics to obtain a complete overview of the
evolution of gene dosage on the Z-chromosome of Schistosoma parasites. We compare
the Z-chromosome gene content of African (Schistosoma mansoni and S. haematobium)
and Asian (S. japonicum) schistosomes and describe lineage-specific evolutionary
strata. We use these to assess gene expression evolution following sex-linkage.
The resulting patterns suggest a reduction in expression of Z-linked genes in
females, combined with upregulation of the Z in both sexes, in line with the first
step of Ohno’s classic model of dosage compensation evolution. Quantitative proteomics
suggest that post-transcriptional mechanisms do not play a major role in balancing
the expression of Z-linked genes. '
acknowledgement: We are grateful to Lu Dabing (Soochow University, Suzhou, China)
for providing Schistosoma japonicum samples, to Ariana Macon (IST Austria) and Georgette
Stovall (JLU Giessen) for technical assistance, to IT support at IST Austria for
providing optimal environment to bioinformatic analyses, and to the Vicoso lab for
comments on the manuscript.
article_number: e35684
article_processing_charge: No
article_type: original
author:
- first_name: Marion A
full_name: Picard, Marion A
id: 2C921A7A-F248-11E8-B48F-1D18A9856A87
last_name: Picard
orcid: 0000-0002-8101-2518
- first_name: Celine
full_name: Cosseau, Celine
last_name: Cosseau
- first_name: Sabrina
full_name: Ferré, Sabrina
last_name: Ferré
- first_name: Thomas
full_name: Quack, Thomas
last_name: Quack
- first_name: Christoph
full_name: Grevelding, Christoph
last_name: Grevelding
- first_name: Yohann
full_name: Couté, Yohann
last_name: Couté
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Picard MAL, Cosseau C, Ferré S, et al. Evolution of gene dosage on the Z-chromosome
of schistosome parasites. eLife. 2018;7. doi:10.7554/eLife.35684
apa: Picard, M. A. L., Cosseau, C., Ferré, S., Quack, T., Grevelding, C., Couté,
Y., & Vicoso, B. (2018). Evolution of gene dosage on the Z-chromosome of schistosome
parasites. ELife. eLife Sciences Publications. https://doi.org/10.7554/eLife.35684
chicago: Picard, Marion A L, Celine Cosseau, Sabrina Ferré, Thomas Quack, Christoph
Grevelding, Yohann Couté, and Beatriz Vicoso. “Evolution of Gene Dosage on the
Z-Chromosome of Schistosome Parasites.” ELife. eLife Sciences Publications,
2018. https://doi.org/10.7554/eLife.35684.
ieee: M. A. L. Picard et al., “Evolution of gene dosage on the Z-chromosome
of schistosome parasites,” eLife, vol. 7. eLife Sciences Publications,
2018.
ista: Picard MAL, Cosseau C, Ferré S, Quack T, Grevelding C, Couté Y, Vicoso B.
2018. Evolution of gene dosage on the Z-chromosome of schistosome parasites. eLife.
7, e35684.
mla: Picard, Marion A. L., et al. “Evolution of Gene Dosage on the Z-Chromosome
of Schistosome Parasites.” ELife, vol. 7, e35684, eLife Sciences Publications,
2018, doi:10.7554/eLife.35684.
short: M.A.L. Picard, C. Cosseau, S. Ferré, T. Quack, C. Grevelding, Y. Couté, B.
Vicoso, ELife 7 (2018).
date_created: 2018-12-11T11:44:47Z
date_published: 2018-08-13T00:00:00Z
date_updated: 2024-02-21T13:45:12Z
day: '13'
ddc:
- '570'
department:
- _id: BeVi
doi: 10.7554/eLife.35684
external_id:
isi:
- '000441388200001'
file:
- access_level: open_access
checksum: d6331d4385b1fffd6b47b45d5949d841
content_type: application/pdf
creator: dernst
date_created: 2018-12-17T11:55:05Z
date_updated: 2020-07-14T12:44:43Z
file_id: '5695'
file_name: 2018_eLife_Picard.pdf
file_size: 3158125
relation: main_file
file_date_updated: 2020-07-14T12:44:43Z
has_accepted_license: '1'
intvolume: ' 7'
isi: 1
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 250ED89C-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P28842-B22
name: Sex chromosome evolution under male- and female- heterogamety
publication: eLife
publication_status: published
publisher: eLife Sciences Publications
publist_id: '7792'
quality_controlled: '1'
related_material:
record:
- id: '5586'
relation: popular_science
status: public
scopus_import: '1'
status: public
title: Evolution of gene dosage on the Z-chromosome of schistosome parasites
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 7
year: '2018'
...
---
_id: '5586'
abstract:
- lang: eng
text: Input files and scripts from "Evolution of gene dosage on the Z-chromosome
of schistosome parasites" by Picard M.A.L., et al (2018).
article_processing_charge: No
author:
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Vicoso B. Input files and scripts from “Evolution of gene dosage on the Z-chromosome
of schistosome parasites” by Picard M.A.L., et al (2018). 2018. doi:10.15479/AT:ISTA:109
apa: Vicoso, B. (2018). Input files and scripts from “Evolution of gene dosage on
the Z-chromosome of schistosome parasites” by Picard M.A.L., et al (2018). Institute
of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:109
chicago: Vicoso, Beatriz. “Input Files and Scripts from ‘Evolution of Gene Dosage
on the Z-Chromosome of Schistosome Parasites’ by Picard M.A.L., et Al (2018).”
Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:109.
ieee: B. Vicoso, “Input files and scripts from ‘Evolution of gene dosage on the
Z-chromosome of schistosome parasites’ by Picard M.A.L., et al (2018).” Institute
of Science and Technology Austria, 2018.
ista: Vicoso B. 2018. Input files and scripts from ‘Evolution of gene dosage on
the Z-chromosome of schistosome parasites’ by Picard M.A.L., et al (2018), Institute
of Science and Technology Austria, 10.15479/AT:ISTA:109.
mla: Vicoso, Beatriz. Input Files and Scripts from “Evolution of Gene Dosage
on the Z-Chromosome of Schistosome Parasites” by Picard M.A.L., et Al (2018).
Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:109.
short: B. Vicoso, (2018).
contributor:
- first_name: Marion A
id: 2C921A7A-F248-11E8-B48F-1D18A9856A87
last_name: Picard
orcid: 0000-0002-8101-2518
datarep_id: '109'
date_created: 2018-12-12T12:31:40Z
date_published: 2018-07-24T00:00:00Z
date_updated: 2024-02-21T13:45:12Z
day: '24'
ddc:
- '570'
department:
- _id: BeVi
doi: 10.15479/AT:ISTA:109
file:
- access_level: open_access
checksum: e60b484bd6f55c08eb66a189cb72c923
content_type: application/zip
creator: system
date_created: 2018-12-12T13:02:35Z
date_updated: 2020-07-14T12:47:08Z
file_id: '5601'
file_name: IST-2018-109-v1+1_SupplementaryMethods.zip
file_size: 11918144
relation: main_file
file_date_updated: 2020-07-14T12:47:08Z
has_accepted_license: '1'
keyword:
- schistosoma
- Z-chromosome
- gene expression
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 250ED89C-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P28842-B22
name: Sex chromosome evolution under male- and female- heterogamety
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '131'
relation: research_paper
status: public
status: public
title: Input files and scripts from "Evolution of gene dosage on the Z-chromosome
of schistosome parasites" by Picard M.A.L., et al (2018)
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2018'
...
---
_id: '542'
abstract:
- lang: eng
text: The t-haplotype, a mouse meiotic driver found on chromosome 17, has been a
model for autosomal segregation distortion for close to a century, but several
questions remain regarding its biology and evolutionary history. A recently published
set of population genomics resources for wild mice includes several individuals
heterozygous for the t-haplotype, which we use to characterize this selfish element
at the genomic and transcriptomic level. Our results show that large sections
of the t-haplotype have been replaced by standard homologous sequences, possibly
due to occasional events of recombination, and that this complicates the inference
of its history. As expected for a long genomic segment of very low recombination,
the t-haplotype carries an excess of fixed nonsynonymous mutations compared to
the standard chromosome. This excess is stronger for regions that have not undergone
recent recombination, suggesting that occasional gene flow between the t and the
standard chromosome may provide a mechanism to regenerate coding sequences that
have accumulated deleterious mutations. Finally, we find that t-complex genes
with altered expression largely overlap with deleted or amplified regions, and
that carrying a t-haplotype alters the testis expression of genes outside of the
t-complex, providing new leads into the pathways involved in the biology of this
segregation distorter.
article_processing_charge: No
article_type: original
author:
- first_name: Réka K
full_name: Kelemen, Réka K
id: 48D3F8DE-F248-11E8-B48F-1D18A9856A87
last_name: Kelemen
orcid: 0000-0002-8489-9281
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Kelemen RK, Vicoso B. Complex history and differentiation patterns of the t-haplotype,
a mouse meiotic driver. Genetics. 2018;208(1):365-375. doi:10.1534/genetics.117.300513
apa: Kelemen, R. K., & Vicoso, B. (2018). Complex history and differentiation
patterns of the t-haplotype, a mouse meiotic driver. Genetics. Genetics
Society of America. https://doi.org/10.1534/genetics.117.300513
chicago: Kelemen, Réka K, and Beatriz Vicoso. “Complex History and Differentiation
Patterns of the T-Haplotype, a Mouse Meiotic Driver.” Genetics. Genetics
Society of America, 2018. https://doi.org/10.1534/genetics.117.300513.
ieee: R. K. Kelemen and B. Vicoso, “Complex history and differentiation patterns
of the t-haplotype, a mouse meiotic driver,” Genetics, vol. 208, no. 1.
Genetics Society of America, pp. 365–375, 2018.
ista: Kelemen RK, Vicoso B. 2018. Complex history and differentiation patterns of
the t-haplotype, a mouse meiotic driver. Genetics. 208(1), 365–375.
mla: Kelemen, Réka K., and Beatriz Vicoso. “Complex History and Differentiation
Patterns of the T-Haplotype, a Mouse Meiotic Driver.” Genetics, vol. 208,
no. 1, Genetics Society of America, 2018, pp. 365–75, doi:10.1534/genetics.117.300513.
short: R.K. Kelemen, B. Vicoso, Genetics 208 (2018) 365–375.
date_created: 2018-12-11T11:47:04Z
date_published: 2018-01-01T00:00:00Z
date_updated: 2024-02-21T13:48:27Z
day: '01'
ddc:
- '576'
department:
- _id: BeVi
doi: 10.1534/genetics.117.300513
ec_funded: 1
external_id:
isi:
- '000419356300024'
file:
- access_level: open_access
checksum: 2123845e7031a0cf043905be160f9e69
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:15:14Z
date_updated: 2020-07-14T12:46:50Z
file_id: '5132'
file_name: IST-2018-1058-v1+1_365.full__1_.pdf
file_size: 1311661
relation: main_file
file_date_updated: 2020-07-14T12:46:50Z
has_accepted_license: '1'
intvolume: ' 208'
isi: 1
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 365 - 375
project:
- _id: 250BDE62-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715257'
name: Prevalence and Influence of Sexual Antagonism on Genome Evolution
publication: Genetics
publication_status: published
publisher: Genetics Society of America
publist_id: '7274'
pubrep_id: '1058'
quality_controlled: '1'
related_material:
record:
- id: '5571'
relation: popular_science
status: public
- id: '5572'
relation: popular_science
status: public
scopus_import: '1'
status: public
title: Complex history and differentiation patterns of the t-haplotype, a mouse meiotic
driver
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 208
year: '2018'
...
