{"id":"https://openalex.org/W4411159757","doi":"https://doi.org/10.1101/gr.281149.125","title":"Tracing genome size dynamics in sharks and rays with inclusive sequence analysis by the Squalomix Consortium","display_name":"Tracing genome size dynamics in sharks and rays with inclusive sequence analysis by the Squalomix Consortium","publication_year":2026,"publication_date":"2026-06-16","ids":{"openalex":"https://openalex.org/W4411159757","doi":"https://doi.org/10.1101/gr.281149.125","pmid":"https://pubmed.ncbi.nlm.nih.gov/42303448"},"language":"en","primary_location":{"id":"doi:10.1101/gr.281149.125","doi":"https://doi.org/10.1101/gr.281149.125","is_oa":false,"landing_page_url":"https://doi.org/10.1101/gr.281149.125","pdf_url":null,"source":{"id":"https://openalex.org/S43092948","display_name":"Genome Research","issn_l":"1088-9051","issn":["1088-9051","1549-5469"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","dongbi-a","doyens","jufo-3","ki-jl-2","medline","norway-2","poland-200","russia-white-list-1"],"host_organization":"https://openalex.org/P4310315909","host_organization_name":"Cold Spring Harbor Laboratory Press","host_organization_lineage":["https://openalex.org/P4310315909"],"host_organization_lineage_names":["Cold Spring Harbor Laboratory Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genome Research","raw_type":"journal-article"},"volume":null,"type":"preprint","is_traditional":true,"indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.biorxiv.org/content/biorxiv/early/2025/06/08/2025.06.08.657570.full.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5062084820","display_name":"Shigehiro Kuraku","orcid":"https://orcid.org/0000-0003-1464-8388","observed_orcids":["https://orcid.org/0000-0003-1464-8388"]},"institutions":[{"id":"https://openalex.org/I113198587","display_name":"National Institute of Genetics","ror":"https://ror.org/02xg1m795","country_code":"JP","type":"facility","lineage":["https://openalex.org/I113198587","https://openalex.org/I1319490839","https://openalex.org/I4210158934"]},{"id":"https://openalex.org/I200475212","display_name":"The Graduate University for Advanced Studies, SOKENDAI","ror":"https://ror.org/0516ah480","country_code":"JP","type":"education","lineage":["https://openalex.org/I200475212"]},{"id":"https://openalex.org/I4210116810","display_name":"RIKEN Center for Biosystems Dynamics Research","ror":"https://ror.org/023rffy11","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210110652","https://openalex.org/I4210116810"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Shigehiro Kuraku","raw_affiliation_strings":["Department of Genetics, Sokendai (Graduate University for Advanced Studies), Mishima, Shizuoka 411-8540, Japan;","Laboratory for Phyloinformatics, RIKEN Center for Biosystems Dynamics Research, Kobe, Hyogo, 657-0024, Japan","Molecular Life History Laboratory, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan;","Department of Genetics, Sokendai (Graduate University for Advanced Studies), Mishima, Shizuoka, Japan","Molecular Life History Laboratory, National Institute of Genetics, Mishima, Shizuoka, 4-8540, Japan"],"raw_orcid":"https://orcid.org/0000-0003-1464-8388","affiliations":[{"raw_affiliation_string":"Department of Genetics, Sokendai (Graduate University for Advanced Studies), Mishima, Shizuoka 411-8540, Japan;","institution_ids":["https://openalex.org/I200475212"]},{"raw_affiliation_string":"Laboratory for Phyloinformatics, RIKEN Center for Biosystems Dynamics Research, Kobe, Hyogo, 657-0024, Japan","institution_ids":["https://openalex.org/I4210116810"]},{"raw_affiliation_string":"Molecular Life History Laboratory, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan;","institution_ids":["https://openalex.org/I113198587"]},{"raw_affiliation_string":"Department of Genetics, Sokendai (Graduate University for Advanced Studies), Mishima, Shizuoka, Japan","institution_ids":["https://openalex.org/I200475212"]},{"raw_affiliation_string":"Molecular Life History Laboratory, National Institute of Genetics, Mishima, Shizuoka, 4-8540, Japan","institution_ids":["https://openalex.org/I113198587"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010600257","display_name":"Yawako W. Kawaguchi","orcid":"https://orcid.org/0000-0002-0389-7744","observed_orcids":["https://orcid.org/0000-0002-0389-7744"]},"institutions":[{"id":"https://openalex.org/I113198587","display_name":"National Institute of Genetics","ror":"https://ror.org/02xg1m795","country_code":"JP","type":"facility","lineage":["https://openalex.org/I113198587","https://openalex.org/I1319490839","https://openalex.org/I4210158934"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Yawako W. Kawaguchi","raw_affiliation_strings":["Molecular Life History Laboratory, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan;","Molecular Life History Laboratory, National Institute of Genetics, Mishima, Shizuoka, 