---
_id: '11062'
abstract:
- lang: eng
  text: Most neurons are not replaced during an animal’s lifetime. This nondividing
    state is characterized by extreme longevity and age-dependent decline of key regulatory
    proteins. To study the lifespans of cells and proteins in adult tissues, we combined
    isotope labeling of mice with a hybrid imaging method (MIMS-EM). Using 15N mapping,
    we show that liver and pancreas are composed of cells with vastly different ages,
    many as old as the animal. Strikingly, we also found that a subset of fibroblasts
    and endothelial cells, both known for their replicative potential, are characterized
    by the absence of cell division during adulthood. In addition, we show that the
    primary cilia of beta cells and neurons contains different structural regions
    with vastly different lifespans. Based on these results, we propose that age mosaicism
    across multiple scales is a fundamental principle of adult tissue, cell, and protein
    complex organization.
article_processing_charge: No
article_type: original
author:
- first_name: Rafael
  full_name: Arrojo e Drigo, Rafael
  last_name: Arrojo e Drigo
- first_name: Varda
  full_name: Lev-Ram, Varda
  last_name: Lev-Ram
- first_name: Swati
  full_name: Tyagi, Swati
  last_name: Tyagi
- first_name: Ranjan
  full_name: Ramachandra, Ranjan
  last_name: Ramachandra
- first_name: Thomas
  full_name: Deerinck, Thomas
  last_name: Deerinck
- first_name: Eric
  full_name: Bushong, Eric
  last_name: Bushong
- first_name: Sebastien
  full_name: Phan, Sebastien
  last_name: Phan
- first_name: Victoria
  full_name: Orphan, Victoria
  last_name: Orphan
- first_name: Claude
  full_name: Lechene, Claude
  last_name: Lechene
- first_name: Mark H.
  full_name: Ellisman, Mark H.
  last_name: Ellisman
- first_name: Martin W
  full_name: HETZER, Martin W
  id: 86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed
  last_name: HETZER
  orcid: 0000-0002-2111-992X
citation:
  ama: Arrojo e Drigo R, Lev-Ram V, Tyagi S, et al. Age mosaicism across multiple
    scales in adult tissues. <i>Cell Metabolism</i>. 2019;30(2):343-351.e3. doi:<a
    href="https://doi.org/10.1016/j.cmet.2019.05.010">10.1016/j.cmet.2019.05.010</a>
  apa: Arrojo e Drigo, R., Lev-Ram, V., Tyagi, S., Ramachandra, R., Deerinck, T.,
    Bushong, E., … Hetzer, M. (2019). Age mosaicism across multiple scales in adult
    tissues. <i>Cell Metabolism</i>. Elsevier. <a href="https://doi.org/10.1016/j.cmet.2019.05.010">https://doi.org/10.1016/j.cmet.2019.05.010</a>
  chicago: Arrojo e Drigo, Rafael, Varda Lev-Ram, Swati Tyagi, Ranjan Ramachandra,
    Thomas Deerinck, Eric Bushong, Sebastien Phan, et al. “Age Mosaicism across Multiple
    Scales in Adult Tissues.” <i>Cell Metabolism</i>. Elsevier, 2019. <a href="https://doi.org/10.1016/j.cmet.2019.05.010">https://doi.org/10.1016/j.cmet.2019.05.010</a>.
  ieee: R. Arrojo e Drigo <i>et al.</i>, “Age mosaicism across multiple scales in
    adult tissues,” <i>Cell Metabolism</i>, vol. 30, no. 2. Elsevier, p. 343–351.e3,
    2019.
  ista: Arrojo e Drigo R, Lev-Ram V, Tyagi S, Ramachandra R, Deerinck T, Bushong E,
    Phan S, Orphan V, Lechene C, Ellisman MH, Hetzer M. 2019. Age mosaicism across
    multiple scales in adult tissues. Cell Metabolism. 30(2), 343–351.e3.
  mla: Arrojo e Drigo, Rafael, et al. “Age Mosaicism across Multiple Scales in Adult
    Tissues.” <i>Cell Metabolism</i>, vol. 30, no. 2, Elsevier, 2019, p. 343–351.e3,
    doi:<a href="https://doi.org/10.1016/j.cmet.2019.05.010">10.1016/j.cmet.2019.05.010</a>.
  short: R. Arrojo e Drigo, V. Lev-Ram, S. Tyagi, R. Ramachandra, T. Deerinck, E.
    Bushong, S. Phan, V. Orphan, C. Lechene, M.H. Ellisman, M. Hetzer, Cell Metabolism
    30 (2019) 343–351.e3.
date_created: 2022-04-07T07:45:21Z
date_published: 2019-08-06T00:00:00Z
date_updated: 2025-12-15T10:02:11Z
day: '06'
department:
- _id: MaHe
doi: 10.1016/j.cmet.2019.05.010
extern: '1'
external_id:
  pmid:
  - '31178361'
intvolume: '        30'
issue: '2'
keyword:
- Cell Biology
- Molecular Biology
- Physiology
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1016/j.cmet.2019.05.010
month: '08'
oa: 1
oa_version: Published Version
page: 343-351.e3
pmid: 1
publication: Cell Metabolism
publication_identifier:
  issn:
  - 1550-4131
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Age mosaicism across multiple scales in adult tissues
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 30
year: '2019'
...
---
_id: '105'
abstract:
- lang: eng
  text: 'Clinical Utility Gene Card. 1. Name of Disease (Synonyms): Pontocerebellar
    hypoplasia type 9 (PCH9) and spastic paraplegia-63 (SPG63). 2. OMIM# of the Disease:
    615809 and 615686. 3. Name of the Analysed Genes or DNA/Chromosome Segments: AMPD2
    at 1p13.3. 4. OMIM# of the Gene(s): 102771.'
acknowledgement: 'This work was supported by EuroGentest2 (Unit 2: “Genetic testing
  as part of health care”), a Coordination Action under FP7 (Grant Agreement Number
  261469) and the European Society of Human Genetics. We acknowledge the participation
  of the patients and their families in these studies, as well as the generous financial
  support of the Lefroy and Handbury families. APLM was supported by an Australian
  Postgraduate Award. PJL is supported by an NHMRC Career Development Fellowship (GNT1032364).
  RJL is supported by a Melbourne Children’s Clinician Scientist Fellowship.'
article_processing_charge: No
article_type: original
author:
- first_name: Ashley
  full_name: Marsh, Ashley
  last_name: Marsh
- first_name: Gaia
  full_name: Novarino, Gaia
  id: 3E57A680-F248-11E8-B48F-1D18A9856A87
  last_name: Novarino
  orcid: 0000-0002-7673-7178
- first_name: Paul
  full_name: Lockhart, Paul
  last_name: Lockhart
- first_name: Richard
  full_name: Leventer, Richard
  last_name: Leventer
citation:
  ama: Marsh A, Novarino G, Lockhart P, Leventer R. CUGC for pontocerebellar hypoplasia
    type 9 and spastic paraplegia-63. <i>European Journal of Human Genetics</i>. 2019;27:161-166.
    doi:<a href="https://doi.org/10.1038/s41431-018-0231-2">10.1038/s41431-018-0231-2</a>
  apa: Marsh, A., Novarino, G., Lockhart, P., &#38; Leventer, R. (2019). CUGC for
    pontocerebellar hypoplasia type 9 and spastic paraplegia-63. <i>European Journal
    of Human Genetics</i>. Springer Nature. <a href="https://doi.org/10.1038/s41431-018-0231-2">https://doi.org/10.1038/s41431-018-0231-2</a>
  chicago: Marsh, Ashley, Gaia Novarino, Paul Lockhart, and Richard Leventer. “CUGC
    for Pontocerebellar Hypoplasia Type 9 and Spastic Paraplegia-63.” <i>European
    Journal of Human Genetics</i>. Springer Nature, 2019. <a href="https://doi.org/10.1038/s41431-018-0231-2">https://doi.org/10.1038/s41431-018-0231-2</a>.
  ieee: A. Marsh, G. Novarino, P. Lockhart, and R. Leventer, “CUGC for pontocerebellar
    hypoplasia type 9 and spastic paraplegia-63,” <i>European Journal of Human Genetics</i>,
    vol. 27. Springer Nature, pp. 161–166, 2019.
  ista: Marsh A, Novarino G, Lockhart P, Leventer R. 2019. CUGC for pontocerebellar
    hypoplasia type 9 and spastic paraplegia-63. European Journal of Human Genetics.
    27, 161–166.
  mla: Marsh, Ashley, et al. “CUGC for Pontocerebellar Hypoplasia Type 9 and Spastic
    Paraplegia-63.” <i>European Journal of Human Genetics</i>, vol. 27, Springer Nature,
    2019, pp. 161–66, doi:<a href="https://doi.org/10.1038/s41431-018-0231-2">10.1038/s41431-018-0231-2</a>.
  short: A. Marsh, G. Novarino, P. Lockhart, R. Leventer, European Journal of Human
    Genetics 27 (2019) 161–166.
date_created: 2018-12-11T11:44:39Z
date_published: 2019-01-01T00:00:00Z
date_updated: 2023-08-24T14:28:24Z
day: '01'
department:
- _id: GaNo
doi: 10.1038/s41431-018-0231-2
external_id:
  isi:
  - '000454111500019'
  pmid:
  - '30089829'
intvolume: '        27'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1038/s41431-018-0231-2
month: '01'
oa: 1
oa_version: Published Version
page: 161-166
pmid: 1
publication: European Journal of Human Genetics
publication_status: published
publisher: Springer Nature
publist_id: '7949'
quality_controlled: '1'
scopus_import: '1'
status: public
title: CUGC for pontocerebellar hypoplasia type 9 and spastic paraplegia-63
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 27
year: '2019'
...
---
_id: '175'
abstract:
- lang: eng
  text: An upper bound sieve for rational points on suitable varieties isdeveloped,
    together with applications tocounting rational points in thin sets,to local solubility
    in families, and to the notion of “friable” rational pointswith respect to divisors.
    In the special case of quadrics, sharper estimates areobtained by developing a
    version of the Selberg sieve for rational points.
article_processing_charge: No
arxiv: 1
author:
- first_name: Timothy D
  full_name: Browning, Timothy D
  id: 35827D50-F248-11E8-B48F-1D18A9856A87
  last_name: Browning
  orcid: 0000-0002-8314-0177
- first_name: Daniel
  full_name: Loughran, Daniel
  last_name: Loughran
citation:
  ama: Browning TD, Loughran D. Sieving rational points on varieties. <i>Transactions
    of the American Mathematical Society</i>. 2019;371(8):5757-5785. doi:<a href="https://doi.org/10.1090/tran/7514">10.1090/tran/7514</a>
  apa: Browning, T. D., &#38; Loughran, D. (2019). Sieving rational points on varieties.
    <i>Transactions of the American Mathematical Society</i>. American Mathematical
    Society. <a href="https://doi.org/10.1090/tran/7514">https://doi.org/10.1090/tran/7514</a>
  chicago: Browning, Timothy D, and Daniel Loughran. “Sieving Rational Points on Varieties.”
    <i>Transactions of the American Mathematical Society</i>. American Mathematical
    Society, 2019. <a href="https://doi.org/10.1090/tran/7514">https://doi.org/10.1090/tran/7514</a>.
  ieee: T. D. Browning and D. Loughran, “Sieving rational points on varieties,” <i>Transactions
    of the American Mathematical Society</i>, vol. 371, no. 8. American Mathematical
    Society, pp. 5757–5785, 2019.
  ista: Browning TD, Loughran D. 2019. Sieving rational points on varieties. Transactions
    of the American Mathematical Society. 371(8), 5757–5785.
  mla: Browning, Timothy D., and Daniel Loughran. “Sieving Rational Points on Varieties.”
