[{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"research_data","citation":{"ieee":"M. N. Elkrewi, “Data from ‘Chromosome-level assembly of Artemia franciscana sheds light on sex-chromosome differentiation.’” Institute of Science and Technology Austria, 2024.","mla":"Elkrewi, Marwan N. <i>Data from “Chromosome-Level Assembly of Artemia Franciscana Sheds Light on Sex-Chromosome Differentiation.”</i> Institute of Science and Technology Austria, 2024, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:14705\">10.15479/AT:ISTA:14705</a>.","ama":"Elkrewi MN. Data from “Chromosome-level assembly of Artemia franciscana sheds light on sex-chromosome differentiation.” 2024. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:14705\">10.15479/AT:ISTA:14705</a>","apa":"Elkrewi, M. N. (2024). Data from “Chromosome-level assembly of Artemia franciscana sheds light on sex-chromosome differentiation.” Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:14705\">https://doi.org/10.15479/AT:ISTA:14705</a>","ista":"Elkrewi MN. 2024. Data from ‘Chromosome-level assembly of Artemia franciscana sheds light on sex-chromosome differentiation’, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:14705\">10.15479/AT:ISTA:14705</a>.","short":"M.N. Elkrewi, (2024).","chicago":"Elkrewi, Marwan N. “Data from ‘Chromosome-Level Assembly of Artemia Franciscana Sheds Light on Sex-Chromosome Differentiation.’” Institute of Science and Technology Austria, 2024. <a href=\"https://doi.org/10.15479/AT:ISTA:14705\">https://doi.org/10.15479/AT:ISTA:14705</a>."},"file":[{"file_id":"14707","date_created":"2023-12-22T13:54:21Z","file_name":"readme.txt.txt","relation":"main_file","date_updated":"2023-12-22T13:54:21Z","content_type":"text/plain","access_level":"open_access","file_size":847,"checksum":"bdaf1392867786634ec5466d528c36ca","creator":"melkrewi","success":1},{"file_id":"14708","relation":"main_file","file_name":"data_artemia_franciscana_genome.zip","date_created":"2023-12-22T14:14:06Z","date_updated":"2023-12-22T14:14:06Z","success":1,"creator":"melkrewi","content_type":"application/x-zip-compressed","file_size":343632753,"access_level":"open_access","checksum":"973e1cbdab923a71709782177980829f"}],"ddc":["576"],"oa_version":"Published Version","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"status":"public","author":[{"full_name":"Elkrewi, Marwan N","first_name":"Marwan N","id":"0B46FACA-A8E1-11E9-9BD3-79D1E5697425","orcid":"0000-0002-5328-7231","last_name":"Elkrewi"}],"year":"2024","doi":"10.15479/AT:ISTA:14705","_id":"14705","corr_author":"1","has_accepted_license":"1","project":[{"_id":"34ae1506-11ca-11ed-8bc3-c14f4c474396","name":"The highjacking of meiosis for asexual reproduction","grant_number":"F8810"}],"month":"01","date_published":"2024-01-02T00:00:00Z","contributor":[{"last_name":"Bett","contributor_type":"researcher","first_name":"Vincent K","id":"57854184-AAE0-11E9-8D04-98D6E5697425"},{"contributor_type":"project_member","last_name":"Macon","first_name":"Ariana","id":"2A0848E2-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-4579-8306","contributor_type":"supervisor","last_name":"Vicoso","first_name":"Beatriz","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Elkrewi","contributor_type":"researcher","orcid":"0000-0002-5328-7231","id":"0B46FACA-A8E1-11E9-9BD3-79D1E5697425","first_name":"Marwan N"}],"date_updated":"2025-09-04T12:05:42Z","publisher":"Institute of Science and Technology Austria","title":"Data from \"Chromosome-level assembly of Artemia franciscana sheds light on sex-chromosome differentiation\"","oa":1,"related_material":{"record":[{"status":"public","relation":"used_in_publication","id":"15009"}]},"file_date_updated":"2023-12-22T14:14:06Z","keyword":["sex chromosome evolution","genome assembly","dosage compensation"],"day":"02","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, are 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 Artemia franciscana (Kellogg 1906), from the Great Salt Lake, USA. The genome is 1GB, 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_processing_charge":"No","date_created":"2023-12-22T13:40:48Z","department":[{"_id":"GradSch"},{"_id":"BeVi"}]},{"publisher":"Institute of Science and Technology Austria","contributor":[{"orcid":"0000-0002-5328-7231","contributor_type":"researcher","last_name":"Elkrewi","first_name":"Marwan N","id":"0B46FACA-A8E1-11E9-9BD3-79D1E5697425"}],"date_updated":"2025-09-09T13:33:22Z","date_published":"2023-12-01T00:00:00Z","month":"12","date_created":"2023-11-27T16:39:19Z","day":"01","article_processing_charge":"No","abstract":[{"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 scorpionflies (genus Panorpa), an insect belonging to a long overlooked sister-order to Diptera: Mecoptera. Combining our genome assembly with genomic short-read data, we obtain genome coverage and identify X-linked super-scaffolds. We further perform a gene homology analysis between the Panorpa X and a closely related Diptera species, and we assess the conservation of the Panorpa X-linked gene content with that of more distantly related insect species. We explored the structure of the Panorpa X by determining its repeat content, GC content, and nucleotide diversity. Finally, we used RNAseq data to detect the presence of dosage compensation in somatic tissues, as well as to explore gene expression tissue-specificity, and sex-bias in gene expression. 