---
_id: '1085'
abstract:
- lang: eng
text: Sex chromosomes evolve once recombination is halted between a homologous pair
of chromosomes. The dominant model of sex chromosome evolution posits that recombination
is suppressed between emerging X and Y chromosomes in order to resolve sexual
conflict. Here we test this model using whole genome and transcriptome resequencing
data in the guppy, a model for sexual selection with many Y-linked colour traits.
We show that although the nascent Y chromosome encompasses nearly half of the
linkage group, there has been no perceptible degradation of Y chromosome gene
content or activity. Using replicate wild populations with differing levels of
sexually antagonistic selection for colour, we also show that sexual selection
leads to greater expansion of the non-recombining region and increased Y chromosome
divergence. These results provide empirical support for longstanding models of
sex chromosome catalysis, and suggest an important role for sexual selection and
sexual conflict in genome evolution.
article_number: '14251'
article_processing_charge: No
author:
- first_name: Alison
full_name: Wright, Alison
last_name: Wright
- first_name: Iulia
full_name: Darolti, Iulia
last_name: Darolti
- first_name: Natasha
full_name: Bloch, Natasha
last_name: Bloch
- first_name: Vicencio
full_name: Oostra, Vicencio
last_name: Oostra
- first_name: Benjamin
full_name: Sandkam, Benjamin
last_name: Sandkam
- first_name: Séverine
full_name: Buechel, Séverine
last_name: Buechel
- first_name: Niclas
full_name: Kolm, Niclas
last_name: Kolm
- first_name: Felix
full_name: Breden, Felix
last_name: Breden
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Judith
full_name: Mank, Judith
last_name: Mank
citation:
ama: Wright A, Darolti I, Bloch N, et al. Convergent recombination suppression suggests
role of sexual selection in guppy sex chromosome formation. Nature Communications.
2017;8. doi:10.1038/ncomms14251
apa: Wright, A., Darolti, I., Bloch, N., Oostra, V., Sandkam, B., Buechel, S., …
Mank, J. (2017). Convergent recombination suppression suggests role of sexual
selection in guppy sex chromosome formation. Nature Communications. Nature
Publishing Group. https://doi.org/10.1038/ncomms14251
chicago: Wright, Alison, Iulia Darolti, Natasha Bloch, Vicencio Oostra, Benjamin
Sandkam, Séverine Buechel, Niclas Kolm, Felix Breden, Beatriz Vicoso, and Judith
Mank. “Convergent Recombination Suppression Suggests Role of Sexual Selection
in Guppy Sex Chromosome Formation.” Nature Communications. Nature Publishing
Group, 2017. https://doi.org/10.1038/ncomms14251.
ieee: A. Wright et al., “Convergent recombination suppression suggests role
of sexual selection in guppy sex chromosome formation,” Nature Communications,
vol. 8. Nature Publishing Group, 2017.
ista: Wright A, Darolti I, Bloch N, Oostra V, Sandkam B, Buechel S, Kolm N, Breden
F, Vicoso B, Mank J. 2017. Convergent recombination suppression suggests role
of sexual selection in guppy sex chromosome formation. Nature Communications.
8, 14251.
mla: Wright, Alison, et al. “Convergent Recombination Suppression Suggests Role
of Sexual Selection in Guppy Sex Chromosome Formation.” Nature Communications,
vol. 8, 14251, Nature Publishing Group, 2017, doi:10.1038/ncomms14251.
short: A. Wright, I. Darolti, N. Bloch, V. Oostra, B. Sandkam, S. Buechel, N. Kolm,
F. Breden, B. Vicoso, J. Mank, Nature Communications 8 (2017).
date_created: 2018-12-11T11:50:04Z
date_published: 2017-01-31T00:00:00Z
date_updated: 2023-09-20T11:48:16Z
day: '31'
ddc:
- '570'
- '576'
department:
- _id: BeVi
doi: 10.1038/ncomms14251
external_id:
isi:
- '000392953700001'
file:
- access_level: open_access
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:15:22Z
date_updated: 2018-12-12T10:15:22Z
file_id: '5141'
file_name: IST-2017-791-v1+1_ncomms14251.pdf
file_size: 955256
relation: main_file
file_date_updated: 2018-12-12T10:15:22Z
has_accepted_license: '1'
intvolume: ' 8'
isi: 1
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_identifier:
issn:
- '20411723'
publication_status: published
publisher: Nature Publishing Group
publist_id: '6292'
pubrep_id: '791'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Convergent recombination suppression suggests role of sexual selection in guppy
sex chromosome formation
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 8
year: '2017'
...
---
_id: '945'
abstract:
- lang: eng
text: While chromosome-wide dosage compensation of the X chromosome has been found
in many species, studies in ZW clades have indicated that compensation of the
Z is more localized and/or incomplete. In the ZW Lepidoptera, some species show
complete compensation of the Z chromosome, while others lack full equalization,
but what drives these inconsistencies is unclear. Here, we compare patterns of
male and female gene expression on the Z chromosome of two closely related butterfly
species, Papilio xuthus and Papilio machaon, and in multiple tissues of two moths
species, Plodia interpunctella and Bombyx mori, which were previously found to
differ in the extent to which they equalize Z-linked gene expression between the
sexes. We find that, while some species and tissues seem to have incomplete dosage
compensation, this is in fact due to the accumulation of male-biased genes and
the depletion of female-biased genes on the Z chromosome. Once this is accounted
for, the Z chromosome is fully compensated in all four species, through the up-regulation
of Z expression in females and in some cases additional down-regulation in males.
We further find that both sex-biased genes and Z-linked genes have increased rates
of expression divergence in this clade, and that this can lead to fast shifts
in patterns of gene expression even between closely related species. Taken together,
these results show that the uneven distribution of sex-biased genes on sex chromosomes
can confound conclusions about dosage compensation and that Z chromosome-wide
dosage compensation is not only possible but ubiquitous among Lepidoptera.
article_processing_charge: Yes (in subscription journal)
author:
- first_name: Ann K
full_name: Huylmans, Ann K
id: 4C0A3874-F248-11E8-B48F-1D18A9856A87
last_name: Huylmans
orcid: 0000-0001-8871-4961
- first_name: Ariana
full_name: Macon, Ariana
id: 2A0848E2-F248-11E8-B48F-1D18A9856A87
last_name: Macon
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Huylmans AK, Macon A, Vicoso B. Global dosage compensation is ubiquitous in
Lepidoptera, but counteracted by the masculinization of the Z chromosome. Molecular
Biology and Evolution. 2017;34(10):2637-2649. doi:10.1093/molbev/msx190
apa: Huylmans, A. K., Macon, A., & Vicoso, B. (2017). Global dosage compensation
is ubiquitous in Lepidoptera, but counteracted by the masculinization of the Z
chromosome. Molecular Biology and Evolution. Oxford University Press. https://doi.org/10.1093/molbev/msx190
chicago: Huylmans, Ann K, Ariana Macon, and Beatriz Vicoso. “Global Dosage Compensation
Is Ubiquitous in Lepidoptera, but Counteracted by the Masculinization of the Z
Chromosome.” Molecular Biology and Evolution. Oxford University Press,
2017. https://doi.org/10.1093/molbev/msx190.
ieee: A. K. Huylmans, A. Macon, and B. Vicoso, “Global dosage compensation is ubiquitous
in Lepidoptera, but counteracted by the masculinization of the Z chromosome,”
Molecular Biology and Evolution, vol. 34, no. 10. Oxford University Press,
pp. 2637–2649, 2017.
ista: Huylmans AK, Macon A, Vicoso B. 2017. Global dosage compensation is ubiquitous
in Lepidoptera, but counteracted by the masculinization of the Z chromosome. Molecular
Biology and Evolution. 34(10), 2637–2649.
mla: Huylmans, Ann K., et al. “Global Dosage Compensation Is Ubiquitous in Lepidoptera,
but Counteracted by the Masculinization of the Z Chromosome.” Molecular Biology
and Evolution, vol. 34, no. 10, Oxford University Press, 2017, pp. 2637–49,
doi:10.1093/molbev/msx190.
short: A.K. Huylmans, A. Macon, B. Vicoso, Molecular Biology and Evolution 34 (2017)
2637–2649.
date_created: 2018-12-11T11:49:20Z
date_published: 2017-07-06T00:00:00Z
date_updated: 2023-09-26T15:36:34Z
day: '06'
ddc:
- '570'
- '576'
department:
- _id: BeVi
doi: 10.1093/molbev/msx190
external_id:
isi:
- '000411814800016'
file:
- access_level: open_access
checksum: 009fd68043211d645ceb9d1de28274f2
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:10:23Z
date_updated: 2020-07-14T12:48:15Z
file_id: '4810'
file_name: IST-2017-848-v1+1_2017_Vicoso_GlobalDosage.pdf
file_size: 462863
relation: main_file
file_date_updated: 2020-07-14T12:48:15Z
has_accepted_license: '1'
intvolume: ' 34'
isi: 1
issue: '10'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 2637 - 2649
project:
- _id: 250ED89C-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P28842-B22
name: Sex chromosome evolution under male- and female- heterogamety
publication: Molecular Biology and Evolution
publication_identifier:
issn:
- '07374038'
publication_status: published
publisher: Oxford University Press
publist_id: '6472'
pubrep_id: '848'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Global dosage compensation is ubiquitous in Lepidoptera, but counteracted by
the masculinization of the Z chromosome
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 34
year: '2017'
...
---
_id: '614'
abstract:
- lang: eng
text: 'Moths and butterflies (Lepidoptera) usually have a pair of differentiated
WZ sex chromosomes. However, in most lineages outside of the division Ditrysia,
as well as in the sister order Trichoptera, females lack a W chromosome. The W
is therefore thought to have been acquired secondarily. Here we compare the genomes
of three Lepidoptera species (one Dytrisia and two non-Dytrisia) to test three
models accounting for the origin of the W: (1) a Z-autosome fusion; (2) a sex
chromosome turnover; and (3) a non-canonical mechanism (e.g., through the recruitment
of a B chromosome). We show that the gene content of the Z is highly conserved
across Lepidoptera (rejecting a sex chromosome turnover) and that very few genes
moved onto the Z in the common ancestor of the Ditrysia (arguing against a Z-autosome
fusion). Our comparative genomics analysis therefore supports the secondary acquisition
of the Lepidoptera W by a non-canonical mechanism, and it confirms the extreme
stability of well-differentiated sex chromosomes.'
article_number: '1486'
article_processing_charge: No
article_type: original
author:
- first_name: Christelle
full_name: Fraisse, Christelle
id: 32DF5794-F248-11E8-B48F-1D18A9856A87
last_name: Fraisse
orcid: 0000-0001-8441-5075
- first_name: Marion A
full_name: Picard, Marion A
id: 2C921A7A-F248-11E8-B48F-1D18A9856A87
last_name: Picard
orcid: 0000-0002-8101-2518
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Fraisse C, Picard MAL, Vicoso B. The deep conservation of the Lepidoptera Z
chromosome suggests a non canonical origin of the W. Nature Communications.