    <i>Transactions of the American Mathematical Society</i>, vol. 371, no. 8, American
    Mathematical Society, 2019, pp. 5757–85, doi:<a href="https://doi.org/10.1090/tran/7514">10.1090/tran/7514</a>.
  short: T.D. Browning, D. Loughran, Transactions of the American Mathematical Society
    371 (2019) 5757–5785.
date_created: 2018-12-11T11:45:01Z
date_published: 2019-04-15T00:00:00Z
date_updated: 2025-07-10T11:51:20Z
day: '15'
department:
- _id: TiBr
doi: 10.1090/tran/7514
external_id:
  arxiv:
  - '1705.01999'
  isi:
  - '000464034200019'
intvolume: '       371'
isi: 1
issue: '8'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://arxiv.org/abs/1705.01999
month: '04'
oa: 1
oa_version: Preprint
page: 5757-5785
publication: Transactions of the American Mathematical Society
publication_identifier:
  eissn:
  - 1088-6850
  issn:
  - 0002-9947
publication_status: published
publisher: American Mathematical Society
publist_id: '7746'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Sieving rational points on varieties
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 371
year: '2019'
...
---
_id: '8'
abstract:
- lang: eng
  text: Despite their different origins, Drosophila glia and hemocytes are related
    cell populations that provide an immune function. Drosophila hemocytes patrol
    the body cavity and act as macrophages outside the nervous system whereas glia
    originate from the neuroepithelium and provide the scavenger population of the
    nervous system. Drosophila glia are hence the functional orthologs of vertebrate
    microglia, even though the latter are cells of immune origin that subsequently
    move into the brain during development. Interestingly, the Drosophila immune cells
    within (glia) and outside the nervous system (hemocytes) require the same transcription
    factor Glide/Gcm for their development. This raises the issue of how do glia specifically
    differentiate in the nervous system and hemocytes in the procephalic mesoderm.
    The Repo homeodomain transcription factor and pan-glial direct target of Glide/Gcm
    is known to ensure glial terminal differentiation. Here we show that Repo also
    takes center stage in the process that discriminates between glia and hemocytes.
    First, Repo expression is repressed in the hemocyte anlagen by mesoderm-specific
    factors. Second, Repo ectopic activation in the procephalic mesoderm is sufficient
    to repress the expression of hemocyte-specific genes. Third, the lack of Repo
    triggers the expression of hemocyte markers in glia. Thus, a complex network of
    tissue-specific cues biases the potential of Glide/Gcm. These data allow us to
    revise the concept of fate determinants and help us understand the bases of cell
    specification. Both sexes were analyzed.SIGNIFICANCE STATEMENTDistinct cell types
    often require the same pioneer transcription factor, raising the issue of how
    does one factor trigger different fates. In Drosophila, glia and hemocytes provide
    a scavenger activity within and outside the nervous system, respectively. While
    they both require the Glide/Gcm transcription factor, glia originate from the
    ectoderm, hemocytes from the mesoderm. Here we show that tissue-specific factors
    inhibit the gliogenic potential of Glide/Gcm in the mesoderm by repressing the
    expression of the homeodomain protein Repo, a major glial-specific target of Glide/Gcm.
    Repo expression in turn inhibits the expression of hemocyte-specific genes in
    the nervous system. These cell-specific networks secure the establishment of the
    glial fate only in the nervous system and allow cell diversification.
acknowledgement: This work was supported by INSERM, CNRS, UDS, Ligue Régionale contre
  le Cancer, Hôpital de Strasbourg, Association pour la Recherche sur le Cancer (ARC)
  and Agence Nationale de la Recherche (ANR) grants. P.B.C. was funded by the ANR
  and by the ARSEP (Fondation pour l'Aide à la Recherche sur la Sclérose en Plaques),
  and G.T. by governmental and ARC fellowships. This work was also supported by grants
  from the Ataxia UK (2491) and the NC3R (NC/L000199/1) awarded to M.F. The Institut
  de Génétique et de Biologie Moléculaire et Cellulaire was also supported by a French
  state fund through the ANR labex. D.E.S. was funded by Marie Curie Grant CIG 334077/IRTIM.
  We thank B. Altenhein, K. Brückner, M. Crozatier, L. Waltzer, M. Logan, E. Kurant,
  R. Reuter, E. Kurucz, J.L Dimarcq, J. Hoffmann, C. Goodman, the DHSB, and the BDSC
  for reagents and flies. We also thank all of the laboratory members for comments
  on the manuscript; C. Diebold, C. Delaporte, M. Pezze, the fly, and imaging and
  antibody facilities for technical assistance; and D. Dembele for help with statistics.
  In addition, we thank Alison Brewer for help with Luciferase assays.
article_processing_charge: No
article_type: original
author:
- first_name: Guillaume
  full_name: Trébuchet, Guillaume
  last_name: Trébuchet
- first_name: Pierre B
  full_name: Cattenoz, Pierre B
  last_name: Cattenoz
- first_name: János
  full_name: Zsámboki, János
  last_name: Zsámboki
- first_name: David
  full_name: Mazaud, David
  last_name: Mazaud
- first_name: Daria E
  full_name: Siekhaus, Daria E
  id: 3D224B9E-F248-11E8-B48F-1D18A9856A87
  last_name: Siekhaus
  orcid: 0000-0001-8323-8353
- first_name: Manolis
  full_name: Fanto, Manolis
  last_name: Fanto
- first_name: Angela
  full_name: Giangrande, Angela
  last_name: Giangrande
citation:
  ama: Trébuchet G, Cattenoz PB, Zsámboki J, et al. The Repo homeodomain transcription
    factor suppresses hematopoiesis in Drosophila and preserves the glial fate. <i>Journal
    of Neuroscience</i>. 2019;39(2):238-255. doi:<a href="https://doi.org/10.1523/JNEUROSCI.1059-18.2018">10.1523/JNEUROSCI.1059-18.2018</a>
  apa: Trébuchet, G., Cattenoz, P. B., Zsámboki, J., Mazaud, D., Siekhaus, D. E.,
    Fanto, M., &#38; Giangrande, A. (2019). The Repo homeodomain transcription factor
    suppresses hematopoiesis in Drosophila and preserves the glial fate. <i>Journal
    of Neuroscience</i>. Society for Neuroscience. <a href="https://doi.org/10.1523/JNEUROSCI.1059-18.2018">https://doi.org/10.1523/JNEUROSCI.1059-18.2018</a>
  chicago: Trébuchet, Guillaume, Pierre B Cattenoz, János Zsámboki, David Mazaud,
    Daria E Siekhaus, Manolis Fanto, and Angela Giangrande. “The Repo Homeodomain
    Transcription Factor Suppresses Hematopoiesis in Drosophila and Preserves the
    Glial Fate.” <i>Journal of Neuroscience</i>. Society for Neuroscience, 2019. <a
    href="https://doi.org/10.1523/JNEUROSCI.1059-18.2018">https://doi.org/10.1523/JNEUROSCI.1059-18.2018</a>.
  ieee: G. Trébuchet <i>et al.</i>, “The Repo homeodomain transcription factor suppresses
    hematopoiesis in Drosophila and preserves the glial fate,” <i>Journal of Neuroscience</i>,
    vol. 39, no. 2. Society for Neuroscience, pp. 238–255, 2019.
  ista: Trébuchet G, Cattenoz PB, Zsámboki J, Mazaud D, Siekhaus DE, Fanto M, Giangrande
    A. 2019. The Repo homeodomain transcription factor suppresses hematopoiesis in
    Drosophila and preserves the glial fate. Journal of Neuroscience. 39(2), 238–255.
  mla: Trébuchet, Guillaume, et al. “The Repo Homeodomain Transcription Factor Suppresses
    Hematopoiesis in Drosophila and Preserves the Glial Fate.” <i>Journal of Neuroscience</i>,
    vol. 39, no. 2, Society for Neuroscience, 2019, pp. 238–55, doi:<a href="https://doi.org/10.1523/JNEUROSCI.1059-18.2018">10.1523/JNEUROSCI.1059-18.2018</a>.
  short: G. Trébuchet, P.B. Cattenoz, J. Zsámboki, D. Mazaud, D.E. Siekhaus, M. Fanto,
    A. Giangrande, Journal of Neuroscience 39 (2019) 238–255.
date_created: 2018-12-11T11:44:07Z
date_published: 2019-01-09T00:00:00Z
date_updated: 2025-04-15T06:52:10Z
day: '09'
ddc:
- '570'
department:
- _id: DaSi
doi: 10.1523/JNEUROSCI.1059-18.2018
ec_funded: 1
external_id:
  isi:
  - '000455189900006'
  pmid:
  - '30504274'
file:
- access_level: open_access
  checksum: 8f6925eb4cd1e8747d8ea25929c68de6
  content_type: application/pdf
  creator: dernst
  date_created: 2020-10-02T09:33:28Z
  date_updated: 2020-10-02T09:33:28Z
  file_id: '8596'
  file_name: 2019_JournNeuroscience_Trebuchet.pdf
  file_size: 9455414
  relation: main_file
  success: 1
file_date_updated: 2020-10-02T09:33:28Z
has_accepted_license: '1'
intvolume: '        39'
isi: 1
issue: '2'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 238-255
pmid: 1
project:
- _id: 2536F660-B435-11E9-9278-68D0E5697425
  call_identifier: FP7
  grant_number: '334077'
  name: Investigating the role of transporters in invasive migration through junctions
publication: Journal of Neuroscience
publication_status: published
publisher: Society for Neuroscience
publist_id: '8048'
quality_controlled: '1'
scopus_import: '1'
status: public
title: The Repo homeodomain transcription factor suppresses hematopoiesis in Drosophila
  and preserves the glial fate
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 39
year: '2019'
...
---
_id: '80'
abstract:
- lang: eng
  text: 'We consider an interacting, dilute Bose gas trapped in a harmonic potential
    at a positive temperature. The system is analyzed in a combination of a thermodynamic
    and a Gross–Pitaevskii (GP) limit where the trap frequency ω, the temperature
    T, and the particle number N are related by N∼ (T/ ω) 3→ ∞ while the scattering
    length is so small that the interaction energy per particle around the center
    of the trap is of the same order of magnitude as the spectral gap in the trap.
    We prove that the difference between the canonical free energy of the interacting
    gas and the one of the noninteracting system can be obtained by minimizing the
    GP energy functional. We also prove Bose–Einstein condensation in the following
    sense: The one-particle density matrix of any approximate minimizer of the canonical
    free energy functional is to leading order given by that of the noninteracting
    gas but with the free condensate wavefunction replaced by the GP minimizer.'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Andreas
  full_name: Deuchert, Andreas
  id: 4DA65CD0-F248-11E8-B48F-1D18A9856A87
  last_name: Deuchert
  orcid: 0000-0003-3146-6746
- first_name: Robert
  full_name: Seiringer, Robert
  id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
  last_name: Seiringer
  orcid: 0000-0002-6781-0521
- first_name: Jakob
  full_name: Yngvason, Jakob
  last_name: Yngvason
citation:
  ama: Deuchert A, Seiringer R, Yngvason J. Bose–Einstein condensation in a dilute,
    trapped gas at positive temperature. <i>Communications in Mathematical Physics</i>.