4-8540, Japan"],"raw_orcid":"https://orcid.org/0000-0002-0389-7744","affiliations":[{"raw_affiliation_string":"Molecular Life History Laboratory, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan;","institution_ids":["https://openalex.org/I113198587"]},{"raw_affiliation_string":"Molecular Life History Laboratory, National Institute of Genetics, Mishima, Shizuoka, 4-8540, Japan","institution_ids":["https://openalex.org/I113198587"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006219391","display_name":"Taiki Niwa","orcid":"https://orcid.org/0000-0002-5907-1431","observed_orcids":["https://orcid.org/0000-0002-5907-1431"]},"institutions":[{"id":"https://openalex.org/I113198587","display_name":"National Institute of Genetics","ror":"https://ror.org/02xg1m795","country_code":"JP","type":"facility","lineage":["https://openalex.org/I113198587","https://openalex.org/I1319490839","https://openalex.org/I4210158934"]},{"id":"https://openalex.org/I200475212","display_name":"The Graduate University for Advanced Studies, SOKENDAI","ror":"https://ror.org/0516ah480","country_code":"JP","type":"education","lineage":["https://openalex.org/I200475212"]},{"id":"https://openalex.org/I4210117686","display_name":"Japan Fisheries Research and Education Agency","ror":"https://ror.org/02gmwvg31","country_code":"JP","type":"government","lineage":["https://openalex.org/I4210117686"]},{"id":"https://openalex.org/I4210146532","display_name":"National Fisheries University","ror":"https://ror.org/04kkb3773","country_code":"JP","type":"education","lineage":["https://openalex.org/I4210146532"]},{"id":"https://openalex.org/I4405286283","display_name":"Fisheries Resources Institute","ror":"https://ror.org/01qf1g354","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210117686","https://openalex.org/I4405286283"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Taiki Niwa","raw_affiliation_strings":["Department of Genetics, Sokendai (Graduate University for Advanced Studies), Mishima, Shizuoka 411-8540, Japan;","Molecular Life History Laboratory, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan;","Demersal Fish Resources Division, Fisheries Stock Assessment Center, Fisheries Resources Institute, Japan Fisheries Research and Education Agency, 25-259 Shimomekurakubo, Same, Hachinohe, Aomori, 031-081, Japan","National Fisheries University, Japan Fisheries Research and Education Agency, 2-7-1 Nagata-honmachi, Shimonoseki, Yamaguchi 79-69, Japan"],"raw_orcid":"https://orcid.org/0000-0002-5907-1431","affiliations":[{"raw_affiliation_string":"Department of Genetics, Sokendai (Graduate University for Advanced Studies), Mishima, Shizuoka 411-8540, Japan;","institution_ids":["https://openalex.org/I200475212"]},{"raw_affiliation_string":"Molecular Life History Laboratory, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan;","institution_ids":["https://openalex.org/I113198587"]},{"raw_affiliation_string":"Demersal Fish Resources Division, Fisheries Stock Assessment Center, Fisheries Resources Institute, Japan Fisheries Research and Education Agency, 25-259 Shimomekurakubo, Same, Hachinohe, Aomori, 031-081, Japan","institution_ids":["https://openalex.org/I4210117686","https://openalex.org/I4405286283"]},{"raw_affiliation_string":"National Fisheries University, Japan Fisheries Research and Education Agency, 2-7-1 Nagata-honmachi, Shimonoseki, Yamaguchi 79-69, Japan","institution_ids":["https://openalex.org/I4210117686","https://openalex.org/I4210146532"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080688582","display_name":"Ryo Misawa","orcid":"https://orcid.org/0000-0003-0445-5670","observed_orcids":["https://orcid.org/0000-0003-0445-5670"]},"institutions":[{"id":"https://openalex.org/I113198587","display_name":"National Institute of Genetics","ror":"https://ror.org/02xg1m795","country_code":"JP","type":"facility","lineage":["https://openalex.org/I113198587","https://openalex.org/I1319490839","https://openalex.org/I4210158934"]},{"id":"https://openalex.org/I200475212","display_name":"The Graduate University for Advanced Studies, SOKENDAI","ror":"https://ror.org/0516ah480","country_code":"JP","type":"education","lineage":["https://openalex.org/I200475212"]},{"id":"https://openalex.org/I4210117686","display_name":"Japan Fisheries Research and Education Agency","ror":"https://ror.org/02gmwvg31","country_code":"JP","type":"government","lineage":["https://openalex.org/I4210117686"]},{"id":"https://openalex.org/I4210146532","display_name":"National Fisheries University","ror":"https://ror.org/04kkb3773","country_code":"JP","type":"education","lineage":["https://openalex.org/I4210146532"]},{"id":"https://openalex.org/I4405286283","display_name":"Fisheries Resources Institute","ror":"https://ror.org/01qf1g354","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210117686","https://openalex.org/I4405286283"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Ryo