2017;8(1). doi:10.1038/s41467-017-01663-5
apa: Fraisse, C., Picard, M. A. L., & Vicoso, B. (2017). The deep conservation
of the Lepidoptera Z chromosome suggests a non canonical origin of the W. Nature
Communications. Nature Publishing Group. https://doi.org/10.1038/s41467-017-01663-5
chicago: Fraisse, Christelle, Marion A L Picard, and Beatriz Vicoso. “The Deep Conservation
of the Lepidoptera Z Chromosome Suggests a Non Canonical Origin of the W.” Nature
Communications. Nature Publishing Group, 2017. https://doi.org/10.1038/s41467-017-01663-5.
ieee: C. Fraisse, M. A. L. Picard, and B. Vicoso, “The deep conservation of the
Lepidoptera Z chromosome suggests a non canonical origin of the W,” Nature
Communications, vol. 8, no. 1. Nature Publishing Group, 2017.
ista: Fraisse C, Picard MAL, Vicoso B. 2017. The deep conservation of the Lepidoptera
Z chromosome suggests a non canonical origin of the W. Nature Communications.
8(1), 1486.
mla: Fraisse, Christelle, et al. “The Deep Conservation of the Lepidoptera Z Chromosome
Suggests a Non Canonical Origin of the W.” Nature Communications, vol.
8, no. 1, 1486, Nature Publishing Group, 2017, doi:10.1038/s41467-017-01663-5.
short: C. Fraisse, M.A.L. Picard, B. Vicoso, Nature Communications 8 (2017).
date_created: 2018-12-11T11:47:30Z
date_published: 2017-12-01T00:00:00Z
date_updated: 2024-02-21T13:47:47Z
day: '01'
ddc:
- '570'
- '576'
department:
- _id: BeVi
- _id: NiBa
doi: 10.1038/s41467-017-01663-5
external_id:
pmid:
- '29133797'
file:
- access_level: open_access
checksum: 4da2651303c8afc2f7fc419be42a2433
content_type: application/pdf
creator: dernst
date_created: 2020-03-03T15:55:50Z
date_updated: 2020-07-14T12:47:20Z
file_id: '7562'
file_name: 2017_NatureComm_Fraisse.pdf
file_size: 1201520
relation: main_file
file_date_updated: 2020-07-14T12:47:20Z
has_accepted_license: '1'
intvolume: ' 8'
issue: '1'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 250ED89C-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P28842-B22
name: Sex chromosome evolution under male- and female- heterogamety
publication: Nature Communications
publication_identifier:
issn:
- '20411723'
publication_status: published
publisher: Nature Publishing Group
publist_id: '7190'
pubrep_id: '910'
quality_controlled: '1'
related_material:
record:
- id: '7163'
relation: popular_science
status: public
scopus_import: 1
status: public
title: The deep conservation of the Lepidoptera Z chromosome suggests a non canonical
origin of the W
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 8
year: '2017'
...
---
_id: '5571'
abstract:
- lang: eng
text: "This folder contains all the data used in each of the main figures of \"The
genomic characterization of the t-haplotype, a mouse meiotic driver, highlights
its complex history and specialized biology\" (Kelemen, R., Vicoso, B.), as well
as in the supplementary figures. \r\n"
article_processing_charge: No
author:
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Vicoso B. Data for “The genomic characterization of the t-haplotype, a mouse
meiotic driver, highlights its complex history and specialized biology.” 2017.
doi:10.15479/AT:ISTA:78
apa: Vicoso, B. (2017). Data for “The genomic characterization of the t-haplotype,
a mouse meiotic driver, highlights its complex history and specialized biology.”
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:78
chicago: Vicoso, Beatriz. “Data for ‘The Genomic Characterization of the t-Haplotype,
a Mouse Meiotic Driver, Highlights Its Complex History and Specialized Biology.’”
Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:78.
ieee: B. Vicoso, “Data for ‘The genomic characterization of the t-haplotype, a mouse
meiotic driver, highlights its complex history and specialized biology.’” Institute
of Science and Technology Austria, 2017.
ista: Vicoso B. 2017. Data for ‘The genomic characterization of the t-haplotype,
a mouse meiotic driver, highlights its complex history and specialized biology’,
Institute of Science and Technology Austria, 10.15479/AT:ISTA:78.
mla: Vicoso, Beatriz. Data for “The Genomic Characterization of the t-Haplotype,
a Mouse Meiotic Driver, Highlights Its Complex History and Specialized Biology.”
Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:78.
short: B. Vicoso, (2017).
contributor:
- contributor_type: contact_person
first_name: Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
datarep_id: '78'
date_created: 2018-12-12T12:31:36Z
date_published: 2017-11-06T00:00:00Z
date_updated: 2024-02-21T13:48:16Z
day: '06'
ddc:
- '576'
department:
- _id: BeVi
doi: 10.15479/AT:ISTA:78
file:
- access_level: open_access
checksum: 4520eb2b8379417ee916995719158f16
content_type: application/zip
creator: system
date_created: 2018-12-12T13:03:00Z
date_updated: 2020-07-14T12:47:04Z
file_id: '5618'
file_name: IST-2017-78-v1+1_Data.zip
file_size: 143697895
relation: main_file
file_date_updated: 2020-07-14T12:47:04Z
has_accepted_license: '1'
month: '11'
oa: 1
oa_version: Submitted Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '542'
relation: research_paper
status: public
status: public
title: Data for "The genomic characterization of the t-haplotype, a mouse meiotic
driver, highlights its complex history and specialized biology"
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '5572'
abstract:
- lang: eng
text: Code described in the Supplementary Methods of "The genomic characterization
of the t-haplotype, a mouse meiotic driver, highlights its complex history and
specialized biology" (Kelemen, R., Vicoso, B.)
article_processing_charge: No
author:
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Vicoso B. Code for “The genomic characterization of the t-haplotype, a mouse
meiotic driver, highlights its complex history and specialized biology.” 2017.
doi:10.15479/AT:ISTA:79
apa: Vicoso, B. (2017). Code for “The genomic characterization of the t-haplotype,
a mouse meiotic driver, highlights its complex history and specialized biology.”
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:79
chicago: Vicoso, Beatriz. “Code for ‘The Genomic Characterization of the t-Haplotype,
a Mouse Meiotic Driver, Highlights Its Complex History and Specialized Biology.’”
Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:79 .
ieee: B. Vicoso, “Code for ‘The genomic characterization of the t-haplotype, a mouse
meiotic driver, highlights its complex history and specialized biology.’” Institute
of Science and Technology Austria, 2017.
ista: Vicoso B. 2017. Code for ‘The genomic characterization of the t-haplotype,
a mouse meiotic driver, highlights its complex history and specialized biology’,
Institute of Science and Technology Austria, 10.15479/AT:ISTA:79 .
mla: Vicoso, Beatriz. Code for “The Genomic Characterization of the t-Haplotype,
a Mouse Meiotic Driver, Highlights Its Complex History and Specialized Biology.”
Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:79 .
short: B. Vicoso, (2017).
datarep_id: '79'
date_created: 2018-12-12T12:31:36Z
date_published: 2017-11-06T00:00:00Z
date_updated: 2024-02-21T13:48:28Z
day: '06'
ddc:
- '576'
department:
- _id: BeVi
doi: '10.15479/AT:ISTA:79 '
file:
- access_level: open_access
checksum: 3e70a7bcd6ff0c38b79e4c8a7d137034
content_type: application/zip
creator: system
date_created: 2018-12-12T13:05:15Z
date_updated: 2020-07-14T12:47:05Z
file_id: '5643'
file_name: IST-2017-79-v1+1_Code.zip
file_size: 49823
relation: main_file
file_date_updated: 2020-07-14T12:47:05Z
has_accepted_license: '1'
month: '11'
oa: 1
oa_version: Submitted Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '542'
relation: research_paper
status: public
status: public
title: Code for "The genomic characterization of the t-haplotype, a mouse meiotic
driver, highlights its complex history and specialized biology"
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '1513'
abstract:
- lang: eng
text: "Insects of the order Hemiptera (true bugs) use a wide range of mechanisms
of sex determination, including genetic sex determination, paternal genome elimination,
and haplodiploidy. Genetic sex determination, the prevalent mode, is generally
controlled by a pair of XY sex chromosomes or by an XX/X0 system, but different
configurations that include additional sex chromosomes are also present. Although
this diversity of sex determining systems has been extensively studied at the
cytogenetic level, only the X chromosome of the model pea aphid Acyrthosiphon
pisum has been analyzed at the genomic level, and little is known about X chromosome
biology in the rest of the order.\r\n\r\nIn this study, we take advantage of published
DNA- and RNA-seq data from three additional Hemiptera species to perform a comparative
analysis of the gene content and expression of the X chromosome throughout this
clade. We find that, despite showing evidence of dosage compensation, the X chromosomes
of these species show female-biased expression, and a deficit of male-biased genes,
in direct contrast to the pea aphid X. We further detect an excess of shared gene
content between these very distant species, suggesting that despite the diversity
of sex determining systems, the same chromosomal element is used as the X throughout
a large portion of the order. "
article_processing_charge: No
author:
- first_name: Arka
full_name: Pal, Arka
id: 6AAB2240-CA9A-11E9-9C1A-D9D1E5697425
last_name: Pal
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: 'Pal A, Vicoso B. The X chromosome of hemipteran insects: Conservation, dosage
compensation and sex-biased expression. Genome Biology and Evolution. 2015;7(12):3259-3268.
doi:10.1093/gbe/evv215'
apa: 'Pal, A., & Vicoso, B. (2015). The X chromosome of hemipteran insects:
Conservation, dosage compensation and sex-biased expression. Genome Biology
and Evolution. Oxford University Press. https://doi.org/10.1093/gbe/evv215'
chicago: 'Pal, Arka, and Beatriz Vicoso. “The X Chromosome of Hemipteran Insects:
Conservation, Dosage Compensation and Sex-Biased Expression.” Genome Biology
and Evolution. Oxford University Press, 2015. https://doi.org/10.1093/gbe/evv215.'
ieee: 'A. Pal and B. Vicoso, “The X chromosome of hemipteran insects: Conservation,
dosage compensation and sex-biased expression,” Genome Biology and Evolution,
vol. 7, no. 12. Oxford University Press, pp. 3259–3268, 2015.'
ista: 'Pal A, Vicoso B. 2015. The X chromosome of hemipteran insects: Conservation,
dosage compensation and sex-biased expression. Genome Biology and Evolution. 7(12),
3259–3268.'
mla: 'Pal, Arka, and Beatriz Vicoso. “The X Chromosome of Hemipteran Insects: Conservation,
Dosage Compensation and Sex-Biased Expression.” Genome Biology and Evolution,
vol. 7, no. 12, Oxford University Press, 2015, pp. 3259–68, doi:10.1093/gbe/evv215.'
short: A. Pal, B. Vicoso, Genome Biology and Evolution 7 (2015) 3259–3268.
date_created: 2018-12-11T11:52:27Z
date_published: 2015-12-01T00:00:00Z
date_updated: 2021-01-12T06:51:18Z
day: '01'
ddc:
- '570'
department:
- _id: BeVi
doi: 10.1093/gbe/evv215
ec_funded: 1
file:
- access_level: open_access
checksum: 2b56b8c2e2a1d4cc3c9cb8daba26dd9b
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:17:29Z
date_updated: 2020-07-14T12:45:00Z
file_id: '5284'
file_name: IST-2016-496-v1+1_Genome_Biol_Evol-2015-Pal-3259-68.pdf
file_size: 858027
relation: main_file
file_date_updated: 2020-07-14T12:45:00Z
has_accepted_license: '1'
intvolume: ' 7'
issue: '12'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: 3259 - 3268
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Genome Biology and Evolution
publication_status: published
publisher: Oxford University Press
publist_id: '5664'
pubrep_id: '496'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'The X chromosome of hemipteran insects: Conservation, dosage compensation
and sex-biased expression'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 7
year: '2015'
...