    2019;368(2):723-776. doi:<a href="https://doi.org/10.1007/s00220-018-3239-0">10.1007/s00220-018-3239-0</a>
  apa: Deuchert, A., Seiringer, R., &#38; Yngvason, J. (2019). Bose–Einstein condensation
    in a dilute, trapped gas at positive temperature. <i>Communications in Mathematical
    Physics</i>. Springer. <a href="https://doi.org/10.1007/s00220-018-3239-0">https://doi.org/10.1007/s00220-018-3239-0</a>
  chicago: Deuchert, Andreas, Robert Seiringer, and Jakob Yngvason. “Bose–Einstein
    Condensation in a Dilute, Trapped Gas at Positive Temperature.” <i>Communications
    in Mathematical Physics</i>. Springer, 2019. <a href="https://doi.org/10.1007/s00220-018-3239-0">https://doi.org/10.1007/s00220-018-3239-0</a>.
  ieee: A. Deuchert, R. Seiringer, and J. Yngvason, “Bose–Einstein condensation in
    a dilute, trapped gas at positive temperature,” <i>Communications in Mathematical
    Physics</i>, vol. 368, no. 2. Springer, pp. 723–776, 2019.
  ista: Deuchert A, Seiringer R, Yngvason J. 2019. Bose–Einstein condensation in a
    dilute, trapped gas at positive temperature. Communications in Mathematical Physics.
    368(2), 723–776.
  mla: Deuchert, Andreas, et al. “Bose–Einstein Condensation in a Dilute, Trapped
    Gas at Positive Temperature.” <i>Communications in Mathematical Physics</i>, vol.
    368, no. 2, Springer, 2019, pp. 723–76, doi:<a href="https://doi.org/10.1007/s00220-018-3239-0">10.1007/s00220-018-3239-0</a>.
  short: A. Deuchert, R. Seiringer, J. Yngvason, Communications in Mathematical Physics
    368 (2019) 723–776.
date_created: 2018-12-11T11:44:31Z
date_published: 2019-06-01T00:00:00Z
date_updated: 2025-04-14T07:27:00Z
day: '01'
ddc:
- '530'
department:
- _id: RoSe
doi: 10.1007/s00220-018-3239-0
ec_funded: 1
external_id:
  isi:
  - '000467796800007'
file:
- access_level: open_access
  checksum: c7e9880b43ac726712c1365e9f2f73a6
  content_type: application/pdf
  creator: dernst
  date_created: 2018-12-17T10:34:06Z
  date_updated: 2020-07-14T12:48:07Z
  file_id: '5688'
  file_name: 2018_CommunMathPhys_Deuchert.pdf
  file_size: 893902
  relation: main_file
file_date_updated: 2020-07-14T12:48:07Z
has_accepted_license: '1'
intvolume: '       368'
isi: 1
issue: '2'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: 723-776
project:
- _id: 25C6DC12-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '694227'
  name: Analysis of quantum many-body systems
- _id: 25C878CE-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: P27533_N27
  name: Structure of the Excitation Spectrum for Many-Body Quantum Systems
publication: Communications in Mathematical Physics
publication_status: published
publisher: Springer
publist_id: '7974'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Bose–Einstein condensation in a dilute, trapped gas at positive temperature
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: 368
year: '2019'
...
---
_id: '8175'
abstract:
- lang: eng
  text: We study edge asymptotics of poissonized Plancherel-type measures on skew
    Young diagrams (integer partitions). These measures can be seen as generalizations
    of those studied by Baik--Deift--Johansson and Baik--Rains in resolving Ulam's
    problem on longest increasing subsequences of random permutations and the last
    passage percolation (corner growth) discrete versions thereof. Moreover they interpolate
    between said measures and the uniform measure on partitions. In the new KPZ-like
    1/3 exponent edge scaling limit with logarithmic corrections, we find new probability
    distributions generalizing the classical Tracy--Widom GUE, GOE and GSE distributions
    from the theory of random matrices.
acknowledgement: "D.B. is especially grateful to Patrik Ferrari for suggesting simplifications
  in Section 3 and\r\nto Alessandra Occelli for suggesting the name for the models
  of Section 2.\r\n"
article_number: '34'
article_processing_charge: No
arxiv: 1
author:
- first_name: Dan
  full_name: Betea, Dan
  last_name: Betea
- first_name: Jérémie
  full_name: Bouttier, Jérémie
  last_name: Bouttier
- first_name: Peter
  full_name: Nejjar, Peter
  id: 4BF426E2-F248-11E8-B48F-1D18A9856A87
  last_name: Nejjar
- first_name: Mirjana
  full_name: Vuletíc, Mirjana
  last_name: Vuletíc
citation:
  ama: 'Betea D, Bouttier J, Nejjar P, Vuletíc M. New edge asymptotics of skew Young
    diagrams via free boundaries. In: <i>Proceedings on the 31st International Conference
    on Formal Power Series and Algebraic Combinatorics</i>. Formal Power Series and
    Algebraic Combinatorics; 2019.'
  apa: 'Betea, D., Bouttier, J., Nejjar, P., &#38; Vuletíc, M. (2019). New edge asymptotics
    of skew Young diagrams via free boundaries. In <i>Proceedings on the 31st International
    Conference on Formal Power Series and Algebraic Combinatorics</i>. Ljubljana,
    Slovenia: Formal Power Series and Algebraic Combinatorics.'
  chicago: Betea, Dan, Jérémie Bouttier, Peter Nejjar, and Mirjana Vuletíc. “New Edge
    Asymptotics of Skew Young Diagrams via Free Boundaries.” In <i>Proceedings on
    the 31st International Conference on Formal Power Series and Algebraic Combinatorics</i>.
    Formal Power Series and Algebraic Combinatorics, 2019.
  ieee: D. Betea, J. Bouttier, P. Nejjar, and M. Vuletíc, “New edge asymptotics of
    skew Young diagrams via free boundaries,” in <i>Proceedings on the 31st International
    Conference on Formal Power Series and Algebraic Combinatorics</i>, Ljubljana,
    Slovenia, 2019.
  ista: 'Betea D, Bouttier J, Nejjar P, Vuletíc M. 2019. New edge asymptotics of skew
    Young diagrams via free boundaries. Proceedings on the 31st International Conference
    on Formal Power Series and Algebraic Combinatorics. FPSAC: International Conference
    on Formal Power Series and Algebraic Combinatorics, 34.'
  mla: Betea, Dan, et al. “New Edge Asymptotics of Skew Young Diagrams via Free Boundaries.”
    <i>Proceedings on the 31st International Conference on Formal Power Series and
    Algebraic Combinatorics</i>, 34, Formal Power Series and Algebraic Combinatorics,
    2019.
  short: D. Betea, J. Bouttier, P. Nejjar, M. Vuletíc, in:, Proceedings on the 31st
    International Conference on Formal Power Series and Algebraic Combinatorics, Formal
    Power Series and Algebraic Combinatorics, 2019.
conference:
  end_date: 2019-07-05
  location: Ljubljana, Slovenia
  name: 'FPSAC: International Conference on Formal Power Series and Algebraic Combinatorics'
  start_date: 2019-07-01
date_created: 2020-07-26T22:01:04Z
date_published: 2019-07-01T00:00:00Z
date_updated: 2021-01-12T08:17:18Z
day: '01'
department:
- _id: LaEr
ec_funded: 1
external_id:
  arxiv:
  - '1902.08750'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://arxiv.org/abs/1902.08750
month: '07'
oa: 1
oa_version: Preprint
project:
- _id: 258DCDE6-B435-11E9-9278-68D0E5697425
  call_identifier: FP7
  grant_number: '338804'
  name: Random matrices, universality and disordered quantum systems
- _id: 256E75B8-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '716117'
  name: Optimal Transport and Stochastic Dynamics
publication: Proceedings on the 31st International Conference on Formal Power Series
  and Algebraic Combinatorics
publication_status: published
publisher: Formal Power Series and Algebraic Combinatorics
quality_controlled: '1'
scopus_import: '1'
status: public
title: New edge asymptotics of skew Young diagrams via free boundaries
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2019'
...
---
_id: '8281'
abstract:
- lang: eng
  text: We review the history of population genetics, starting with its origins a
    century ago from the synthesis between Mendel and Darwin's ideas, through to the
    recent development of sophisticated schemes of inference from sequence data, based
    on the coalescent. We explain the close relation between the coalescent and a
    diffusion process, which we illustrate by their application to understand spatial
    structure. We summarise the powerful methods available for analysis of multiple
    loci, when linkage equilibrium can be assumed, and then discuss approaches to
    the more challenging case, where associations between alleles require that we
    follow genotype, rather than allele, frequencies. Though we can hardly cover the
    whole of population genetics, we give an overview of the current state of the
    subject, and future challenges to it.
article_processing_charge: No
author:
- 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: Alison
  full_name: Etheridge, Alison
  last_name: Etheridge
citation:
  ama: 'Barton NH, Etheridge A. Mathematical models in population genetics. In: Balding
    D, Moltke I, Marioni J, eds. <i>Handbook of Statistical Genomics</i>. 4th ed.
    Wiley; 2019:115-144. doi:<a href="https://doi.org/10.1002/9781119487845.ch4">10.1002/9781119487845.ch4</a>'
  apa: Barton, N. H., &#38; Etheridge, A. (2019). Mathematical models in population
    genetics. In D. Balding, I. Moltke, &#38; J. Marioni (Eds.), <i>Handbook of statistical
    genomics</i> (4th ed., pp. 115–144). Wiley. <a href="https://doi.org/10.1002/9781119487845.ch4">https://doi.org/10.1002/9781119487845.ch4</a>
  chicago: Barton, Nicholas H, and Alison Etheridge. “Mathematical Models in Population
    Genetics.” In <i>Handbook of Statistical Genomics</i>, edited by David Balding,
    Ida Moltke, and John Marioni, 4th ed., 115–44. Wiley, 2019. <a href="https://doi.org/10.1002/9781119487845.ch4">https://doi.org/10.1002/9781119487845.ch4</a>.
  ieee: N. H. Barton and A. Etheridge, “Mathematical models in population genetics,”
    in <i>Handbook of statistical genomics</i>, 4th ed., D. Balding, I. Moltke, and
    J. Marioni, Eds. Wiley, 2019, pp. 115–144.
  ista: 'Barton NH, Etheridge A. 2019.Mathematical models in population genetics.
    In: Handbook of statistical genomics. , 115–144.'
  mla: Barton, Nicholas H., and Alison Etheridge. “Mathematical Models in Population
    Genetics.” <i>Handbook of Statistical Genomics</i>, edited by David Balding et
    al., 4th ed., Wiley, 2019, pp. 115–44, doi:<a href="https://doi.org/10.1002/9781119487845.ch4">10.1002/9781119487845.ch4</a>.
  short: N.H. Barton, A. Etheridge, in:, D. Balding, I. Moltke, J. Marioni (Eds.),
    Handbook of Statistical Genomics, 4th ed., Wiley, 2019, pp. 115–144.
date_created: 2020-08-21T04:25:39Z
date_published: 2019-07-29T00:00:00Z
date_updated: 2024-10-21T06:02:39Z
day: '29'
ddc:
- '576'
department:
- _id: NiBa
doi: 10.1002/9781119487845.ch4
edition: '4'
editor:
- first_name: David
  full_name: Balding, David
  last_name: Balding
- first_name: Ida
  full_name: Moltke, Ida
  last_name: Moltke
- first_name: John
  full_name: Marioni, John
  last_name: Marioni
external_id:
  isi:
  - '000261343000003'
isi: 1
language:
- iso: eng
month: '07'
oa_version: None
page: 115-144
publication: Handbook of statistical genomics
publication_identifier:
  isbn:
  - '9781119429142'
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Mathematical models in population genetics
type: book_chapter
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2019'
...