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 2 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.","lang":"eng"}],"department":[{"_id":"BeVi"}],"oa":1,"related_material":{"record":[{"relation":"used_in_publication","id":"14613","status":"public"}]},"title":"The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome","keyword":["Panorpa","scorpionfly","genome","transcriptome"],"file_date_updated":"2023-11-30T14:16:59Z","oa_version":"Published Version","ddc":["576"],"citation":{"ista":"Lasne C, Elkrewi MN. 2023. The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:14614\">10.15479/AT:ISTA:14614</a>.","short":"C. Lasne, M.N. Elkrewi, (2023).","chicago":"Lasne, Clementine, and Marwan N Elkrewi. “The Scorpionfly (Panorpa Cognata) Genome Highlights Conserved and Derived Features of the Peculiar Dipteran X Chromosome.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/AT:ISTA:14614\">https://doi.org/10.15479/AT:ISTA:14614</a>.","ieee":"C. Lasne and M. N. Elkrewi, “The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome.” Institute of Science and Technology Austria, 2023.","mla":"Lasne, Clementine, and Marwan N. Elkrewi. <i>The Scorpionfly (Panorpa Cognata) Genome Highlights Conserved and Derived Features of the Peculiar Dipteran X Chromosome</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:14614\">10.15479/AT:ISTA:14614</a>.","ama":"Lasne C, Elkrewi MN. The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome. 2023. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:14614\">10.15479/AT:ISTA:14614</a>","apa":"Lasne, C., &#38; Elkrewi, M. N. (2023). The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:14614\">https://doi.org/10.15479/AT:ISTA:14614</a>"},"file":[{"file_name":"panorpaX.zip","date_created":"2023-11-28T13:15:26Z","relation":"main_file","file_id":"14625","creator":"clasne","content_type":"application/zip","file_size":404968272,"checksum":"cd0f13322b5156819ecaebd2bc8e7d12","access_level":"open_access","success":1,"date_updated":"2023-11-28T13:15:26Z"},{"file_name":"panorpa_readme.txt","date_created":"2023-11-30T14:16:59Z","relation":"main_file","file_id":"14634","creator":"clasne","checksum":"9ff600416577687a737cb3c96dfcb26c","content_type":"text/plain","access_level":"open_access","file_size":2625,"success":1,"date_updated":"2023-11-30T14:16:59Z"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"type":"research_data","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"14614","doi":"10.15479/AT:ISTA:14614","corr_author":"1","has_accepted_license":"1","author":[{"full_name":"Lasne, Clementine","first_name":"Clementine","id":"02225f57-50d2-11eb-9ed8-8c92b9a34237","orcid":"0000-0002-1197-8616","last_name":"Lasne"},{"orcid":"0000-0002-5328-7231","last_name":"Elkrewi","full_name":"Elkrewi, Marwan N","first_name":"Marwan N","id":"0B46FACA-A8E1-11E9-9BD3-79D1E5697425"}],"year":"2023","status":"public"},{"_id":"896","doi":"10.1098/rsob.160009","author":[{"first_name":"Kerstin","full_name":"Howe, Kerstin","last_name":"Howe"},{"full_name":"Schiffer, Philipp","first_name":"Philipp","last_name":"Schiffer"},{"last_name":"Zielinski","full_name":"Zielinski, Julia","first_name":"Julia"},{"last_name":"Wiehe","full_name":"Wiehe, Thomas","first_name":"Thomas"},{"first_name":"Gavin","full_name":"Laird, Gavin","last_name":"Laird"},{"last_name":"Marioni","full_name":"Marioni, John","first_name":"John"},{"last_name":"Soylemez","full_name":"Soylemez, Onuralp","first_name":"Onuralp"},{"orcid":"0000-0001-8243-4694","last_name":"Kondrashov","first_name":"Fyodor","full_name":"Kondrashov, Fyodor","id":"44FDEF62-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Maria","full_name":"Leptin, Maria","last_name":"Leptin"}],"quality_controlled":"1","intvolume":"         6","external_id":{"pmid":["27248802"]},"acknowledgement":"Financial support was provided by EMBO and the DFG SFB 670 'Zellautonome Immunität' to M.L., DFG SFB 680 'Molecular basis of evolutionary innovation' to T.W., DFG SPP1819 to M.L. and T.W., the HHMI