---
_id: '1577'
abstract:
- lang: eng
text: Contrary to the pattern seen in mammalian sex chromosomes, where most Y-linked
genes have X-linked homologs, the Drosophila X and Y chromosomes appear to be
unrelated. Most of the Y-linked genes have autosomal paralogs, so autosome-to-Y
transposition must be the main source of Drosophila Y-linked genes. Here we show
how these genes were acquired. We found a previously unidentified gene (flagrante
delicto Y, FDY) that originated from a recent duplication of the autosomal gene
vig2 to the Y chromosome of Drosophila melanogaster. Four contiguous genes were
duplicated along with vig2, but they became pseudogenes through the accumulation
of deletions and transposable element insertions, whereas FDY remained functional,
acquired testis-specific expression, and now accounts for ∼20% of the vig2-like
mRNA in testis. FDY is absent in the closest relatives of D. melanogaster, and
DNA sequence divergence indicates that the duplication to the Y chromosome occurred
∼2 million years ago. Thus, FDY provides a snapshot of the early stages of the
establishment of a Y-linked gene and demonstrates how the Drosophila Y has been
accumulating autosomal genes.
acknowledgement: "This work was supported by grants from Conselho Nacional de Desenvolvimento
Científico e Tecnológico (CNPq), FAPERJ, and CAPES (to A.B.C.), and National Institutes
of Health Grant R01 GM64590 (to A.G.C. and A.B.C.).\r\nWe thank M. Vibranovski,
C. Bergman, and the Berkeley Drosophila Genome Project for access to unpublished
data; M. Vibranovski, R. Hoskins, S. Celniker, C. Kennedy, J. Carlson, S. Galasinski,
B. Wakimoto, J. Yasuhara, G. Sutton, M. Kuhner, J. Felsenstein, and C. Santos for
help in various steps of the work; and B. Bitner-Mathe, R. Ventura, the members
of the A.B.C. and A.G.C. laboratories, and two reviewers for many valuable comments
on the manuscript."
article_processing_charge: No
article_type: original
author:
- first_name: Antonio
full_name: Carvalho, Antonio
last_name: Carvalho
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Claudia
full_name: Russo, Claudia
last_name: Russo
- first_name: Bonnielin
full_name: Swenor, Bonnielin
last_name: Swenor
- first_name: Andrew
full_name: Clark, Andrew
last_name: Clark
citation:
ama: Carvalho A, Vicoso B, Russo C, Swenor B, Clark A. Birth of a new gene on the
Y chromosome of Drosophila melanogaster. PNAS. 2015;112(40):12450-12455.
doi:10.1073/pnas.1516543112
apa: Carvalho, A., Vicoso, B., Russo, C., Swenor, B., & Clark, A. (2015). Birth
of a new gene on the Y chromosome of Drosophila melanogaster. PNAS. National
Academy of Sciences. https://doi.org/10.1073/pnas.1516543112
chicago: Carvalho, Antonio, Beatriz Vicoso, Claudia Russo, Bonnielin Swenor, and
Andrew Clark. “Birth of a New Gene on the Y Chromosome of Drosophila Melanogaster.”
PNAS. National Academy of Sciences, 2015. https://doi.org/10.1073/pnas.1516543112.
ieee: A. Carvalho, B. Vicoso, C. Russo, B. Swenor, and A. Clark, “Birth of a new
gene on the Y chromosome of Drosophila melanogaster,” PNAS, vol. 112, no.
40. National Academy of Sciences, pp. 12450–12455, 2015.
ista: Carvalho A, Vicoso B, Russo C, Swenor B, Clark A. 2015. Birth of a new gene
on the Y chromosome of Drosophila melanogaster. PNAS. 112(40), 12450–12455.
mla: Carvalho, Antonio, et al. “Birth of a New Gene on the Y Chromosome of Drosophila
Melanogaster.” PNAS, vol. 112, no. 40, National Academy of Sciences, 2015,
pp. 12450–55, doi:10.1073/pnas.1516543112.
short: A. Carvalho, B. Vicoso, C. Russo, B. Swenor, A. Clark, PNAS 112 (2015) 12450–12455.
date_created: 2018-12-11T11:52:49Z
date_published: 2015-10-06T00:00:00Z
date_updated: 2021-01-12T06:51:43Z
day: '06'
department:
- _id: BeVi
doi: 10.1073/pnas.1516543112
external_id:
pmid:
- '26385968'
intvolume: ' 112'
issue: '40'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4603513/
month: '10'
oa: 1
oa_version: Published Version
page: 12450 - 12455
pmid: 1
publication: PNAS
publication_status: published
publisher: National Academy of Sciences
publist_id: '5594'
quality_controlled: '1'
scopus_import: 1
status: public
title: Birth of a new gene on the Y chromosome of Drosophila melanogaster
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 112
year: '2015'
...
---
_id: '1684'
abstract:
- lang: eng
text: Many species groups, including mammals and many insects, determine sex using
heteromorphic sex chromosomes. Diptera flies, which include the model Drosophila
melanogaster, generally have XY sex chromosomes and a conserved karyotype consisting
of six chromosomal arms (five large rods and a small dot), but superficially similar
karyotypes may conceal the true extent of sex chromosome variation. Here, we use
whole-genome analysis in 37 fly species belonging to 22 different families of
Diptera and uncover tremendous hidden diversity in sex chromosome karyotypes among
flies. We identify over a dozen different sex chromosome configurations, and the
small dot chromosome is repeatedly used as the sex chromosome, which presumably
reflects the ancestral karyotype of higher Diptera. However, we identify species
with undifferentiated sex chromosomes, others in which a different chromosome
replaced the dot as a sex chromosome or in which up to three chromosomal elements
became incorporated into the sex chromosomes, and others yet with female heterogamety
(ZW sex chromosomes). Transcriptome analysis shows that dosage compensation has
evolved multiple times in flies, consistently through up-regulation of the single
X in males. However, X chromosomes generally show a deficiency of genes with male-biased
expression, possibly reflecting sex-specific selective pressures. These species
thus provide a rich resource to study sex chromosome biology in a comparative
manner and show that similar selective forces have shaped the unique evolution
of sex chromosomes in diverse fly taxa.
acknowledgement: "This research was funded by NIH grants (R01GM076007 and R01GM093182)
to DB. The funders had no role in study design, data collection and analysis, decision
to publish, or preparation of the manuscript.\r\nWe thank the people listed in S2
Table for samples, Jere Schweikert for identifying Tephritid species, and Zaak Walton
for technical assistance."
article_number: e1002078
author:
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Doris
full_name: Bachtrog, Doris
last_name: Bachtrog
citation:
ama: Vicoso B, Bachtrog D. Numerous transitions of sex chromosomes in Diptera. PLoS
Biology. 2015;13(4). doi:10.1371/journal.pbio.1002078
apa: Vicoso, B., & Bachtrog, D. (2015). Numerous transitions of sex chromosomes
in Diptera. PLoS Biology. Public Library of Science. https://doi.org/10.1371/journal.pbio.1002078
chicago: Vicoso, Beatriz, and Doris Bachtrog. “Numerous Transitions of Sex Chromosomes
in Diptera.” PLoS Biology. Public Library of Science, 2015. https://doi.org/10.1371/journal.pbio.1002078.
ieee: B. Vicoso and D. Bachtrog, “Numerous transitions of sex chromosomes in Diptera,”
PLoS Biology, vol. 13, no. 4. Public Library of Science, 2015.
ista: Vicoso B, Bachtrog D. 2015. Numerous transitions of sex chromosomes in Diptera.
PLoS Biology. 13(4), e1002078.
mla: Vicoso, Beatriz, and Doris Bachtrog. “Numerous Transitions of Sex Chromosomes
in Diptera.” PLoS Biology, vol. 13, no. 4, e1002078, Public Library of
Science, 2015, doi:10.1371/journal.pbio.1002078.
short: B. Vicoso, D. Bachtrog, PLoS Biology 13 (2015).
date_created: 2018-12-11T11:53:27Z
date_published: 2015-04-16T00:00:00Z
date_updated: 2021-01-12T06:52:30Z
day: '16'
ddc:
- '570'
doi: 10.1371/journal.pbio.1002078
extern: '1'
file:
- access_level: open_access
checksum: 92a300d7b97eafb477885303f7632fe1
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:11:05Z
date_updated: 2020-07-14T12:45:12Z
file_id: '4858'
file_name: IST-2016-492-v1+1_journal.pbio.1002078.pdf
file_size: 1104701
relation: main_file
file_date_updated: 2020-07-14T12:45:12Z
has_accepted_license: '1'
intvolume: ' 13'
issue: '4'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
publication: PLoS Biology
publication_status: published
publisher: Public Library of Science
publist_id: '5463'
pubrep_id: '492'
quality_controlled: '1'
status: public
title: Numerous transitions of sex chromosomes in Diptera
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13
year: '2015'
...
---
_id: '1991'
abstract:
- lang: eng
text: Although transitions of sex-determination mechanisms are frequent in species
with homomorphic sex chromosomes, heteromorphic sex chromosomes are thought to
represent a terminal evolutionary stage owing to chromosome-specific adaptations
such as dosage compensation or an accumulation of sex-specific mutations. Here
we show that an autosome of Drosophila, the dot chromosome, was ancestrally a
differentiated X chromosome. We analyse the whole genome of true fruitflies (Tephritidae),
flesh flies (Sarcophagidae) and soldier flies (Stratiomyidae) to show that genes
located on the dot chromosome of Drosophila are X-linked in outgroup species,
whereas Drosophila X-linked genes are autosomal. We date this chromosomal transition
to early drosophilid evolution by sequencing the genome of other Drosophilidae.