---
_id: '8305'
abstract:
- lang: eng
  text: In this paper, we present the first fully asynchronous distributed key generation
    (ADKG) algorithm as well as the first distributed key generation algorithm that
    can create keys with a dual (f,2f+1)−threshold that are necessary for scalable
    consensus (which so far needs a trusted dealer assumption). In order to create
    a DKG with a dual (f,2f+1)− threshold we first answer in the affirmative the open
    question posed by Cachin et al. how to create an AVSS protocol with recovery thresholds
    f+1<k≤2f+1, which is of independent interest. Our High-threshold-AVSS (HAVSS)
    uses an asymmetric bi-variate polynomial, where the secret shared is hidden from
    any set of k nodes but an honest node that did not participate in the sharing
    phase can still recover his share with only n−2f shares, hence be able to contribute
    in the secret reconstruction. Another building block for ADKG is a novel Eventually
    Perfect Common Coin (EPCC) abstraction and protocol that enables the participants
    to create a common coin that might fail to agree at most f+1 times (even if invoked
    a polynomial number of times). Using EPCC we implement an Eventually Efficient
    Asynchronous Binary Agreement (EEABA) in which each instance takes O(n2) bits
    and O(1) rounds in expectation, except for at most f+1 instances which may take
    O(n4) bits and O(n) rounds in total. Using EEABA we construct the first fully
    Asynchronous Distributed Key Generation (ADKG) which has the same overhead and
    expected runtime as the best partially-synchronous DKG (O(n4) words, O(n) rounds).
    As a corollary of our ADKG we can also create the first Validated Asynchronous
    Byzantine Agreement (VABA) in the authenticated setting that does not need a trusted
    dealer to setup threshold signatures of degree n−f. Our VABA has an overhead of
    expected O(n2) words and O(1) time per instance after an initial O(n4) words and
    O(n) time bootstrap via ADKG.
article_number: 2019/1015
article_processing_charge: No
author:
- first_name: Eleftherios
  full_name: KOKORIS KOGIAS, Eleftherios
  id: f5983044-d7ef-11ea-ac6d-fd1430a26d30
  last_name: KOKORIS KOGIAS
- first_name: Alexander
  full_name: Spiegelman, Alexander
  last_name: Spiegelman
- first_name: Dahlia
  full_name: Malkhi, Dahlia
  last_name: Malkhi
- first_name: Ittai
  full_name: Abraham, Ittai
  last_name: Abraham
citation:
  ama: 'Kokoris Kogias E, Spiegelman A, Malkhi D, Abraham I. Bootstrapping consensus
    without trusted setup: Fully asynchronous distributed key generation. <i>Cryptology
    ePrint Archive</i>.'
  apa: 'Kokoris Kogias, E., Spiegelman, A., Malkhi, D., &#38; Abraham, I. (n.d.).
    Bootstrapping consensus without trusted setup: Fully asynchronous distributed
    key generation. <i>Cryptology ePrint Archive</i>.'
  chicago: 'Kokoris Kogias, Eleftherios, Alexander Spiegelman, Dahlia Malkhi, and
    Ittai Abraham. “Bootstrapping Consensus without Trusted Setup: Fully Asynchronous
    Distributed Key Generation.” <i>Cryptology EPrint Archive</i>, n.d.'
  ieee: 'E. Kokoris Kogias, A. Spiegelman, D. Malkhi, and I. Abraham, “Bootstrapping
    consensus without trusted setup: Fully asynchronous distributed key generation,”
    <i>Cryptology ePrint Archive</i>. .'
  ista: 'Kokoris Kogias E, Spiegelman A, Malkhi D, Abraham I. Bootstrapping consensus
    without trusted setup: Fully asynchronous distributed key generation. Cryptology
    ePrint Archive, 2019/1015.'
  mla: 'Kokoris Kogias, Eleftherios, et al. “Bootstrapping Consensus without Trusted
    Setup: Fully Asynchronous Distributed Key Generation.” <i>Cryptology EPrint Archive</i>,
    2019/1015.'
  short: E. Kokoris Kogias, A. Spiegelman, D. Malkhi, I. Abraham, Cryptology EPrint
    Archive (n.d.).
date_created: 2020-08-26T12:18:00Z
date_published: 2019-09-10T00:00:00Z
date_updated: 2025-01-20T14:08:03Z
day: '10'
department:
- _id: ElKo
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://eprint.iacr.org/2019/1015
month: '09'
oa: 1
oa_version: Preprint
publication: Cryptology ePrint Archive
publication_status: submitted
status: public
title: 'Bootstrapping consensus without trusted setup: Fully asynchronous distributed
  key generation'
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2019'
...
---
_id: '9261'
abstract:
- lang: eng
  text: 'Bending-active structures are able to efficiently produce complex curved
    shapes starting from flat panels. The desired deformation of the panels derives
    from the proper selection of their elastic properties. Optimized panels, called
    FlexMaps, are designed such that, once they are bent and assembled, the resulting
    static equilibrium configuration matches a desired input 3D shape. The FlexMaps
    elastic properties are controlled by locally varying spiraling geometric mesostructures,
    which are optimized in size and shape to match the global curvature (i.e., bending
    requests) of the target shape. The design pipeline starts from a quad mesh representing
    the input 3D shape, which defines the edge size and the total amount of spirals:
    every quad will embed one spiral. Then, an optimization algorithm tunes the geometry
    of the spirals by using a simplified pre-computed rod model. This rod model is
    derived from a non-linear regression algorithm which approximates the non-linear
    behavior of solid FEM spiral models subject to hundreds of load combinations.
    This innovative pipeline has been applied to the project of a lightweight plywood
    pavilion named FlexMaps Pavilion, which is a single-layer piecewise twisted arc
    that fits a bounding box of 3.90x3.96x3.25 meters.'
article_processing_charge: No
author:
- first_name: Francesco
  full_name: Laccone, Francesco
  last_name: Laccone
- first_name: Luigi
  full_name: Malomo, Luigi
  last_name: Malomo
- first_name: Jesus
  full_name: Perez Rodriguez, Jesus
  id: 2DC83906-F248-11E8-B48F-1D18A9856A87
  last_name: Perez Rodriguez
- first_name: Nico
  full_name: Pietroni, Nico
  last_name: Pietroni
- first_name: Federico
  full_name: Ponchio, Federico
  last_name: Ponchio
- first_name: Bernd
  full_name: Bickel, Bernd
  id: 49876194-F248-11E8-B48F-1D18A9856A87
  last_name: Bickel
  orcid: 0000-0001-6511-9385
- first_name: Paolo
  full_name: Cignoni, Paolo
  last_name: Cignoni
citation:
  ama: 'Laccone F, Malomo L, Perez Rodriguez J, et al. FlexMaps Pavilion: A twisted
    arc made of mesostructured flat flexible panels. In: <i>IASS Symposium 2019 -
    60th Anniversary Symposium of the International Association for Shell and Spatial
    Structures; Structural Membranes 2019 - 9th International Conference on Textile
    Composites and Inflatable Structures, FORM and FORCE</i>. International Center
    for Numerical Methods in Engineering; 2019:509-515.'
  apa: 'Laccone, F., Malomo, L., Perez Rodriguez, J., Pietroni, N., Ponchio, F., Bickel,
    B., &#38; Cignoni, P. (2019). FlexMaps Pavilion: A twisted arc made of mesostructured
    flat flexible panels. In <i>IASS Symposium 2019 - 60th Anniversary Symposium of
    the International Association for Shell and Spatial Structures; Structural Membranes
    2019 - 9th International Conference on Textile Composites and Inflatable Structures,
    FORM and FORCE</i> (pp. 509–515). Barcelona, Spain: International Center for Numerical
    Methods in Engineering.'
  chicago: 'Laccone, Francesco, Luigi Malomo, Jesus Perez Rodriguez, Nico Pietroni,
    Federico Ponchio, Bernd Bickel, and Paolo Cignoni. “FlexMaps Pavilion: A Twisted
    Arc Made of Mesostructured Flat Flexible Panels.” In <i>IASS Symposium 2019 -
    60th Anniversary Symposium of the International Association for Shell and Spatial
    Structures; Structural Membranes 2019 - 9th International Conference on Textile
    Composites and Inflatable Structures, FORM and FORCE</i>, 509–15. International
    Center for Numerical Methods in Engineering, 2019.'
  ieee: 'F. Laccone <i>et al.</i>, “FlexMaps Pavilion: A twisted arc made of mesostructured
    flat flexible panels,” in <i>IASS Symposium 2019 - 60th Anniversary Symposium
    of the International Association for Shell and Spatial Structures; Structural
    Membranes 2019 - 9th International Conference on Textile Composites and Inflatable
    Structures, FORM and FORCE</i>, Barcelona, Spain, 2019, pp. 509–515.'
  ista: 'Laccone F, Malomo L, Perez Rodriguez J, Pietroni N, Ponchio F, Bickel B,
    Cignoni P. 2019. FlexMaps Pavilion: A twisted arc made of mesostructured flat
    flexible panels. IASS Symposium 2019 - 60th Anniversary Symposium of the International
    Association for Shell and Spatial Structures; Structural Membranes 2019 - 9th
    International Conference on Textile Composites and Inflatable Structures, FORM
    and FORCE. IASS: International Association for Shell and Spatial Structures, 509–515.'
  mla: 'Laccone, Francesco, et al. “FlexMaps Pavilion: A Twisted Arc Made of Mesostructured
    Flat Flexible Panels.” <i>IASS Symposium 2019 - 60th Anniversary Symposium of
    the International Association for Shell and Spatial Structures; Structural Membranes
    2019 - 9th International Conference on Textile Composites and Inflatable Structures,
    FORM and FORCE</i>, International Center for Numerical Methods in Engineering,
    2019, pp. 509–15.'
  short: F. Laccone, L. Malomo, J. Perez Rodriguez, N. Pietroni, F. Ponchio, B. Bickel,
    P. Cignoni, in:, IASS Symposium 2019 - 60th Anniversary Symposium of the International
    Association for Shell and Spatial Structures; Structural Membranes 2019 - 9th
    International Conference on Textile Composites and Inflatable Structures, FORM
    and FORCE, International Center for Numerical Methods in Engineering, 2019, pp.
    509–515.
conference:
  end_date: 2019-10-10
  location: Barcelona, Spain
  name: 'IASS: International Association for Shell and Spatial Structures'
  start_date: 2019-10-07
date_created: 2021-03-21T23:01:21Z
date_published: 2019-10-10T00:00:00Z
date_updated: 2023-09-08T11:21:54Z
day: '10'
department:
- _id: BeBi
external_id:
  isi:
  - '000563497600059'
isi: 1
language:
- iso: eng
month: '10'
oa_version: None
page: 509-515
publication: IASS Symposium 2019 - 60th Anniversary Symposium of the International
  Association for Shell and Spatial Structures; Structural Membranes 2019 - 9th International
  Conference on Textile Composites and Inflatable Structures, FORM and FORCE
publication_identifier:
  isbn:
  - '9788412110104'
  issn:
  - 2518-6582
publication_status: published
publisher: International Center for Numerical Methods in Engineering
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'FlexMaps Pavilion: A twisted arc made of mesostructured flat flexible panels'
type: conference
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2019'
...
---
_id: '9460'
abstract:
- lang: eng
  text: Epigenetic reprogramming is required for proper regulation of gene expression
    in eukaryotic organisms. In Arabidopsis, active DNA demethylation is crucial for
    seed viability, pollen function, and successful reproduction. The DEMETER (DME)
    DNA glycosylase initiates localized DNA demethylation in vegetative and central
    cells, so-called companion cells that are adjacent to sperm and egg gametes, respectively.