Misawa","raw_affiliation_strings":["Demersal Fish Resources Division, Fisheries Stock Assessment Center, Fisheries Resources Institute, Japan Fisheries Research and Education Agency, Same, Hachinohe, Aomori 031-0841, Japan;","National Fisheries University, Japan Fisheries Research and Education Agency, Shimonoseki, Yamaguchi 759-6595, Japan;","Department of Genetics, Sokendai (Graduate University for Advanced Studies), Mishima, Shizuoka, Japan","Molecular Life History Laboratory, National Institute of Genetics, Mishima, Shizuoka, 4-8540, Japan"],"raw_orcid":"https://orcid.org/0000-0003-0445-5670","affiliations":[{"raw_affiliation_string":"Demersal Fish Resources Division, Fisheries Stock Assessment Center, Fisheries Resources Institute, Japan Fisheries Research and Education Agency, Same, Hachinohe, Aomori 031-0841, Japan;","institution_ids":["https://openalex.org/I4210117686","https://openalex.org/I4405286283"]},{"raw_affiliation_string":"National Fisheries University, Japan Fisheries Research and Education Agency, Shimonoseki, Yamaguchi 759-6595, Japan;","institution_ids":["https://openalex.org/I4210117686","https://openalex.org/I4210146532"]},{"raw_affiliation_string":"Department of Genetics, Sokendai (Graduate University for Advanced Studies), Mishima, Shizuoka, Japan","institution_ids":["https://openalex.org/I200475212"]},{"raw_affiliation_string":"Molecular Life History Laboratory, National Institute of Genetics, Mishima, Shizuoka, 4-8540, Japan","institution_ids":["https://openalex.org/I113198587"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Yohey Ogawa","orcid":"https://orcid.org/0000-0001-9031-4393","observed_orcids":["https://orcid.org/0000-0001-9031-4393"]},"institutions":[{"id":"https://openalex.org/I113198587","display_name":"National Institute of Genetics","ror":"https://ror.org/02xg1m795","country_code":"JP","type":"facility","lineage":["https://openalex.org/I113198587","https://openalex.org/I1319490839","https://openalex.org/I4210158934"]},{"id":"https://openalex.org/I4210116810","display_name":"RIKEN Center for Biosystems Dynamics Research","ror":"https://ror.org/023rffy11","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210110652","https://openalex.org/I4210116810"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Yohey Ogawa","raw_affiliation_strings":["Molecular Life History Laboratory, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan;","Laboratory for Phyloinformatics, RIKEN Center for Biosystems Dynamics Research, Kobe, Hyogo, 657-0024, Japan"],"raw_orcid":"https://orcid.org/0000-0001-9031-4393","affiliations":[{"raw_affiliation_string":"Molecular Life History Laboratory, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan;","institution_ids":["https://openalex.org/I113198587"]},{"raw_affiliation_string":"Laboratory for Phyloinformatics, RIKEN Center for Biosystems Dynamics Research, Kobe, Hyogo, 657-0024, Japan","institution_ids":["https://openalex.org/I4210116810"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076336316","display_name":"Mitsutaka Kadota","orcid":"https://orcid.org/0000-0002-1674-6697","observed_orcids":["https://orcid.org/0000-0002-1674-6697"]},"institutions":[{"id":"https://openalex.org/I163770644","display_name":"Okayama University","ror":"https://ror.org/02pc6pc55","country_code":"JP","type":"education","lineage":["https://openalex.org/I163770644"]},{"id":"https://openalex.org/I4210116810","display_name":"RIKEN Center for Biosystems Dynamics Research","ror":"https://ror.org/023rffy11","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210110652","https://openalex.org/I4210116810"]},{"id":"https://openalex.org/I4405285756","display_name":"Ushimado Marine Institute, Faculty of Science, Okayama University","ror":"https://ror.org/0056ehw34","country_code":"JP","type":"facility","lineage":["https://openalex.org/I163770644","https://openalex.org/I4405285756"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Mitsutaka Kadota","raw_affiliation_strings":["Laboratory for Phyloinformatics, RIKEN Center for Biosystems Dynamics Research, Kobe, Hyogo 657-0024, Japan;","Ushimado Marine Institute, Okayama University, Setouchi, Okayama, 701-4303, Japan"],"raw_orcid":"https://orcid.org/0000-0002-1674-6697","affiliations":[{"raw_affiliation_string":"Laboratory for Phyloinformatics, RIKEN Center for Biosystems Dynamics Research, Kobe, Hyogo 657-0024, Japan;","institution_ids":["https://openalex.org/I4210116810"]},{"raw_affiliation_string":"Ushimado Marine Institute, Okayama University, Setouchi, Okayama, 701-4303, Japan","institution_ids":["https://openalex.org/I163770644","https://openalex.org/I4405285756"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075774356","display_name":"Kazuhiro Saito","orcid":"https://orcid.org/0000-0001-5854-2070","observed_orcids":["https://orcid.org/0000-0001-5854-2070"]},"institutions":[{"id":"https://openalex.org/I163770644","display_name":"Okayama