Our results reveal several puzzling aspects of Drosophila dot chromosome biology
to be possible remnants of its former life as a sex chromosome, such as its minor
feminizing role in sex determination or its targeting by a chromosome-specific
regulatory mechanism. We also show that patterns of biased gene expression of
the dot chromosome during early embryogenesis, oogenesis and spermatogenesis resemble
that of the current X chromosome. Thus, although sex chromosomes are not necessarily
evolutionary end points and can revert back to an autosomal inheritance, the highly
specialized genome architecture of this former X chromosome suggests that severe
fitness costs must be overcome for such a turnover to occur.
acknowledgement: Funded by National Institutes of Health grants (R01GM076007 and R01GM093182)
and a Packard Fellowship to D.B.
author:
- first_name: Beatriz
full_name: Beatriz Vicoso
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Doris
full_name: Bachtrog, Doris
last_name: Bachtrog
citation:
ama: Vicoso B, Bachtrog D. Reversal of an ancient sex chromosome to an autosome
in Drosophila. Nature. 2013;499(7458):332-335. doi:10.1038/nature12235
apa: Vicoso, B., & Bachtrog, D. (2013). Reversal of an ancient sex chromosome
to an autosome in Drosophila. Nature. Nature Publishing Group. https://doi.org/10.1038/nature12235
chicago: Vicoso, Beatriz, and Doris Bachtrog. “Reversal of an Ancient Sex Chromosome
to an Autosome in Drosophila.” Nature. Nature Publishing Group, 2013. https://doi.org/10.1038/nature12235.
ieee: B. Vicoso and D. Bachtrog, “Reversal of an ancient sex chromosome to an autosome
in Drosophila,” Nature, vol. 499, no. 7458. Nature Publishing Group, pp.
332–335, 2013.
ista: Vicoso B, Bachtrog D. 2013. Reversal of an ancient sex chromosome to an autosome
in Drosophila. Nature. 499(7458), 332–335.
mla: Vicoso, Beatriz, and Doris Bachtrog. “Reversal of an Ancient Sex Chromosome
to an Autosome in Drosophila.” Nature, vol. 499, no. 7458, Nature Publishing
Group, 2013, pp. 332–35, doi:10.1038/nature12235.
short: B. Vicoso, D. Bachtrog, Nature 499 (2013) 332–335.
date_created: 2018-12-11T11:55:05Z
date_published: 2013-07-18T00:00:00Z
date_updated: 2021-01-12T06:54:33Z
day: '18'
doi: 10.1038/nature12235
extern: 1
intvolume: ' 499'
issue: '7458'
month: '07'
page: 332 - 335
publication: Nature
publication_status: published
publisher: Nature Publishing Group
publist_id: '5092'
quality_controlled: 0
status: public
title: Reversal of an ancient sex chromosome to an autosome in Drosophila
type: journal_article
volume: 499
year: '2013'
...
---
_id: '2074'
abstract:
- lang: eng
text: 'Sex chromosomes originate from autosomes. The accumulation of sexually antagonistic
mutations on protosex chromosomes selects for a loss of recombination and sets
in motion the evolutionary processes generating heteromorphic sex chromosomes.
Recombination suppression and differentiation are generally viewed as the default
path of sex chromosome evolution, and the occurrence of old, homomorphic sex chromosomes,
such as those of ratite birds, has remained a mystery. Here, we analyze the genome
and transcriptome of emu (Dromaius novaehollandiae) and confirm that most genes
on the sex chromosome are shared between the Z and W. Surprisingly, however, levels
of gene expression are generally sex-biased for all sex-linked genes relative
to autosomes, including those in the pseudoautosomal region, and the male-bias
increases after gonad formation. This expression bias suggests that the emu sex
chromosomes have become masculinized, even in the absence of ZW differentiation.
Thus, birds may have taken different evolutionary solutions to minimize the deleterious
effects imposed by sexually antagonistic mutations: some lineages eliminate recombination
along the protosex chromosomes to physically restrict sexually antagonistic alleles
to one sex, whereas ratites evolved sex-biased expression to confine the product
of a sexually antagonistic allele to the sex it benefits. This difference in conflict
resolution may explain the preservation of recombining, homomorphic sex chromosomes
in other lineages and illustrates the importance of sexually antagonistic mutations
driving the evolution of sex chromosomes. '
author:
- first_name: Beatriz
full_name: Beatriz Vicoso
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Vera
full_name: Kaiser, Vera B
last_name: Kaiser
- first_name: Doris
full_name: Bachtrog, Doris
last_name: Bachtrog
citation:
ama: Vicoso B, Kaiser V, Bachtrog D. Sex biased gene expression at homomorphic sex
chromosomes in emus and its implication for sex chromosome evolution. PNAS.
2013;110(16):6453-6458. doi:10.1073/pnas.1217027110
apa: Vicoso, B., Kaiser, V., & Bachtrog, D. (2013). Sex biased gene expression
at homomorphic sex chromosomes in emus and its implication for sex chromosome
evolution. PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.1217027110
chicago: Vicoso, Beatriz, Vera Kaiser, and Doris Bachtrog. “Sex Biased Gene Expression
at Homomorphic Sex Chromosomes in Emus and Its Implication for Sex Chromosome
Evolution.” PNAS. National Academy of Sciences, 2013. https://doi.org/10.1073/pnas.1217027110.
ieee: B. Vicoso, V. Kaiser, and D. Bachtrog, “Sex biased gene expression at homomorphic
sex chromosomes in emus and its implication for sex chromosome evolution,” PNAS,
vol. 110, no. 16. National Academy of Sciences, pp. 6453–6458, 2013.
ista: Vicoso B, Kaiser V, Bachtrog D. 2013. Sex biased gene expression at homomorphic
sex chromosomes in emus and its implication for sex chromosome evolution. PNAS.
110(16), 6453–6458.
mla: Vicoso, Beatriz, et al. “Sex Biased Gene Expression at Homomorphic Sex Chromosomes
in Emus and Its Implication for Sex Chromosome Evolution.” PNAS, vol. 110,
no. 16, National Academy of Sciences, 2013, pp. 6453–58, doi:10.1073/pnas.1217027110.
short: B. Vicoso, V. Kaiser, D. Bachtrog, PNAS 110 (2013) 6453–6458.
date_created: 2018-12-11T11:55:33Z
date_published: 2013-04-16T00:00:00Z
date_updated: 2021-01-12T06:55:08Z
day: '16'
doi: 10.1073/pnas.1217027110
extern: 1
intvolume: ' 110'
issue: '16'
month: '04'
page: 6453 - 6458
publication: PNAS
publication_status: published
publisher: National Academy of Sciences
publist_id: '4964'
quality_controlled: 0
status: public
title: Sex biased gene expression at homomorphic sex chromosomes in emus and its implication
for sex chromosome evolution
type: journal_article
volume: 110
year: '2013'
...
---
_id: '2076'
abstract:
- lang: eng
text: |
Snakes exhibit genetic sex determination, with female heterogametic sex chromosomes (ZZ males, ZW females). Extensive cytogenetic work has suggested that the level of sex chromosome heteromorphism varies among species, with Boidae having entirely homomorphic sex chromosomes, Viperidae having completely heteromorphic sex chromosomes, and Colubridae showing partial differentiation. Here, we take a genomic approach to compare sex chromosome differentiation in these three snake families. We identify homomorphic sex chromosomes in boas (Boidae), but completely heteromorphic sex chromosomes in both garter snakes (Colubridae) and pygmy rattlesnake (Viperidae). Detection of W-linked gametologs enables us to establish the presence of evolutionary strata on garter and pygmy rattlesnake sex chromosomes where recombination was abolished at different time points. Sequence analysis shows that all strata are shared between pygmy rattlesnake and garter snake, i.e., recombination was abolished between the sex chromosomes before the two lineages diverged. The sex-biased transmission of the Z and its hemizygosity in females can impact patterns of molecular evolution, and we show that rates of evolution for Z-linked genes are increased relative to their pseudoautosomal homologs, both at synonymous and amino acid sites (even after controlling for mutational biases). This demonstrates that mutation rates are male-biased in snakes (male-driven evolution), but also supports faster-Z evolution due to differential selective effects on the Z. Finally, we perform a transcriptome analysis in boa and pygmy rattlesnake to establish baseline levels of sex-biased expression in homomorphic sex chromosomes, and show that heteromorphic ZW chromosomes in rattlesnakes lack chromosome-wide dosage compensation. Our study provides the first full scale overview of the evolution of snake sex chromosomes at the genomic level, thus greatly expanding our knowledge of reptilian and vertebrate sex chromosomes evolution.
acknowledgement: Funded by NIH grants (R01GM076007 and R01GM093182) and a Packard
Fellowship to DB.
author:
- first_name: Beatriz
full_name: Beatriz Vicoso
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Jr
full_name: Emerson, Jr J.
last_name: Emerson
- first_name: Yulia
full_name: Zektser, Yulia
last_name: Zektser
- first_name: Shivani
full_name: Mahajan, Shivani
last_name: Mahajan
- first_name: Doris
full_name: Bachtrog, Doris
last_name: Bachtrog
citation:
ama: 'Vicoso B, Emerson J, Zektser Y, Mahajan S, Bachtrog D. Comparative sex chromosome
genomics in snakes: Differentiation evolutionary strata and lack of global dosage
compensation. PLoS Biology. 2013;11(8). doi:10.1371/journal.pbio.1001643'
apa: 'Vicoso, B., Emerson, J., Zektser, Y., Mahajan, S., & Bachtrog, D. (2013).
Comparative sex chromosome genomics in snakes: Differentiation evolutionary strata
and lack of global dosage compensation. PLoS Biology. Public Library of
Science. https://doi.org/10.1371/journal.pbio.1001643'
chicago: 'Vicoso, Beatriz, Jr Emerson, Yulia Zektser, Shivani Mahajan, and Doris
Bachtrog. “Comparative Sex Chromosome Genomics in Snakes: Differentiation Evolutionary
Strata and Lack of Global Dosage Compensation.” PLoS Biology. Public Library
of Science, 2013. https://doi.org/10.1371/journal.pbio.1001643.'
ieee: 'B. Vicoso, J. Emerson, Y. Zektser, S. Mahajan, and D. Bachtrog, “Comparative
sex chromosome genomics in snakes: Differentiation evolutionary strata and lack
of global dosage compensation,” PLoS Biology, vol. 11, no. 8. Public Library
of Science, 2013.'
ista: 'Vicoso B, Emerson J, Zektser Y, Mahajan S, Bachtrog D. 2013. Comparative
sex chromosome genomics in snakes: Differentiation evolutionary strata and lack
of global dosage compensation. PLoS Biology. 11(8).'
mla: 'Vicoso, Beatriz, et al. “Comparative Sex Chromosome Genomics in Snakes: Differentiation
Evolutionary Strata and Lack of Global Dosage Compensation.” PLoS Biology,
vol. 11, no. 8, Public Library of Science, 2013, doi:10.1371/journal.pbio.1001643.'
short: B. Vicoso, J. Emerson, Y. Zektser, S. Mahajan, D. Bachtrog, PLoS Biology
11 (2013).
date_created: 2018-12-11T11:55:34Z
date_published: 2013-08-27T00:00:00Z
date_updated: 2021-01-12T06:55:09Z
day: '27'
doi: 10.1371/journal.pbio.1001643
extern: 1
intvolume: ' 11'
issue: '8'
month: '08'
publication: PLoS Biology
publication_status: published
publisher: Public Library of Science
publist_id: '4962'
quality_controlled: 0
status: public
title: 'Comparative sex chromosome genomics in snakes: Differentiation evolutionary
strata and lack of global dosage compensation'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
volume: 11
year: '2013'
...