    In rice, the central cell genome displays local DNA hypomethylation, suggesting
    that active DNA demethylation also occurs in rice; however, the enzyme responsible
    for this process is unknown. One candidate is the rice REPRESSOR OF SILENCING
    1a (ROS1a) gene, which is related to DME and is essential for rice seed viability
    and pollen function. Here, we report genome-wide analyses of DNA methylation in
    wild-type and ros1a mutant sperm and vegetative cells. We find that the rice vegetative
    cell genome is locally hypomethylated compared with sperm by a process that requires
    ROS1a activity. We show that many ROS1a target sequences in the vegetative cell
    are hypomethylated in the rice central cell, suggesting that ROS1a also demethylates
    the central cell genome. Similar to Arabidopsis, we show that sperm non-CG methylation
    is indirectly promoted by DNA demethylation in the vegetative cell. These results
    reveal that DNA glycosylase-mediated DNA demethylation processes are conserved
    in Arabidopsis and rice, plant species that diverged 150 million years ago. Finally,
    although global non-CG methylation levels of sperm and egg differ, the maternal
    and paternal embryo genomes show similar non-CG methylation levels, suggesting
    that rice gamete genomes undergo dynamic DNA methylation reprogramming after cell
    fusion.
article_processing_charge: No
article_type: original
author:
- first_name: M. Yvonne
  full_name: Kim, M. Yvonne
  last_name: Kim
- first_name: Akemi
  full_name: Ono, Akemi
  last_name: Ono
- first_name: Stefan
  full_name: Scholten, Stefan
  last_name: Scholten
- first_name: Tetsu
  full_name: Kinoshita, Tetsu
  last_name: Kinoshita
- first_name: Daniel
  full_name: Zilberman, Daniel
  id: 6973db13-dd5f-11ea-814e-b3e5455e9ed1
  last_name: Zilberman
  orcid: 0000-0002-0123-8649
- first_name: Takashi
  full_name: Okamoto, Takashi
  last_name: Okamoto
- first_name: Robert L.
  full_name: Fischer, Robert L.
  last_name: Fischer
citation:
  ama: Kim MY, Ono A, Scholten S, et al. DNA demethylation by ROS1a in rice vegetative
    cells promotes methylation in sperm. <i>Proceedings of the National Academy of
    Sciences</i>. 2019;116(19):9652-9657. doi:<a href="https://doi.org/10.1073/pnas.1821435116">10.1073/pnas.1821435116</a>
  apa: Kim, M. Y., Ono, A., Scholten, S., Kinoshita, T., Zilberman, D., Okamoto, T.,
    &#38; Fischer, R. L. (2019). DNA demethylation by ROS1a in rice vegetative cells
    promotes methylation in sperm. <i>Proceedings of the National Academy of Sciences</i>.
    National Academy of Sciences. <a href="https://doi.org/10.1073/pnas.1821435116">https://doi.org/10.1073/pnas.1821435116</a>
  chicago: Kim, M. Yvonne, Akemi Ono, Stefan Scholten, Tetsu Kinoshita, Daniel Zilberman,
    Takashi Okamoto, and Robert L. Fischer. “DNA Demethylation by ROS1a in Rice Vegetative
    Cells Promotes Methylation in Sperm.” <i>Proceedings of the National Academy of
    Sciences</i>. National Academy of Sciences, 2019. <a href="https://doi.org/10.1073/pnas.1821435116">https://doi.org/10.1073/pnas.1821435116</a>.
  ieee: M. Y. Kim <i>et al.</i>, “DNA demethylation by ROS1a in rice vegetative cells
    promotes methylation in sperm,” <i>Proceedings of the National Academy of Sciences</i>,
    vol. 116, no. 19. National Academy of Sciences, pp. 9652–9657, 2019.
  ista: Kim MY, Ono A, Scholten S, Kinoshita T, Zilberman D, Okamoto T, Fischer RL.
    2019. DNA demethylation by ROS1a in rice vegetative cells promotes methylation
    in sperm. Proceedings of the National Academy of Sciences. 116(19), 9652–9657.
  mla: Kim, M. Yvonne, et al. “DNA Demethylation by ROS1a in Rice Vegetative Cells
    Promotes Methylation in Sperm.” <i>Proceedings of the National Academy of Sciences</i>,
    vol. 116, no. 19, National Academy of Sciences, 2019, pp. 9652–57, doi:<a href="https://doi.org/10.1073/pnas.1821435116">10.1073/pnas.1821435116</a>.
  short: M.Y. Kim, A. Ono, S. Scholten, T. Kinoshita, D. Zilberman, T. Okamoto, R.L.
    Fischer, Proceedings of the National Academy of Sciences 116 (2019) 9652–9657.
date_created: 2021-06-04T12:38:20Z
date_published: 2019-05-07T00:00:00Z
date_updated: 2021-12-14T07:52:30Z
day: '07'
ddc:
- '580'
department:
- _id: DaZi
doi: 10.1073/pnas.1821435116
extern: '1'
external_id:
  pmid:
  - '31000601'
file:
- access_level: open_access
  checksum: 5b0ae3779b8b21b5223bd2d3cceede3a
  content_type: application/pdf
  creator: asandaue
  date_created: 2021-06-04T12:50:47Z
  date_updated: 2021-06-04T12:50:47Z
  file_id: '9461'
  file_name: 2019_PNAS_Kim.pdf
  file_size: 1142540
  relation: main_file
  success: 1
file_date_updated: 2021-06-04T12:50:47Z
has_accepted_license: '1'
intvolume: '       116'
issue: '19'
keyword:
- Multidisciplinary
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '05'
oa: 1
oa_version: Published Version
page: 9652-9657
pmid: 1
publication: Proceedings of the National Academy of Sciences
publication_identifier:
  eissn:
  - 1091-6490
  issn:
  - 0027-8424
publication_status: published
publisher: National Academy of Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: DNA demethylation by ROS1a in rice vegetative cells promotes methylation in
  sperm
tmp:
  image: /images/cc_by_nc_nd.png
  legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
  name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
    (CC BY-NC-ND 4.0)
  short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 116
year: '2019'
...
---
_id: '9530'
abstract:
- lang: eng
  text: "Background\r\nDNA methylation of active genes, also known as gene body methylation,
    is found in many animal and plant genomes. Despite this, the transcriptional and
    developmental role of such methylation remains poorly understood. Here, we explore
    the dynamic range of DNA methylation in honey bee, a model organism for gene body
    methylation.\r\n\r\nResults\r\nOur data show that CG methylation in gene bodies
    globally fluctuates during honey bee development. However, these changes cause
    no gene expression alterations. Intriguingly, despite the global alterations,
    tissue-specific CG methylation patterns of complete genes or exons are rare, implying
    robust maintenance of genic methylation during development. Additionally, we show
    that CG methylation maintenance fluctuates in somatic cells, while reaching maximum
    fidelity in sperm cells. Finally, unlike universally present CG methylation, we
    discovered non-CG methylation specifically in bee heads that resembles such methylation
    in mammalian brain tissue.\r\n\r\nConclusions\r\nBased on these results, we propose
    that gene body CG methylation can oscillate during development if it is kept to
    a level adequate to preserve function. Additionally, our data suggest that heightened
    non-CG methylation is a conserved regulator of animal nervous systems."
article_number: '62'
article_processing_charge: No
article_type: original
author:
- first_name: Keith D.
  full_name: Harris, Keith D.
  last_name: Harris
- first_name: James P. B.
  full_name: Lloyd, James P. B.
  last_name: Lloyd
- first_name: Katherine
  full_name: Domb, Katherine
  last_name: Domb
- first_name: Daniel
  full_name: Zilberman, Daniel
  id: 6973db13-dd5f-11ea-814e-b3e5455e9ed1
  last_name: Zilberman
  orcid: 0000-0002-0123-8649
- first_name: Assaf
  full_name: Zemach, Assaf
  last_name: Zemach
citation:
  ama: Harris KD, Lloyd JPB, Domb K, Zilberman D, Zemach A. DNA methylation is maintained
    with high fidelity in the honey bee germline and exhibits global non-functional
    fluctuations during somatic development. <i>Epigenetics and Chromatin</i>. 2019;12.
    doi:<a href="https://doi.org/10.1186/s13072-019-0307-4">10.1186/s13072-019-0307-4</a>
  apa: Harris, K. D., Lloyd, J. P. B., Domb, K., Zilberman, D., &#38; Zemach, A. (2019).
    DNA methylation is maintained with high fidelity in the honey bee germline and
    exhibits global non-functional fluctuations during somatic development. <i>Epigenetics
    and Chromatin</i>. Springer Nature. <a href="https://doi.org/10.1186/s13072-019-0307-4">https://doi.org/10.1186/s13072-019-0307-4</a>
  chicago: Harris, Keith D., James P. B. Lloyd, Katherine Domb, Daniel Zilberman,
    and Assaf Zemach. “DNA Methylation Is Maintained with High Fidelity in the Honey
    Bee Germline and Exhibits Global Non-Functional Fluctuations during Somatic Development.”
    <i>Epigenetics and Chromatin</i>. Springer Nature, 2019. <a href="https://doi.org/10.1186/s13072-019-0307-4">https://doi.org/10.1186/s13072-019-0307-4</a>.
  ieee: K. D. Harris, J. P. B. Lloyd, K. Domb, D. Zilberman, and A. Zemach, “DNA methylation
    is maintained with high fidelity in the honey bee germline and exhibits global
    non-functional fluctuations during somatic development,” <i>Epigenetics and Chromatin</i>,
    vol. 12. Springer Nature, 2019.
  ista: Harris KD, Lloyd JPB, Domb K, Zilberman D, Zemach A. 2019. DNA methylation
    is maintained with high fidelity in the honey bee germline and exhibits global
    non-functional fluctuations during somatic development. Epigenetics and Chromatin.
    12, 62.
  mla: Harris, Keith D., et al. “DNA Methylation Is Maintained with High Fidelity
    in the Honey Bee Germline and Exhibits Global Non-Functional Fluctuations during
    Somatic Development.” <i>Epigenetics and Chromatin</i>, vol. 12, 62, Springer
    Nature, 2019, doi:<a href="https://doi.org/10.1186/s13072-019-0307-4">10.1186/s13072-019-0307-4</a>.
  short: K.D. Harris, J.P.B. Lloyd, K. Domb, D. Zilberman, A. Zemach, Epigenetics
    and Chromatin 12 (2019).
date_created: 2021-06-08T09:21:51Z
date_published: 2019-10-10T00:00:00Z
date_updated: 2021-12-14T07:53:00Z
day: '10'
ddc:
- '570'
department:
- _id: DaZi
doi: 10.1186/s13072-019-0307-4
extern: '1'
external_id:
  pmid:
  - '31601251'
file:
- access_level: open_access
  checksum: 86ff50a7517891511af2733c76c81b67
  content_type: application/pdf
  creator: asandaue
  date_created: 2021-06-08T09:29:19Z
  date_updated: 2021-06-08T09:29:19Z
  file_id: '9531'
  file_name: 2019_EpigeneticsAndChromatin_Harris.pdf
  file_size: 3221067
  relation: main_file
  success: 1
file_date_updated: 2021-06-08T09:29:19Z
has_accepted_license: '1'
intvolume: '        12'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
pmid: 1
publication: Epigenetics and Chromatin
publication_identifier:
  eissn:
  - 1756-8935
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: DNA methylation is maintained with high fidelity in the honey bee germline
  and exhibits global non-functional fluctuations during somatic development
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: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 12
year: '2019'
...