International Early Career Scientist Programme (55007424), MINECO (Sev-2012-0208), AGAUR programme (2014 SGR 0974), and an ERC Starting Grant (335980-EinME) to F.K., the European Molecular Biology Laboratory to J.M., the Wellcome Trust to K.H. (zebrafish genome sequencing project) and the National Human Genome Research Institute (NHGRI) grant HG002659 to G.K.L. (gene annotation), and a grant from the Volkswagen Foundation to P.H.S. We thank the CHEOPS support team and the Bundesland Nordrhein Westfalen for making HPC applications freely available at the University of Cologne.","citation":{"ista":"Howe K, Schiffer P, Zielinski J, Wiehe T, Laird G, Marioni J, Soylemez O, Kondrashov F, Leptin M. 2016. Structure and evolutionary history of a large family of NLR proteins in the zebrafish. Open Biology. 6(4), 160009.","short":"K. Howe, P. Schiffer, J. Zielinski, T. Wiehe, G. Laird, J. Marioni, O. Soylemez, F. Kondrashov, M. Leptin, Open Biology 6 (2016).","chicago":"Howe, Kerstin, Philipp Schiffer, Julia Zielinski, Thomas Wiehe, Gavin Laird, John Marioni, Onuralp Soylemez, Fyodor Kondrashov, and Maria Leptin. “Structure and Evolutionary History of a Large Family of NLR Proteins in the Zebrafish.” <i>Open Biology</i>. Royal Society, The, 2016. <a href=\"https://doi.org/10.1098/rsob.160009\">https://doi.org/10.1098/rsob.160009</a>.","ieee":"K. Howe <i>et al.</i>, “Structure and evolutionary history of a large family of NLR proteins in the zebrafish,” <i>Open Biology</i>, vol. 6, no. 4. Royal Society, The, 2016.","mla":"Howe, Kerstin, et al. “Structure and Evolutionary History of a Large Family of NLR Proteins in the Zebrafish.” <i>Open Biology</i>, vol. 6, no. 4, 160009, Royal Society, The, 2016, doi:<a href=\"https://doi.org/10.1098/rsob.160009\">10.1098/rsob.160009</a>.","ama":"Howe K, Schiffer P, Zielinski J, et al. Structure and evolutionary history of a large family of NLR proteins in the zebrafish. <i>Open Biology</i>. 2016;6(4). doi:<a href=\"https://doi.org/10.1098/rsob.160009\">10.1098/rsob.160009</a>","apa":"Howe, K., Schiffer, P., Zielinski, J., Wiehe, T., Laird, G., Marioni, J., … Leptin, M. (2016). Structure and evolutionary history of a large family of NLR proteins in the zebrafish. <i>Open Biology</i>. Royal Society, The. <a href=\"https://doi.org/10.1098/rsob.160009\">https://doi.org/10.1098/rsob.160009</a>"},"type":"journal_article","publist_id":"6754","publication":"Open Biology","date_created":"2018-12-11T11:49:04Z","abstract":[{"text":"Multicellular eukaryotes have evolved a range of mechanisms for immune recognition. A widespread family involved in innate immunity are the NACHT-domain and leucine-rich-repeat-containing (NLR) proteins.Mammals have small numbers of NLR proteins, whereas in some species, mostly those without adaptive immune systems, NLRs have expanded into very large families.We describe a family of nearly 400NLR proteins encoded in the zebrafish genome. The proteins share a defining overall structure, which arose in fishes after a fusion of the core NLR domains with a B30.2 domain, but can be subdivided into four groups based on their NACHT domains. Gene conversion acting differentially on the NACHT and B30.2 domains has shaped the family and created the groups. Evidence of positive selection in the B30.2 domain indicates that this domain rather than the leucine-rich repeats acts as the pathogen recognition module. In an unusual chromosomal organization, the majority of the genes are located on one chromosome arm, interspersed with other large multigene families, including a new family encoding zinc-finger proteins. The NLR-B30.2 proteins represent a new family with diversity in the specific recognition module that is present in fishes in spite of the parallel existence of an adaptive immune system.","lang":"eng"}],"day":"01","volume":6,"keyword":["NACHT","B30","SPRY","Gene conversion","Innate immune system","Genome evolution"],"language":[{"iso":"eng"}],"main_file_link":[{"url":"https://doi.org/10.1098/rsob.160009","open_access":"1"}],"DOAJ_listed":"1","title":"Structure and evolutionary history of a large family of NLR proteins in the zebrafish","pmid":1,"scopus_import":"1","extern":"1","status":"public","year":"2016","issue":"4","OA_type":"gold","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"oa_version":"Published Version","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","publication_identifier":{"eissn":["2046-2441"]},"OA_place":"publisher","article_number":" 160009","article_processing_charge":"No","oa":1,"publisher":"Royal Society, The","publication_status":"published","date_updated":"2026-05-20T09:09:18Z","date_published":"2016-04-01T00:00:00Z","month":"04","article_type":"original"}]