---
_id: '2073'
abstract:
- lang: eng
text: 'Background: Drosophila albomicans is a unique model organism for studying
both sex chromosome and B chromosome evolution. A pair of its autosomes comprising
roughly 40% of the whole genome has fused to the ancient X and Y chromosomes only
about 0.12 million years ago, thereby creating the youngest and most gene-rich
neo-sex system reported to date. This species also possesses recently derived
B chromosomes that show non-Mendelian inheritance and significantly influence
fertility.Methods: We sequenced male flies with B chromosomes at 124.5-fold genome
coverage using next-generation sequencing. To characterize neo-Y specific changes
and B chromosome sequences, we also sequenced inbred female flies derived from
the same strain but without B''s at 28.5-fold.Results: We assembled a female genome
and placed 53% of the sequence and 85% of the annotated proteins into specific
chromosomes, by comparison with the 12 Drosophila genomes. Despite its very recent
origin, the non-recombining neo-Y chromosome shows various signs of degeneration,
including a significant enrichment of non-functional genes compared to the neo-X,
and an excess of tandem duplications relative to other chromosomes. We also characterized
a B-chromosome linked scaffold that contains an actively transcribed unit and
shows sequence similarity to the subcentromeric regions of both the ancient X
and the neo-X chromosome.Conclusions: Our results provide novel insights into
the very early stages of sex chromosome evolution and B chromosome origination,
and suggest an unprecedented connection between the births of these two systems
in D. albomicans.'
author:
- first_name: Qi
full_name: Zhou, Qi
last_name: Zhou
- first_name: Hongmei
full_name: Zhu, Hongmei
last_name: Zhu
- first_name: Quanfei
full_name: Huang, Quanfei
last_name: Huang
- first_name: Li
full_name: Zhao, Li
last_name: Zhao
- first_name: Guo
full_name: Zhang, Guo J
last_name: Zhang
- first_name: Scott
full_name: Roy, Scott W
last_name: Roy
- first_name: Beatriz
full_name: Beatriz Vicoso
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Zhaolin
full_name: Xuan, Zhaolin
last_name: Xuan
- first_name: Jue
full_name: Ruan, Jue
last_name: Ruan
- first_name: Yue
full_name: Zhang, Yue
last_name: Zhang
- first_name: Ruoping
full_name: Zhao, Ruoping
last_name: Zhao
- first_name: Chen
full_name: Ye, Chen
last_name: Ye
- first_name: Xiuqing
full_name: Zhang, Xiuqing
last_name: Zhang
- first_name: Jùn
full_name: Wang, Jùn
last_name: Wang
- first_name: Wen
full_name: Wang, Wen
last_name: Wang
- first_name: Doris
full_name: Bachtrog, Doris
last_name: Bachtrog
citation:
ama: Zhou Q, Zhu H, Huang Q, et al. Deciphering neo-sex and B chromosome evolution
by the draft genome of Drosophila albomicans. BMC Genomics. 2012;13(1).
doi:10.1186/1471-2164-13-109
apa: Zhou, Q., Zhu, H., Huang, Q., Zhao, L., Zhang, G., Roy, S., … Bachtrog, D.
(2012). Deciphering neo-sex and B chromosome evolution by the draft genome of
Drosophila albomicans. BMC Genomics. BioMed Central. https://doi.org/10.1186/1471-2164-13-109
chicago: Zhou, Qi, Hongmei Zhu, Quanfei Huang, Li Zhao, Guo Zhang, Scott Roy, Beatriz
Vicoso, et al. “Deciphering Neo-Sex and B Chromosome Evolution by the Draft Genome
of Drosophila Albomicans.” BMC Genomics. BioMed Central, 2012. https://doi.org/10.1186/1471-2164-13-109.
ieee: Q. Zhou et al., “Deciphering neo-sex and B chromosome evolution by
the draft genome of Drosophila albomicans,” BMC Genomics, vol. 13, no.
1. BioMed Central, 2012.
ista: Zhou Q, Zhu H, Huang Q, Zhao L, Zhang G, Roy S, Vicoso B, Xuan Z, Ruan J,
Zhang Y, Zhao R, Ye C, Zhang X, Wang J, Wang W, Bachtrog D. 2012. Deciphering
neo-sex and B chromosome evolution by the draft genome of Drosophila albomicans.
BMC Genomics. 13(1).
mla: Zhou, Qi, et al. “Deciphering Neo-Sex and B Chromosome Evolution by the Draft
Genome of Drosophila Albomicans.” BMC Genomics, vol. 13, no. 1, BioMed
Central, 2012, doi:10.1186/1471-2164-13-109.
short: Q. Zhou, H. Zhu, Q. Huang, L. Zhao, G. Zhang, S. Roy, B. Vicoso, Z. Xuan,
J. Ruan, Y. Zhang, R. Zhao, C. Ye, X. Zhang, J. Wang, W. Wang, D. Bachtrog, BMC
Genomics 13 (2012).
date_created: 2018-12-11T11:55:33Z
date_published: 2012-03-22T00:00:00Z
date_updated: 2021-01-12T06:55:08Z
day: '22'
doi: 10.1186/1471-2164-13-109
extern: 1
intvolume: ' 13'
issue: '1'
month: '03'
publication: BMC Genomics
publication_status: published
publisher: BioMed Central
publist_id: '4965'
quality_controlled: 0
status: public
title: Deciphering neo-sex and B chromosome evolution by the draft genome of Drosophila
albomicans
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
volume: 13
year: '2012'
...
---
_id: '2072'
abstract:
- lang: eng
text: Many species have morphologically and genetically differentiated sex chromosomes,
such as the XY pair of mammals. Y chromosomes are often highly degenerated and
carry few functional genes, so that XY males have only one copy of most Xlinked
genes (whereas females have two). As a result, chromosome-wide mechanisms of dosage
compensation, such as the mammalian X-inactivation, often evolve to reestablish
expression balance. A similar phenomenon is expected in femaleheterogametic species,
where ZW females should suffer from imbalances due to W-chromosome degeneration.
However, no global dosage compensation mechanisms have been detected in the two
independent ZW systems that have been studied systematically (birds and silkworm),
leading to the suggestion that lack of global dosage compensation may be a general
feature of female-heterogametic species. However, analyses of other independently
evolved ZW systems are required to test if this is the case. In this study, we
use published genomic and expression data to test for the presence of global dosage
compensation in Schistosoma mansoni, a trematode parasite that causes schistosomiasis
in humans. We find that Z-linked expression is reduced relative to autosomal expression
in females but not males, consistent with incomplete or localized dosage compensation.
This gives further support to the theory that female-heterogametic species may
not require global mechanisms of dosage compensation.
author:
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Doris
full_name: Bachtrog, Doris
last_name: Bachtrog
citation:
ama: Vicoso B, Bachtrog D. Lack of global dosage compensation in Schistosoma mansoni,
a female-heterogametic parasite. Genome Biology and Evolution. 2011;3(1):230-235.
doi:10.1093/gbe/evr010
apa: Vicoso, B., & Bachtrog, D. (2011). Lack of global dosage compensation in
Schistosoma mansoni, a female-heterogametic parasite. Genome Biology and Evolution.
Oxford University Press. https://doi.org/10.1093/gbe/evr010
chicago: Vicoso, Beatriz, and Doris Bachtrog. “Lack of Global Dosage Compensation
in Schistosoma Mansoni, a Female-Heterogametic Parasite.” Genome Biology and
Evolution. Oxford University Press, 2011. https://doi.org/10.1093/gbe/evr010.
ieee: B. Vicoso and D. Bachtrog, “Lack of global dosage compensation in Schistosoma
mansoni, a female-heterogametic parasite,” Genome Biology and Evolution,
vol. 3, no. 1. Oxford University Press, pp. 230–235, 2011.
ista: Vicoso B, Bachtrog D. 2011. Lack of global dosage compensation in Schistosoma
mansoni, a female-heterogametic parasite. Genome Biology and Evolution. 3(1),
230–235.
mla: Vicoso, Beatriz, and Doris Bachtrog. “Lack of Global Dosage Compensation in
Schistosoma Mansoni, a Female-Heterogametic Parasite.” Genome Biology and Evolution,
vol. 3, no. 1, Oxford University Press, 2011, pp. 230–35, doi:10.1093/gbe/evr010.
short: B. Vicoso, D. Bachtrog, Genome Biology and Evolution 3 (2011) 230–235.
date_created: 2018-12-11T11:55:33Z
date_published: 2011-02-11T00:00:00Z
date_updated: 2021-01-12T06:55:08Z
day: '11'
ddc:
- '570'
doi: 10.1093/gbe/evr010
extern: '1'
file:
- access_level: open_access
checksum: 7855c134436e4f6a13d63b6606d7e8dd
content_type: application/pdf
creator: dernst
date_created: 2019-05-10T07:41:28Z
date_updated: 2020-07-14T12:45:27Z
file_id: '6395'
file_name: 2011_GBE_Vicoso.pdf
file_size: 212547
relation: main_file
file_date_updated: 2020-07-14T12:45:27Z
has_accepted_license: '1'
intvolume: ' 3'
issue: '1'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 230 - 235
publication: Genome Biology and Evolution
publication_status: published
publisher: Oxford University Press
publist_id: '4966'
quality_controlled: '1'
status: public
title: Lack of global dosage compensation in Schistosoma mansoni, a female-heterogametic
parasite
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
short: CC BY-NC (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 3
year: '2011'
...
---
_id: '2071'
abstract:
- lang: eng
text: The X or Z chromosome has several characteristics that distinguish it from
the autosomes, namely hemizygosity in the heterogametic sex, and a potentially
different effective population size, both of which may influence the rate and
nature of evolution. In particular, there may be an accelerated rate of adaptive
change for X-linked compared to autosomal coding sequences, often referred to
as the Faster-X effect. Empirical studies have indicated that the strength of
Faster-X evolution varies among different species, and theoretical treatments
have shown that demography and mating system can substantially affect the degree
of Faster-X evolution. Here we integrate genomic data on Faster-X evolution from
a variety of animals with the demographic factors, mating system, and sex chromosome
regulatory characteristics that may influence it. Our results suggest that differences
in effective population size and mechanisms of dosage compensation may influence
the perceived extent of Faster-X evolution, and help to explain several clade-specific
patterns that we observe.
acknowledgement: We gratefully acknowledge funding from the Royal Society (to JEM)
author:
- first_name: Judith
full_name: Mank, Judith E
last_name: Mank
- first_name: Beatriz
full_name: Beatriz Vicoso
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Sofia
full_name: Berlin, Sofia
last_name: Berlin
- first_name: Brian
full_name: Charlesworth, Brian
last_name: Charlesworth
citation:
ama: 'Mank J, Vicoso B, Berlin S, Charlesworth B. Effective population size and
the Faster-X effect: Empirical results and their interpretation. Evolution.