---
_id: '9726'
abstract:
- lang: eng
  text: A detailed description of the two stochastic models, table of parameters,
    supplementary data for Figures 4 and 5, parameter dependence of the results, and
    an analysis on motors with different force–velocity functions (PDF)
article_processing_charge: No
author:
- first_name: Mehmet C
  full_name: Ucar, Mehmet C
  id: 50B2A802-6007-11E9-A42B-EB23E6697425
  last_name: Ucar
  orcid: 0000-0003-0506-4217
- first_name: Reinhard
  full_name: Lipowsky, Reinhard
  last_name: Lipowsky
citation:
  ama: Ucar MC, Lipowsky R. Supplementary information - Collective force generation
    by molecular motors is determined by strain-induced unbinding. 2019. doi:<a href="https://doi.org/10.1021/acs.nanolett.9b04445.s001">10.1021/acs.nanolett.9b04445.s001</a>
  apa: Ucar, M. C., &#38; Lipowsky, R. (2019). Supplementary information - Collective
    force generation by molecular motors is determined by strain-induced unbinding.
    American Chemical Society . <a href="https://doi.org/10.1021/acs.nanolett.9b04445.s001">https://doi.org/10.1021/acs.nanolett.9b04445.s001</a>
  chicago: Ucar, Mehmet C, and Reinhard Lipowsky. “Supplementary Information - Collective
    Force Generation by Molecular Motors Is Determined by Strain-Induced Unbinding.”
    American Chemical Society , 2019. <a href="https://doi.org/10.1021/acs.nanolett.9b04445.s001">https://doi.org/10.1021/acs.nanolett.9b04445.s001</a>.
  ieee: M. C. Ucar and R. Lipowsky, “Supplementary information - Collective force
    generation by molecular motors is determined by strain-induced unbinding.” American
    Chemical Society , 2019.
  ista: Ucar MC, Lipowsky R. 2019. Supplementary information - Collective force generation
    by molecular motors is determined by strain-induced unbinding, American Chemical
    Society , <a href="https://doi.org/10.1021/acs.nanolett.9b04445.s001">10.1021/acs.nanolett.9b04445.s001</a>.
  mla: Ucar, Mehmet C., and Reinhard Lipowsky. <i>Supplementary Information - Collective
    Force Generation by Molecular Motors Is Determined by Strain-Induced Unbinding</i>.
    American Chemical Society , 2019, doi:<a href="https://doi.org/10.1021/acs.nanolett.9b04445.s001">10.1021/acs.nanolett.9b04445.s001</a>.
  short: M.C. Ucar, R. Lipowsky, (2019).
date_created: 2021-07-27T09:51:46Z
date_published: 2019-12-19T00:00:00Z
date_updated: 2024-10-09T20:59:07Z
day: '19'
department:
- _id: EdHa
doi: 10.1021/acs.nanolett.9b04445.s001
month: '12'
oa_version: Published Version
publisher: 'American Chemical Society '
related_material:
  record:
  - id: '7166'
    relation: used_in_publication
    status: public
status: public
title: Supplementary information - Collective force generation by molecular motors
  is determined by strain-induced unbinding
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2019'
...
---
_id: '9786'
article_processing_charge: No
author:
- first_name: Jakob
  full_name: Ruess, Jakob
  id: 4A245D00-F248-11E8-B48F-1D18A9856A87
  last_name: Ruess
  orcid: 0000-0003-1615-3282
- first_name: Maros
  full_name: Pleska, Maros
  id: 4569785E-F248-11E8-B48F-1D18A9856A87
  last_name: Pleska
  orcid: 0000-0001-7460-7479
- first_name: Calin C
  full_name: Guet, Calin C
  id: 47F8433E-F248-11E8-B48F-1D18A9856A87
  last_name: Guet
  orcid: 0000-0001-6220-2052
- first_name: Gašper
  full_name: Tkačik, Gašper
  id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
  last_name: Tkačik
  orcid: 0000-0002-6699-1455
citation:
  ama: Ruess J, Pleska M, Guet CC, Tkačik G. Supporting text and results. 2019. doi:<a
    href="https://doi.org/10.1371/journal.pcbi.1007168.s001">10.1371/journal.pcbi.1007168.s001</a>
  apa: Ruess, J., Pleska, M., Guet, C. C., &#38; Tkačik, G. (2019). Supporting text
    and results. Public Library of Science. <a href="https://doi.org/10.1371/journal.pcbi.1007168.s001">https://doi.org/10.1371/journal.pcbi.1007168.s001</a>
  chicago: Ruess, Jakob, Maros Pleska, Calin C Guet, and Gašper Tkačik. “Supporting
    Text and Results.” Public Library of Science, 2019. <a href="https://doi.org/10.1371/journal.pcbi.1007168.s001">https://doi.org/10.1371/journal.pcbi.1007168.s001</a>.
  ieee: J. Ruess, M. Pleska, C. C. Guet, and G. Tkačik, “Supporting text and results.”
    Public Library of Science, 2019.
  ista: Ruess J, Pleska M, Guet CC, Tkačik G. 2019. Supporting text and results, Public
    Library of Science, <a href="https://doi.org/10.1371/journal.pcbi.1007168.s001">10.1371/journal.pcbi.1007168.s001</a>.
  mla: Ruess, Jakob, et al. <i>Supporting Text and Results</i>. Public Library of
    Science, 2019, doi:<a href="https://doi.org/10.1371/journal.pcbi.1007168.s001">10.1371/journal.pcbi.1007168.s001</a>.
  short: J. Ruess, M. Pleska, C.C. Guet, G. Tkačik, (2019).
date_created: 2021-08-06T08:23:43Z
date_published: 2019-07-02T00:00:00Z
date_updated: 2025-04-15T07:33:55Z
day: '02'
department:
- _id: CaGu
- _id: GaTk
doi: 10.1371/journal.pcbi.1007168.s001
month: '07'
oa_version: Published Version
publisher: Public Library of Science
related_material:
  record:
  - id: '6784'
    relation: used_in_publication
    status: public
status: public
title: Supporting text and results
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2019'
...
---
_id: '9801'
article_processing_charge: No
author:
- first_name: Richard M.
  full_name: Merrill, Richard M.
  last_name: Merrill
- first_name: Pasi
  full_name: Rastas, Pasi
  last_name: Rastas
- first_name: Simon H.
  full_name: Martin, Simon H.
  last_name: Martin
- first_name: Maria C
  full_name: Melo Hurtado, Maria C
  id: 386D7308-F248-11E8-B48F-1D18A9856A87
  last_name: Melo Hurtado
- first_name: Sarah
  full_name: Barker, Sarah
  last_name: Barker
- first_name: John
  full_name: Davey, John
  last_name: Davey
- first_name: W. Owen
  full_name: Mcmillan, W. Owen
  last_name: Mcmillan
- first_name: Chris D.
  full_name: Jiggins, Chris D.
  last_name: Jiggins
citation:
  ama: Merrill RM, Rastas P, Martin SH, et al. Raw behavioral data. 2019. doi:<a href="https://doi.org/10.1371/journal.pbio.2005902.s006">10.1371/journal.pbio.2005902.s006</a>
  apa: Merrill, R. M., Rastas, P., Martin, S. H., Melo Hurtado, M. C., Barker, S.,
    Davey, J., … Jiggins, C. D. (2019). Raw behavioral data. Public Library of Science.
    <a href="https://doi.org/10.1371/journal.pbio.2005902.s006">https://doi.org/10.1371/journal.pbio.2005902.s006</a>
  chicago: Merrill, Richard M., Pasi Rastas, Simon H. Martin, Maria C Melo Hurtado,
    Sarah Barker, John Davey, W. Owen Mcmillan, and Chris D. Jiggins. “Raw Behavioral
    Data.” Public Library of Science, 2019. <a href="https://doi.org/10.1371/journal.pbio.2005902.s006">https://doi.org/10.1371/journal.pbio.2005902.s006</a>.
  ieee: R. M. Merrill <i>et al.</i>, “Raw behavioral data.” Public Library of Science,
    2019.
  ista: Merrill RM, Rastas P, Martin SH, Melo Hurtado MC, Barker S, Davey J, Mcmillan
    WO, Jiggins CD. 2019. Raw behavioral data, Public Library of Science, <a href="https://doi.org/10.1371/journal.pbio.2005902.s006">10.1371/journal.pbio.2005902.s006</a>.
  mla: Merrill, Richard M., et al. <i>Raw Behavioral Data</i>. Public Library of Science,
    2019, doi:<a href="https://doi.org/10.1371/journal.pbio.2005902.s006">10.1371/journal.pbio.2005902.s006</a>.
  short: R.M. Merrill, P. Rastas, S.H. Martin, M.C. Melo Hurtado, S. Barker, J. Davey,
    W.O. Mcmillan, C.D. Jiggins, (2019).
date_created: 2021-08-06T11:34:56Z
date_published: 2019-02-07T00:00:00Z
date_updated: 2023-08-24T14:46:23Z
day: '07'
department:
- _id: NiBa
doi: 10.1371/journal.pbio.2005902.s006
month: '02'
oa_version: Published Version
publisher: Public Library of Science
related_material:
  record:
  - id: '6022'
    relation: used_in_publication
    status: public
status: public
title: Raw behavioral data
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2019'
...
---
_id: '9802'
abstract:
- lang: eng
  text: This paper analyzes how partial selfing in a large source population influences
    its ability to colonize a new habitat via the introduction of a few founder individuals.
    Founders experience inbreeding depression due to partially recessive deleterious
    alleles as well as maladaptation to the new environment due to selection on a
    large number of additive loci. I first introduce a simplified version of the Inbreeding
    History Model (Kelly, 2007) in order to characterize mutation-selection balance
    in a large, partially selfing source population under selection involving multiple
    non-identical loci. I then use individual-based simulations to study the eco-evolutionary
    dynamics of founders establishing in the new habitat under a model of hard selection.
    The study explores how selfing rate shapes establishment probabilities of founders
    via effects on both inbreeding depression and adaptability to the new environment,
    and also distinguishes the effects of selfing on the initial fitness of founders
    from its effects on the long-term adaptive response of the populations they found.
    A high rate of (but not complete) selfing is found to aid establishment over a
    wide range of parameters, even in the absence of mate limitation. The sensitivity
    of the results to assumptions about the nature of polygenic selection are discussed.
article_processing_charge: No
author:
- first_name: Himani
  full_name: Sachdeva, Himani
  id: 42377A0A-F248-11E8-B48F-1D18A9856A87
  last_name: Sachdeva
citation:
  ama: 'Sachdeva H. Data from: Effect of partial selfing and polygenic selection on
    establishment in a new habitat. 2019. doi:<a href="https://doi.org/10.5061/dryad.8tp0900">10.5061/dryad.8tp0900</a>'
  apa: 'Sachdeva, H. (2019). Data from: Effect of partial selfing and polygenic selection
    on establishment in a new habitat. Dryad. <a href="https://doi.org/10.5061/dryad.8tp0900">https://doi.org/10.5061/dryad.8tp0900</a>'
  chicago: 'Sachdeva, Himani. “Data from: Effect of Partial Selfing and Polygenic
    Selection on Establishment in a New Habitat.” Dryad, 2019. <a href="https://doi.org/10.5061/dryad.8tp0900">https://doi.org/10.5061/dryad.8tp0900</a>.'
  ieee: 'H. Sachdeva, “Data from: Effect of partial selfing and polygenic selection
    on establishment in a new habitat.” Dryad, 2019.'
  ista: 'Sachdeva H. 2019. Data from: Effect of partial selfing and polygenic selection
    on establishment in a new habitat, Dryad, <a href="https://doi.org/10.5061/dryad.8tp0900">10.5061/dryad.8tp0900</a>.'
  mla: 'Sachdeva, Himani. <i>Data from: Effect of Partial Selfing and Polygenic Selection
    on Establishment in a New Habitat</i>. Dryad, 2019, doi:<a href="https://doi.org/10.5061/dryad.8tp0900">10.5061/dryad.8tp0900</a>.'
  short: H. Sachdeva, (2019).
date_created: 2021-08-06T11:45:11Z
date_published: 2019-07-16T00:00:00Z
date_updated: 2024-10-09T20:58:56Z
day: '16'
department:
- _id: NiBa
doi: 10.5061/dryad.8tp0900
main_file_link:
- open_access: '1'
  url: https://doi.org/10.5061/dryad.8tp0900
month: '07'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
  record:
  - id: '6680'
    relation: used_in_publication
    status: public
status: public
title: 'Data from: Effect of partial selfing and polygenic selection on establishment
  in a new habitat'
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2019'
...