2010;64(3):663-674. doi:10.1111/j.1558-5646.2009.00853.x'
apa: 'Mank, J., Vicoso, B., Berlin, S., & Charlesworth, B. (2010). Effective
population size and the Faster-X effect: Empirical results and their interpretation.
Evolution. Wiley-Blackwell. https://doi.org/10.1111/j.1558-5646.2009.00853.x'
chicago: 'Mank, Judith, Beatriz Vicoso, Sofia Berlin, and Brian Charlesworth. “Effective
Population Size and the Faster-X Effect: Empirical Results and Their Interpretation.”
Evolution. Wiley-Blackwell, 2010. https://doi.org/10.1111/j.1558-5646.2009.00853.x.'
ieee: 'J. Mank, B. Vicoso, S. Berlin, and B. Charlesworth, “Effective population
size and the Faster-X effect: Empirical results and their interpretation,” Evolution,
vol. 64, no. 3. Wiley-Blackwell, pp. 663–674, 2010.'
ista: 'Mank J, Vicoso B, Berlin S, Charlesworth B. 2010. Effective population size
and the Faster-X effect: Empirical results and their interpretation. Evolution.
64(3), 663–674.'
mla: 'Mank, Judith, et al. “Effective Population Size and the Faster-X Effect: Empirical
Results and Their Interpretation.” Evolution, vol. 64, no. 3, Wiley-Blackwell,
2010, pp. 663–74, doi:10.1111/j.1558-5646.2009.00853.x.'
short: J. Mank, B. Vicoso, S. Berlin, B. Charlesworth, Evolution 64 (2010) 663–674.
date_created: 2018-12-11T11:55:32Z
date_published: 2010-03-01T00:00:00Z
date_updated: 2021-01-12T06:55:07Z
day: '01'
doi: 10.1111/j.1558-5646.2009.00853.x
extern: 1
intvolume: ' 64'
issue: '3'
month: '03'
page: 663 - 674
publication: Evolution
publication_status: published
publisher: Wiley-Blackwell
publist_id: '4967'
quality_controlled: 0
status: public
title: 'Effective population size and the Faster-X effect: Empirical results and their
interpretation'
type: journal_article
volume: 64
year: '2010'
...
---
_id: '2067'
acknowledgement: This work was funded by a Portuguese Foundation for Science and Technology
scholarship to B.V., and B.C. was supported by the Royal Society
author:
- first_name: Beatriz
full_name: Beatriz Vicoso
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Brian
full_name: Charlesworth, Brian
last_name: Charlesworth
citation:
ama: Vicoso B, Charlesworth B. Recombination rates may affect the ratio of X to
autosomal noncoding polymorphism in African populations of Drosophila melanogaster.
Genetics. 2009;181(4):1699-1701. doi:10.1534/genetics.108.098004
apa: Vicoso, B., & Charlesworth, B. (2009). Recombination rates may affect the
ratio of X to autosomal noncoding polymorphism in African populations of Drosophila
melanogaster. Genetics. Genetics Society of America. https://doi.org/10.1534/genetics.108.098004
chicago: Vicoso, Beatriz, and Brian Charlesworth. “Recombination Rates May Affect
the Ratio of X to Autosomal Noncoding Polymorphism in African Populations of Drosophila
Melanogaster.” Genetics. Genetics Society of America, 2009. https://doi.org/10.1534/genetics.108.098004.
ieee: B. Vicoso and B. Charlesworth, “Recombination rates may affect the ratio of
X to autosomal noncoding polymorphism in African populations of Drosophila melanogaster,”
Genetics, vol. 181, no. 4. Genetics Society of America, pp. 1699–1701,
2009.
ista: Vicoso B, Charlesworth B. 2009. Recombination rates may affect the ratio of
X to autosomal noncoding polymorphism in African populations of Drosophila melanogaster.
Genetics. 181(4), 1699–1701.
mla: Vicoso, Beatriz, and Brian Charlesworth. “Recombination Rates May Affect the
Ratio of X to Autosomal Noncoding Polymorphism in African Populations of Drosophila
Melanogaster.” Genetics, vol. 181, no. 4, Genetics Society of America,
2009, pp. 1699–701, doi:10.1534/genetics.108.098004.
short: B. Vicoso, B. Charlesworth, Genetics 181 (2009) 1699–1701.
date_created: 2018-12-11T11:55:31Z
date_published: 2009-04-01T00:00:00Z
date_updated: 2021-01-12T06:55:06Z
day: '01'
doi: 10.1534/genetics.108.098004
extern: 1
intvolume: ' 181'
issue: '4'
month: '04'
page: 1699 - 1701
publication: Genetics
publication_status: published
publisher: Genetics Society of America
publist_id: '4971'
quality_controlled: 0
status: public
title: Recombination rates may affect the ratio of X to autosomal noncoding polymorphism
in African populations of Drosophila melanogaster
type: journal_article
volume: 181
year: '2009'
...
---
_id: '2068'
abstract:
- lang: eng
text: In Drosophila, there is a consistent deficit of male-biased genes on the X
chromosome. It has been suggested that male-biased genes may evolve from initially
unbiased genes as a result of increased expression levels in males. If transcription
rates are limited, a large increase in expression in the testis may be harder
to achieve for single-copy X-linked genes than for autosomal genes, because they
are already hypertranscribed due to dosage compensation. This hypothesis predicts
that the larger the increase in expression required to make a male-biased gene,
the lower the chance of this being achievable if it is located on the X chromosome.
Consequently, highly expressed male-biased genes should be located on the X chromosome
less often than lowly expressed male-biased genes. This pattern is observed in
our analysis of publicly available data, where microarray data or EST data are
used to detect male-biased genes in D. melanogaster and to measure their expression
levels. This is consistent with the idea that limitations in transcription rates
may prevent male-biased genes from accumulating on the X chromosome.
acknowledgement: This work was funded by a Portuguese Foundation for Science and Technology
scholarship to B.V., and B.C. was supported by the Royal Society
author:
- first_name: Beatriz
full_name: Beatriz Vicoso
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Brian
full_name: Charlesworth, Brian
last_name: Charlesworth
citation:
ama: 'Vicoso B, Charlesworth B. The deficit of male-biased genes on the D. melanogaster
X chromosome is expression-dependent: A consequence of dosage compensation? Journal
of Molecular Evolution. 2009;68(5):576-583. doi:10.1007/s00239-009-9235-4'
apa: 'Vicoso, B., & Charlesworth, B. (2009). The deficit of male-biased genes
on the D. melanogaster X chromosome is expression-dependent: A consequence of
dosage compensation? Journal of Molecular Evolution. Springer. https://doi.org/10.1007/s00239-009-9235-4'
chicago: 'Vicoso, Beatriz, and Brian Charlesworth. “The Deficit of Male-Biased Genes
on the D. Melanogaster X Chromosome Is Expression-Dependent: A Consequence of
Dosage Compensation?” Journal of Molecular Evolution. Springer, 2009. https://doi.org/10.1007/s00239-009-9235-4.'
ieee: 'B. Vicoso and B. Charlesworth, “The deficit of male-biased genes on the D.
melanogaster X chromosome is expression-dependent: A consequence of dosage compensation?,”
Journal of Molecular Evolution, vol. 68, no. 5. Springer, pp. 576–583,
2009.'
ista: 'Vicoso B, Charlesworth B. 2009. The deficit of male-biased genes on the D.
melanogaster X chromosome is expression-dependent: A consequence of dosage compensation?
Journal of Molecular Evolution. 68(5), 576–583.'
mla: 'Vicoso, Beatriz, and Brian Charlesworth. “The Deficit of Male-Biased Genes
on the D. Melanogaster X Chromosome Is Expression-Dependent: A Consequence of
Dosage Compensation?” Journal of Molecular Evolution, vol. 68, no. 5, Springer,
2009, pp. 576–83, doi:10.1007/s00239-009-9235-4.'
short: B. Vicoso, B. Charlesworth, Journal of Molecular Evolution 68 (2009) 576–583.
date_created: 2018-12-11T11:55:31Z
date_published: 2009-05-01T00:00:00Z
date_updated: 2021-01-12T06:55:06Z
day: '01'
doi: 10.1007/s00239-009-9235-4
extern: 1
intvolume: ' 68'
issue: '5'
month: '05'
page: 576 - 583
publication: Journal of Molecular Evolution
publication_status: published
publisher: Springer
publist_id: '4970'
quality_controlled: 0
status: public
title: 'The deficit of male-biased genes on the D. melanogaster X chromosome is expression-dependent:
A consequence of dosage compensation?'
type: journal_article
volume: 68
year: '2009'
...
---
_id: '2069'
abstract:
- lang: eng
text: Current models of X-linked and autosomal evolutionary rates often assume that
the effective population size of the X chromosome (NeX) is equal to three-quarters
of the autosomal population size (NeA). However, polymorphism studies of Drosophila
melanogaster and D. simulans suggest that there are often significant deviations
from this value. We have computed fixation rates of beneficial and deleterious
mutations at X-linked and autosomal sites when this occurs. We find that NeX/NeA
is a crucial parameter for the rates of evolution of X-linked sites compared to
autosomal sites. Faster-X evolution due to the fixation of beneficial mutations
can occur under a much wider range of levels of dominance when NeX/N eA > 3/4.
We also examined various parameters that are known to influence the rates of evolution
at X-linked and autosomal sites, such as different mutation rates in males and
females and mutations that are sexually antagonistic, to determine which cases
can lead to faster-X evolution. We show that, when the rate of nonsynonymous evolution
is normalized by the rate of neutral evolution, a sex difference in mutation rate
has no influence on the conditions for faster-X evolution.
acknowledgement: This work was funded by a Portuguese Foundation for Science and Technology
scholarship to BV, and BC was supported by the Royal Society
author:
- first_name: Beatriz
full_name: Beatriz Vicoso
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Brian
full_name: Charlesworth, Brian
last_name: Charlesworth
citation:
ama: 'Vicoso B, Charlesworth B. Effective population size and the faster-X effect:
An extended model. Evolution. 2009;63(9):2413-2426. doi:10.1111/j.1558-5646.2009.00719.x'
apa: 'Vicoso, B., & Charlesworth, B. (2009). Effective population size and the
faster-X effect: An extended model. Evolution. Wiley-Blackwell. https://doi.org/10.1111/j.1558-5646.2009.00719.x'
chicago: 'Vicoso, Beatriz, and Brian Charlesworth. “Effective Population Size and
the Faster-X Effect: An Extended Model.” Evolution. Wiley-Blackwell, 2009.
https://doi.org/10.1111/j.1558-5646.2009.00719.x.'
ieee: 'B. Vicoso and B. Charlesworth, “Effective population size and the faster-X
effect: An extended model,” Evolution, vol. 63, no. 9. Wiley-Blackwell,
pp. 2413–2426, 2009.'
ista: 'Vicoso B, Charlesworth B. 2009. Effective population size and the faster-X
effect: An extended model. Evolution. 63(9), 2413–2426.'
mla: 'Vicoso, Beatriz, and Brian Charlesworth. “Effective Population Size and the
Faster-X Effect: An Extended Model.” Evolution, vol. 63, no. 9, Wiley-Blackwell,
2009, pp. 2413–26, doi:10.1111/j.1558-5646.2009.00719.x.'
short: B. Vicoso, B. Charlesworth, Evolution 63 (2009) 2413–2426.
date_created: 2018-12-11T11:55:32Z
date_published: 2009-09-01T00:00:00Z
date_updated: 2021-01-12T06:55:06Z
day: '01'
doi: 10.1111/j.1558-5646.2009.00719.x
extern: 1
intvolume: ' 63'
issue: '9'
month: '09'
page: 2413 - 2426
publication: Evolution
publication_status: published
publisher: Wiley-Blackwell
publist_id: '4968'
quality_controlled: 0
status: public
title: 'Effective population size and the faster-X effect: An extended model'
type: journal_article
volume: 63
year: '2009'
...
---
_id: '2070'
abstract:
- lang: eng
text: In many eukaryotic organisms, gender is determined by a pair of heteromorphic
sex chromosomes. Degeneration of the non-recombining Y chromosome is a general
facet of sex chromosome evolution. Selective pressure to restore expression levels
of X-linked genes relative to autosomes accompanies Y-chromosome degeneration,
thus driving the evolution of dosage compensation mechanisms. This review focuses
on evolutionary aspects of dosage compensation, in light of recent advances in
comparative and functional genomics that have substantially increased our understanding
of the molecular mechanisms of dosage compensation and how it evolved. We review
processes involved in sex chromosome evolution, and discuss the dynamic interaction
between Y degeneration and the acquisition of dosage compensation. We compare
mechanisms of dosage compensation and the origin of dosage compensation genes
between different taxa and comment on sex chromosomes that apparently lack compensation
mechanisms. Finally, we discuss how dosage compensation systems can also influence
the evolution of well-established sex chromosomes.
acknowledgement: This research is funded by NIH Grant GM076007 and a Sloan Research
Fellowship and a David and Lucile Packard Fellowship to D.B.
author:
- first_name: Beatriz
full_name: Beatriz Vicoso
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Doris
full_name: Bachtrog, Doris
last_name: Bachtrog
citation:
ama: Vicoso B, Bachtrog D. Progress and prospects toward our understanding of the
evolution of dosage compensation. Chromosome Research. 2009;17(5):585-602.
doi:10.1007/s10577-009-9053-y
apa: Vicoso, B., & Bachtrog, D. (2009). Progress and prospects toward our understanding
of the evolution of dosage compensation. Chromosome Research. Springer.
https://doi.org/10.1007/s10577-009-9053-y
chicago: Vicoso, Beatriz, and Doris Bachtrog. “Progress and Prospects toward Our
Understanding of the Evolution of Dosage Compensation.” Chromosome Research.
Springer, 2009. https://doi.org/10.1007/s10577-009-9053-y.
ieee: B. Vicoso and D. Bachtrog, “Progress and prospects toward our understanding
of the evolution of dosage compensation,” Chromosome Research, vol. 17,
no. 5. Springer, pp. 585–602, 2009.
ista: Vicoso B, Bachtrog D. 2009. Progress and prospects toward our understanding
of the evolution of dosage compensation. Chromosome Research. 17(5), 585–602.
mla: Vicoso, Beatriz, and Doris Bachtrog. “Progress and Prospects toward Our Understanding
of the Evolution of Dosage Compensation.” Chromosome Research, vol. 17,
no. 5, Springer, 2009, pp. 585–602, doi:10.1007/s10577-009-9053-y.
short: B. Vicoso, D. Bachtrog, Chromosome Research 17 (2009) 585–602.
date_created: 2018-12-11T11:55:32Z
date_published: 2009-07-01T00:00:00Z
date_updated: 2021-01-12T06:55:07Z
day: '01'
doi: 10.1007/s10577-009-9053-y
extern: 1
intvolume: ' 17'
issue: '5'
month: '07'
page: 585 - 602
publication: Chromosome Research
publication_status: published
publisher: Springer
publist_id: '4969'
quality_controlled: 0
status: public
title: Progress and prospects toward our understanding of the evolution of dosage
compensation
type: journal_article
volume: 17
year: '2009'
...
---
_id: '2065'
abstract:
- lang: eng
text: 'Population genetics models show that, under certain conditions, the X chromosome
is expected to be under more efficient selection than the autosomes. This could
lead to ''faster-X evolution'', if a large proportion of mutations are fixed by
positive selection, as suggested by recent studies in Drosophila. We used a multispecies
approach to test this: Muller''s element D, an autosomal arm, is fused to the
ancestral X chromosome in Drosophila pseudoobscura and its sister species, Drosophila
affinis. We tested whether the same set of genes had higher rates of non-synonymous
evolution when they were X-linked (in the D. pseudoobscura/D. affinis comparison)
than when they were autosomal (in Drosophila melanogaster/Drosophila yakuba).
Although not significant, our results suggest this may be the case, but only for
genes under particularly strong positive selection/weak purifying selection. They
also suggest that genes that have become X-linked have higher levels of codon
bias and slower synonymous site evolution, consistent with more effective selection
on codon usage at X-linked sites.'
acknowledgement: B.V. was supported by the Portuguese Foundation for Science and Technology,
P.R.H. is supported by the Natural Environmental Research Council (UK) and B.C.
was supported by the Royal Society (UK)
author:
- first_name: Beatriz
full_name: Beatriz Vicoso
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Penelope
full_name: Haddrill, Penelope R
last_name: Haddrill
- first_name: Brian
full_name: Charlesworth, Brian
last_name: Charlesworth
citation:
ama: Vicoso B, Haddrill P, Charlesworth B. A multispecies approach for comparing
sequence evolution of X-linked and autosomal sites in Drosophila. Genetical
Research. 2008;90(5):421-431. doi:10.1017/S0016672308009804
apa: Vicoso, B., Haddrill, P., & Charlesworth, B. (2008). A multispecies approach
for comparing sequence evolution of X-linked and autosomal sites in Drosophila.
Genetical Research. Cambridge University Press. https://doi.org/10.1017/S0016672308009804
chicago: Vicoso, Beatriz, Penelope Haddrill, and Brian Charlesworth. “A Multispecies
Approach for Comparing Sequence Evolution of X-Linked and Autosomal Sites in Drosophila.”
Genetical Research. Cambridge University Press, 2008. https://doi.org/10.1017/S0016672308009804.
ieee: B. Vicoso, P. Haddrill, and B. Charlesworth, “A multispecies approach for
comparing sequence evolution of X-linked and autosomal sites in Drosophila,” Genetical
Research, vol. 90, no. 5. Cambridge University Press, pp. 421–431, 2008.
ista: Vicoso B, Haddrill P, Charlesworth B. 2008. A multispecies approach for comparing
sequence evolution of X-linked and autosomal sites in Drosophila. Genetical Research.
90(5), 421–431.
mla: Vicoso, Beatriz, et al. “A Multispecies Approach for Comparing Sequence Evolution
of X-Linked and Autosomal Sites in Drosophila.” Genetical Research, vol.
90, no. 5, Cambridge University Press, 2008, pp. 421–31, doi:10.1017/S0016672308009804.
short: B. Vicoso, P. Haddrill, B. Charlesworth, Genetical Research 90 (2008) 421–431.
date_created: 2018-12-11T11:55:30Z
date_published: 2008-10-01T00:00:00Z
date_updated: 2021-01-12T06:55:05Z
day: '01'
doi: 10.1017/S0016672308009804
extern: 1
intvolume: ' 90'
issue: '5'
month: '10'
page: 421 - 431
publication: Genetical Research
publication_status: published
publisher: Cambridge University Press
publist_id: '4972'
quality_controlled: 0
status: public
title: A multispecies approach for comparing sequence evolution of X-linked and autosomal
sites in Drosophila
type: journal_article
volume: 90
year: '2008'
...
---
_id: '2066'
abstract:
- lang: eng
text: Although the X chromosome is usually similar to the autosomes in size and
cytogenetic appearance, theoretical models predict that its hemizygosity in males
may cause unusual patterns of evolution. The sequencing of several genomes has
indeed revealed differences between the X chromosome and the autosomes in the
rates of gene divergence, patterns of gene expression and rates of gene movement
between chromosomes. A better understanding of these patterns should provide valuable
information on the evolution of genes located on the X chromosome. It could also
suggest solutions to more general problems in molecular evolution, such as detecting
selection and estimating mutational effects on fitness
acknowledgement: B.V. is supported by a postgraduate fellowship from the Fundação
de Ciência e Tecnologia of Portugal, and B.C. by the Royal Society (UK)
author:
- first_name: Beatriz
full_name: Beatriz Vicoso
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Brian
full_name: Charlesworth, Brian
last_name: Charlesworth
citation:
ama: 'Vicoso B, Charlesworth B. Evolution on the X chromosome: Unusual patterns
and processes. Nature Reviews Genetics. 2006;7(8):645-653. doi:10.1038/nrg1914'
apa: 'Vicoso, B., & Charlesworth, B. (2006). Evolution on the X chromosome:
Unusual patterns and processes. Nature Reviews Genetics. Nature Publishing
Group. https://doi.org/10.1038/nrg1914'
chicago: 'Vicoso, Beatriz, and Brian Charlesworth. “Evolution on the X Chromosome:
Unusual Patterns and Processes.” Nature Reviews Genetics. Nature Publishing
Group, 2006. https://doi.org/10.1038/nrg1914.'
ieee: 'B. Vicoso and B. Charlesworth, “Evolution on the X chromosome: Unusual patterns
and processes,” Nature Reviews Genetics, vol. 7, no. 8. Nature Publishing
Group, pp. 645–653, 2006.'
ista: 'Vicoso B, Charlesworth B. 2006. Evolution on the X chromosome: Unusual patterns
and processes. Nature Reviews Genetics. 7(8), 645–653.'
mla: 'Vicoso, Beatriz, and Brian Charlesworth. “Evolution on the X Chromosome: Unusual
Patterns and Processes.” Nature Reviews Genetics, vol. 7, no. 8, Nature
Publishing Group, 2006, pp. 645–53, doi:10.1038/nrg1914.'
short: B. Vicoso, B. Charlesworth, Nature Reviews Genetics 7 (2006) 645–653.
date_created: 2018-12-11T11:55:31Z
date_published: 2006-08-01T00:00:00Z
date_updated: 2021-01-12T06:55:05Z
day: '01'
doi: 10.1038/nrg1914
extern: 1
intvolume: ' 7'
issue: '8'
month: '08'
page: 645 - 653
publication: Nature Reviews Genetics
publication_status: published
publisher: Nature Publishing Group
publist_id: '4973'
quality_controlled: 0
status: public
title: 'Evolution on the X chromosome: Unusual patterns and processes'
type: journal_article
volume: 7
year: '2006'
...