---
_id: '9804'
abstract:
- lang: eng
  text: Evolutionary studies are often limited by missing data that are critical to
    understanding the history of selection. Selection experiments, which reproduce
    rapid evolution under controlled conditions, are excellent tools to study how
    genomes evolve under selection. Here we present a genomic dissection of the Longshanks
    selection experiment, in which mice were selectively bred over 20 generations
    for longer tibiae relative to body mass, resulting in 13% longer tibiae in two
    replicates. We synthesized evolutionary theory, genome sequences and molecular
    genetics to understand the selection response and found that it involved both
    polygenic adaptation and discrete loci of major effect, with the strongest loci
    tending to be selected in parallel between replicates. We show that selection
    may favor de-repression of bone growth through inactivating two limb enhancers
    of an inhibitor, Nkx3-2. Our integrative genomic analyses thus show that it is
    possible to connect individual base-pair changes to the overall selection response.
article_processing_charge: No
author:
- first_name: João Pl
  full_name: Castro, João Pl
  last_name: Castro
- first_name: Michelle N.
  full_name: Yancoskie, Michelle N.
  last_name: Yancoskie
- first_name: Marta
  full_name: Marchini, Marta
  last_name: Marchini
- first_name: Stefanie
  full_name: Belohlavy, Stefanie
  id: 43FE426A-F248-11E8-B48F-1D18A9856A87
  last_name: Belohlavy
  orcid: 0000-0002-9849-498X
- first_name: Layla
  full_name: Hiramatsu, Layla
  last_name: Hiramatsu
- first_name: Marek
  full_name: Kučka, Marek
  last_name: Kučka
- first_name: William H.
  full_name: Beluch, William H.
  last_name: Beluch
- first_name: Ronald
  full_name: Naumann, Ronald
  last_name: Naumann
- first_name: Isabella
  full_name: Skuplik, Isabella
  last_name: Skuplik
- first_name: John
  full_name: Cobb, John
  last_name: Cobb
- 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: Campbell
  full_name: Rolian, Campbell
  last_name: Rolian
- first_name: Yingguang Frank
  full_name: Chan, Yingguang Frank
  last_name: Chan
citation:
  ama: 'Castro JP, Yancoskie MN, Marchini M, et al. Data from: An integrative genomic
    analysis of the Longshanks selection experiment for longer limbs in mice. 2019.
    doi:<a href="https://doi.org/10.5061/dryad.0q2h6tk">10.5061/dryad.0q2h6tk</a>'
  apa: 'Castro, J. P., Yancoskie, M. N., Marchini, M., Belohlavy, S., Hiramatsu, L.,
    Kučka, M., … Chan, Y. F. (2019). Data from: An integrative genomic analysis of
    the Longshanks selection experiment for longer limbs in mice. Dryad. <a href="https://doi.org/10.5061/dryad.0q2h6tk">https://doi.org/10.5061/dryad.0q2h6tk</a>'
  chicago: 'Castro, João Pl, Michelle N. Yancoskie, Marta Marchini, Stefanie Belohlavy,
    Layla Hiramatsu, Marek Kučka, William H. Beluch, et al. “Data from: An Integrative
    Genomic Analysis of the Longshanks Selection Experiment for Longer Limbs in Mice.”
    Dryad, 2019. <a href="https://doi.org/10.5061/dryad.0q2h6tk">https://doi.org/10.5061/dryad.0q2h6tk</a>.'
  ieee: 'J. P. Castro <i>et al.</i>, “Data from: An integrative genomic analysis of
    the Longshanks selection experiment for longer limbs in mice.” Dryad, 2019.'
  ista: 'Castro JP, Yancoskie MN, Marchini M, Belohlavy S, Hiramatsu L, Kučka M, Beluch
    WH, Naumann R, Skuplik I, Cobb J, Barton NH, Rolian C, Chan YF. 2019. Data from:
    An integrative genomic analysis of the Longshanks selection experiment for longer
    limbs in mice, Dryad, <a href="https://doi.org/10.5061/dryad.0q2h6tk">10.5061/dryad.0q2h6tk</a>.'
  mla: 'Castro, João Pl, et al. <i>Data from: An Integrative Genomic Analysis of the
    Longshanks Selection Experiment for Longer Limbs in Mice</i>. Dryad, 2019, doi:<a
    href="https://doi.org/10.5061/dryad.0q2h6tk">10.5061/dryad.0q2h6tk</a>.'
  short: J.P. Castro, M.N. Yancoskie, M. Marchini, S. Belohlavy, L. Hiramatsu, M.
    Kučka, W.H. Beluch, R. Naumann, I. Skuplik, J. Cobb, N.H. Barton, C. Rolian, Y.F.
    Chan, (2019).
date_created: 2021-08-06T11:52:54Z
date_published: 2019-06-06T00:00:00Z
date_updated: 2023-08-29T06:41:51Z
day: '06'
department:
- _id: NiBa
doi: 10.5061/dryad.0q2h6tk
main_file_link:
- open_access: '1'
  url: https://doi.org/10.5061/dryad.0q2h6tk
month: '06'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
  record:
  - id: '6713'
    relation: used_in_publication
    status: public
status: public
title: 'Data from: An integrative genomic analysis of the Longshanks selection experiment
  for longer limbs in mice'
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2019'
...
---
_id: '9805'
abstract:
- lang: eng
  text: The spread of adaptive alleles is fundamental to evolution, and in theory,
    this process is well‐understood. However, only rarely can we follow this process—whether
    it originates from the spread of a new mutation, or by introgression from another
    population. In this issue of Molecular Ecology, Hanemaaijer et al. (2018) report
    on a 25‐year long study of the mosquitoes Anopheles gambiae (Figure 1) and Anopheles
    coluzzi in Mali, based on genotypes at 15 single‐nucleotide polymorphism (SNP).
    The species are usually reproductively isolated from each other, but in 2002 and
    2006, bursts of hybridization were observed, when F1 hybrids became abundant.
    Alleles backcrossed from A. gambiae into A. coluzzi, but after the first event,
    these declined over the following years. In contrast, after 2006, an insecticide
    resistance allele that had established in A. gambiae spread into A. coluzzi, and
    rose to high frequency there, over 6 years (~75 generations). Whole genome sequences
    of 74 individuals showed that A. gambiae SNP from across the genome had become
    common in the A. coluzzi population, but that most of these were clustered in
    34 genes around the resistance locus. A new set of SNP from 25 of these genes
    were assayed over time; over the 4 years since near‐fixation of the resistance
    allele; some remained common, whereas others declined. What do these patterns
    tell us about this introgression event?
article_processing_charge: No
author:
- first_name: Nicholas H
  full_name: Barton, Nicholas H
  id: 4880FE40-F248-11E8-B48F-1D18A9856A87
  last_name: Barton
  orcid: 0000-0002-8548-5240
citation:
  ama: 'Barton NH. Data from: The consequences of an introgression event. 2019. doi:<a
    href="https://doi.org/10.5061/dryad.2kb6fh4">10.5061/dryad.2kb6fh4</a>'
  apa: 'Barton, N. H. (2019). Data from: The consequences of an introgression event.
    Dryad. <a href="https://doi.org/10.5061/dryad.2kb6fh4">https://doi.org/10.5061/dryad.2kb6fh4</a>'
  chicago: 'Barton, Nicholas H. “Data from: The Consequences of an Introgression Event.”
    Dryad, 2019. <a href="https://doi.org/10.5061/dryad.2kb6fh4">https://doi.org/10.5061/dryad.2kb6fh4</a>.'
  ieee: 'N. H. Barton, “Data from: The consequences of an introgression event.” Dryad,
    2019.'
  ista: 'Barton NH. 2019. Data from: The consequences of an introgression event, Dryad,
    <a href="https://doi.org/10.5061/dryad.2kb6fh4">10.5061/dryad.2kb6fh4</a>.'
  mla: 'Barton, Nicholas H. <i>Data from: The Consequences of an Introgression Event</i>.
    Dryad, 2019, doi:<a href="https://doi.org/10.5061/dryad.2kb6fh4">10.5061/dryad.2kb6fh4</a>.'
  short: N.H. Barton, (2019).
date_created: 2021-08-06T12:03:50Z
date_published: 2019-01-09T00:00:00Z
date_updated: 2025-07-10T11:52:34Z
day: '09'
department:
- _id: NiBa
doi: 10.5061/dryad.2kb6fh4
main_file_link:
- open_access: '1'
  url: https://doi.org/10.5061/dryad.2kb6fh4
month: '01'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
  record:
  - id: '40'
    relation: used_in_publication
    status: public
status: public
title: 'Data from: The consequences of an introgression event'
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2019'
...
---
_id: '9806'
abstract:
- lang: eng
  text: 1. Hosts can alter their strategy towards pathogens during their lifetime,
    i.e., they can show phenotypic plasticity in immunity or life history. Immune
    priming is one such example, where a previous encounter with a pathogen confers
    enhanced protection upon secondary challenge, resulting in reduced pathogen load
    (i.e. resistance) and improved host survival. However, an initial encounter might
    also enhance tolerance, particularly to less virulent opportunistic pathogens
    that establish persistent infections. In this scenario, individuals are better
    able to reduce the negative fitness consequences that result from a high pathogen
    load. Finally, previous exposure may also lead to life history adjustments, such
    as terminal investment into reproduction. 2. Using different Drosophila melanogaster
    host genotypes and two bacterial pathogens, Lactococcus lactis and Pseudomonas
    entomophila, we tested if previous exposure results in resistance or tolerance
    and whether it modifies immune gene expression during an acute-phase infection
    (one day post-challenge). We then asked if previous pathogen exposure affects
    chronic-phase pathogen persistence and longer-term survival (28 days post-challenge).
    3. We predicted that previous exposure would increase host resistance to an early
    stage bacterial infection while it might come at a cost to host fecundity tolerance.
    We reasoned that resistance would be due in part to stronger immune gene expression
    after challenge. We expected that previous exposure would improve long-term survival,
    that it would reduce infection persistence, and we expected to find genetic variation
    in these responses. 4. We found that previous exposure to P. entomophila weakened
    host resistance to a second infection independent of genotype and had no effect
    on immune gene expression. Fecundity tolerance showed genotypic variation but
    was not influenced by previous exposure. However, L. lactis persisted as a chronic
    infection, whereas survivors cleared the more pathogenic P. entomophila infection.
    5. To our knowledge, this is the first study that addresses host tolerance to
    bacteria in relation to previous exposure, taking a multi-faceted approach to
    address the topic. Our results suggest that previous exposure comes with transient
    costs to resistance during the early stage of infection in this host-pathogen
    system and that infection persistence may be bacterium-specific.
article_processing_charge: No
author:
- first_name: Megan
  full_name: Kutzer, Megan
  id: 29D0B332-F248-11E8-B48F-1D18A9856A87
  last_name: Kutzer
  orcid: 0000-0002-8696-6978
- first_name: Joachim
  full_name: Kurtz, Joachim
  last_name: Kurtz
- first_name: Sophie A.O.
  full_name: Armitage, Sophie A.O.
  last_name: Armitage
citation:
  ama: 'Kutzer M, Kurtz J, Armitage SAO. Data from: A multi-faceted approach testing
    the effects of previous bacterial exposure on resistance and tolerance. 2019.
    doi:<a href="https://doi.org/10.5061/dryad.9kj41f0">10.5061/dryad.9kj41f0</a>'
  apa: 'Kutzer, M., Kurtz, J., &#38; Armitage, S. A. O. (2019). Data from: A multi-faceted
    approach testing the effects of previous bacterial exposure on resistance and
    tolerance. Dryad. <a href="https://doi.org/10.5061/dryad.9kj41f0">https://doi.org/10.5061/dryad.9kj41f0</a>'
  chicago: 'Kutzer, Megan, Joachim Kurtz, and Sophie A.O. Armitage. “Data from: A
    Multi-Faceted Approach Testing the Effects of Previous Bacterial Exposure on Resistance
    and Tolerance.” Dryad, 2019. <a href="https://doi.org/10.5061/dryad.9kj41f0">https://doi.org/10.5061/dryad.9kj41f0</a>.'
  ieee: 'M. Kutzer, J. Kurtz, and S. A. O. Armitage, “Data from: A multi-faceted approach
    testing the effects of previous bacterial exposure on resistance and tolerance.”
    Dryad, 2019.'
  ista: 'Kutzer M, Kurtz J, Armitage SAO. 2019. Data from: A multi-faceted approach
    testing the effects of previous bacterial exposure on resistance and tolerance,
    Dryad, <a href="https://doi.org/10.5061/dryad.9kj41f0">10.5061/dryad.9kj41f0</a>.'
  mla: 'Kutzer, Megan, et al. <i>Data from: A Multi-Faceted Approach Testing the Effects
    of Previous Bacterial Exposure on Resistance and Tolerance</i>. Dryad, 2019, doi:<a
    href="https://doi.org/10.5061/dryad.9kj41f0">10.5061/dryad.9kj41f0</a>.'
  short: M. Kutzer, J. Kurtz, S.A.O. Armitage, (2019).
date_created: 2021-08-06T12:06:40Z
date_published: 2019-02-05T00:00:00Z
date_updated: 2025-07-10T11:53:11Z
day: '05'
department:
- _id: SyCr
doi: 10.5061/dryad.9kj41f0
main_file_link:
- open_access: '1'
  url: https://doi.org/10.5061/dryad.9kj41f0
month: '02'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
  record:
  - id: '6105'
    relation: used_in_publication
    status: public
status: public
title: 'Data from: A multi-faceted approach testing the effects of previous bacterial
  exposure on resistance and tolerance'
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2019'
...
---
_id: '5'
abstract:
- lang: eng
  text: In this paper, we introduce a quantum version of the wonderful compactification
    of a group as a certain noncommutative projective scheme. Our approach stems from
    the fact that the wonderful compactification encodes the asymptotics of matrix
    coefficients, and from its realization as a GIT quotient of the Vinberg semigroup.
    In order to define the wonderful compactification for a quantum group, we adopt
    a generalized formalism of Proj categories in the spirit of Artin and Zhang. Key
    to our construction is a quantum version of the Vinberg semigroup, which we define
    as a q-deformation of a certain Rees algebra, compatible with a standard Poisson
    structure. Furthermore, we discuss quantum analogues of the stratification of
    the wonderful compactification by orbits for a certain group action, and provide
    explicit computations in the case of SL2.
article_processing_charge: Yes (via OA deal)
author:
- first_name: Iordan V
  full_name: Ganev, Iordan V
  id: 447491B8-F248-11E8-B48F-1D18A9856A87
  last_name: Ganev
citation:
  ama: Ganev IV. The wonderful compactification for quantum groups. <i>Journal of
    the London Mathematical Society</i>. 2019;99(3):778-806. doi:<a href="https://doi.org/10.1112/jlms.12193">10.1112/jlms.12193</a>
  apa: Ganev, I. V. (2019). The wonderful compactification for quantum groups. <i>Journal
    of the London Mathematical Society</i>. Wiley. <a href="https://doi.org/10.1112/jlms.12193">https://doi.org/10.1112/jlms.12193</a>
  chicago: Ganev, Iordan V. “The Wonderful Compactification for Quantum Groups.” <i>Journal
    of the London Mathematical Society</i>. Wiley, 2019. <a href="https://doi.org/10.1112/jlms.12193">https://doi.org/10.1112/jlms.12193</a>.
  ieee: I. V. Ganev, “The wonderful compactification for quantum groups,” <i>Journal
    of the London Mathematical Society</i>, vol. 99, no. 3. Wiley, pp. 778–806, 2019.
  ista: Ganev IV. 2019. The wonderful compactification for quantum groups. Journal
    of the London Mathematical Society. 99(3), 778–806.
  mla: Ganev, Iordan V. “The Wonderful Compactification for Quantum Groups.” <i>Journal
    of the London Mathematical Society</i>, vol. 99, no. 3, Wiley, 2019, pp. 778–806,
    doi:<a href="https://doi.org/10.1112/jlms.12193">10.1112/jlms.12193</a>.
  short: I.V. Ganev, Journal of the London Mathematical Society 99 (2019) 778–806.
date_created: 2018-12-11T11:44:06Z
date_published: 2019-06-01T00:00:00Z
date_updated: 2023-09-19T10:13:08Z
day: '01'
ddc:
- '510'
department:
- _id: TaHa
doi: 10.1112/jlms.12193
external_id:
  isi:
  - '000470025900008'
file:
- access_level: open_access
  checksum: 1be56239b2cd740a0e9a084f773c22f6
  content_type: application/pdf
  creator: kschuh
  date_created: 2020-01-07T13:31:53Z
  date_updated: 2020-07-14T12:46:35Z
  file_id: '7238'
  file_name: 2019_Wiley_Ganev.pdf
  file_size: 431754
  relation: main_file
file_date_updated: 2020-07-14T12:46:35Z
has_accepted_license: '1'
intvolume: '        99'
isi: 1
issue: '3'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: 778-806
publication: Journal of the London Mathematical Society
publication_status: published
publisher: Wiley
publist_id: '8052'
quality_controlled: '1'
scopus_import: '1'
status: public
title: The wonderful compactification for quantum groups
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: 99
year: '2019'
...
---
_id: '5680'
abstract:
- lang: eng
  text: Pollinators display a remarkable diversity of foraging strategies with flowering
    plants, from primarily mutualistic interactions to cheating through nectar robbery.
    Despite numerous studies on the effect of nectar robbing on components of plant
    fitness, its contribution to reproductive isolation is unclear. We experimentally
    tested the impact of different pollinator strategies in a natural hybrid zone
    between two subspecies of Antirrhinum majus with alternate flower colour guides.
    On either side of a steep cline in flower colour between Antirrhinum majus pseudomajus
    (magenta) and A. m. striatum (yellow), we quantified the behaviour of all floral
    visitors at different time points during the flowering season. Using long-run
    camera surveys, we quantify the impact of nectar robbing on the number of flowers
    visited per inflorescence and the flower probing time. We further experimentally
    tested the effect of nectar robbing on female reproductive success by manipulating
    the intensity of robbing. While robbing increased over time the number of legitimate
    visitors tended to decrease concomitantly. We found that the number of flowers
    pollinated on a focal inflorescence decreased with the number of prior robbing
    events. However, in the manipulative experiment, fruit set and fruit volume did
    not vary significantly between low robbing and control treatments. Our findings
    challenge the idea that robbers have a negative impact on plant fitness through
    female function. This study also adds to our understanding of the components of
    pollinator-mediated reproductive isolation and the maintenance of Antirrhinum
    hybrid zones.
article_processing_charge: No
author:
- first_name: Christophe
  full_name: Andalo, Christophe
  last_name: Andalo
- first_name: Monique
  full_name: Burrus, Monique
  last_name: Burrus
- first_name: Sandrine
  full_name: Paute, Sandrine
  last_name: Paute
- first_name: Christine
  full_name: Lauzeral, Christine
  last_name: Lauzeral
- first_name: David
  full_name: Field, David
  id: 419049E2-F248-11E8-B48F-1D18A9856A87
  last_name: Field
  orcid: 0000-0002-4014-8478
citation:
  ama: Andalo C, Burrus M, Paute S, Lauzeral C, Field D. Prevalence of legitimate
    pollinators and nectar robbers and the consequences for fruit set in an Antirrhinum
    majus hybrid zone. <i>Botany Letters</i>. 2019;166(1):80-92. doi:<a href="https://doi.org/10.1080/23818107.2018.1545142">10.1080/23818107.2018.1545142</a>
  apa: Andalo, C., Burrus, M., Paute, S., Lauzeral, C., &#38; Field, D. (2019). Prevalence
    of legitimate pollinators and nectar robbers and the consequences for fruit set
    in an Antirrhinum majus hybrid zone. <i>Botany Letters</i>. Taylor and Francis.
    <a href="https://doi.org/10.1080/23818107.2018.1545142">https://doi.org/10.1080/23818107.2018.1545142</a>
  chicago: Andalo, Christophe, Monique Burrus, Sandrine Paute, Christine Lauzeral,
    and David Field. “Prevalence of Legitimate Pollinators and Nectar Robbers and
    the Consequences for Fruit Set in an Antirrhinum Majus Hybrid Zone.” <i>Botany
    Letters</i>. Taylor and Francis, 2019. <a href="https://doi.org/10.1080/23818107.2018.1545142">https://doi.org/10.1080/23818107.2018.1545142</a>.
  ieee: C. Andalo, M. Burrus, S. Paute, C. Lauzeral, and D. Field, “Prevalence of
    legitimate pollinators and nectar robbers and the consequences for fruit set in
    an Antirrhinum majus hybrid zone,” <i>Botany Letters</i>, vol. 166, no. 1. Taylor
    and Francis, pp. 80–92, 2019.
  ista: Andalo C, Burrus M, Paute S, Lauzeral C, Field D. 2019. Prevalence of legitimate
    pollinators and nectar robbers and the consequences for fruit set in an Antirrhinum
    majus hybrid zone. Botany Letters. 166(1), 80–92.
  mla: Andalo, Christophe, et al. “Prevalence of Legitimate Pollinators and Nectar
    Robbers and the Consequences for Fruit Set in an Antirrhinum Majus Hybrid Zone.”
    <i>Botany Letters</i>, vol. 166, no. 1, Taylor and Francis, 2019, pp. 80–92, doi:<a
    href="https://doi.org/10.1080/23818107.2018.1545142">10.1080/23818107.2018.1545142</a>.
  short: C. Andalo, M. Burrus, S. Paute, C. Lauzeral, D. Field, Botany Letters 166
    (2019) 80–92.
date_created: 2018-12-16T22:59:20Z
date_published: 2019-01-01T00:00:00Z
date_updated: 2025-07-10T11:52:54Z
day: '01'
department:
- _id: NiBa
doi: 10.1080/23818107.2018.1545142
external_id:
  isi:
  - '000463802800009'
intvolume: '       166'
isi: 1
issue: '1'
language:
- iso: eng
month: '01'
oa_version: None
page: 80-92
publication: Botany Letters
publication_identifier:
  eissn:
  - 2381-8115
  issn:
  - 2381-8107
publication_status: published
publisher: Taylor and Francis
quality_controlled: '1'
scopus_import: '1'
status: public
title: Prevalence of legitimate pollinators and nectar robbers and the consequences
  for fruit set in an Antirrhinum majus hybrid zone
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 166
year: '2019'
...