University","ror":"https://ror.org/02pc6pc55","country_code":"JP","type":"education","lineage":["https://openalex.org/I163770644"]},{"id":"https://openalex.org/I4405285756","display_name":"Ushimado Marine Institute, Faculty of Science, Okayama University","ror":"https://ror.org/0056ehw34","country_code":"JP","type":"facility","lineage":["https://openalex.org/I163770644","https://openalex.org/I4405285756"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Kazuhiro Saito","raw_affiliation_strings":["Ushimado Marine Institute, Okayama University, Setouchi, Okayama, 701-4303, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Ushimado Marine Institute, Okayama University, Setouchi, Okayama, 701-4303, Japan","institution_ids":["https://openalex.org/I163770644","https://openalex.org/I4405285756"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Waichiro Godo","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I163770644","display_name":"Okayama University","ror":"https://ror.org/02pc6pc55","country_code":"JP","type":"education","lineage":["https://openalex.org/I163770644"]},{"id":"https://openalex.org/I4405285756","display_name":"Ushimado Marine Institute, Faculty of Science, Okayama University","ror":"https://ror.org/0056ehw34","country_code":"JP","type":"facility","lineage":["https://openalex.org/I163770644","https://openalex.org/I4405285756"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Waichiro Godo","raw_affiliation_strings":["Ushimado Marine Institute, Okayama University, Setouchi, Okayama, 701-4303, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Ushimado Marine Institute, Okayama University, Setouchi, Okayama, 701-4303, Japan","institution_ids":["https://openalex.org/I163770644","https://openalex.org/I4405285756"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Tatsuya Sakamoto","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I163770644","display_name":"Okayama University","ror":"https://ror.org/02pc6pc55","country_code":"JP","type":"education","lineage":["https://openalex.org/I163770644"]},{"id":"https://openalex.org/I4405285756","display_name":"Ushimado Marine Institute, Faculty of Science, Okayama University","ror":"https://ror.org/0056ehw34","country_code":"JP","type":"facility","lineage":["https://openalex.org/I163770644","https://openalex.org/I4405285756"]},{"id":"https://openalex.org/I4405287608","display_name":"Atmosphere and Ocean Research Institute, The University of Tokyo","ror":"https://ror.org/05npta519","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4405287608","https://openalex.org/I74801974"]},{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Tatsuya Sakamoto","raw_affiliation_strings":["Ushimado Marine Institute, Okayama University, Setouchi, Okayama 701-4303, Japan;","Laboratory of Physiology, Atmosphere and Ocean Research Institute, The University of Tokyo, Kashiwa 2-8564, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Ushimado Marine Institute, Okayama University, Setouchi, Okayama 701-4303, Japan;","institution_ids":["https://openalex.org/I163770644","https://openalex.org/I4405285756"]},{"raw_affiliation_string":"Laboratory of Physiology, Atmosphere and Ocean Research Institute, The University of Tokyo, Kashiwa 2-8564, Japan","institution_ids":["https://openalex.org/I4405287608","https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001335508","display_name":"Wataru Takagi","orcid":"https://orcid.org/0000-0002-7882-0223","observed_orcids":["https://orcid.org/0000-0002-7882-0223"]},"institutions":[{"id":"https://openalex.org/I4210148592","display_name":"Kazusa DNA Research Institute","ror":"https://ror.org/04pnjx786","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210148592"]},{"id":"https://openalex.org/I4405287608","display_name":"Atmosphere and Ocean Research Institute, The University of Tokyo","ror":"https://ror.org/05npta519","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4405287608","https://openalex.org/I74801974"]},{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Wataru Takagi","raw_affiliation_strings":["Laboratory of Physiology, Atmosphere and Ocean Research Institute, The University of Tokyo, Kashiwa 277-8564, Japan;","Kazusa DNA Research Institute, Kisarazu, Chiba 292-01, Japan"],"raw_orcid":"https://orcid.org/0000-0002-7882-0223","affiliations":[{"raw_affiliation_string":"Laboratory of Physiology, Atmosphere and Ocean Research Institute, The University of Tokyo, Kashiwa 277-8564, Japan;","institution_ids":["https://openalex.org/I4405287608","https://openalex.org/I74801974"]},{"raw_affiliation_string":"Kazusa DNA Research Institute, Kisarazu, Chiba 292-01, Japan","institution_ids":["https://openalex.org/I4210148592"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069276956","display_name":"Sachiko Isobe","orcid":"https://orcid.org/0000-0002-9555-5054","observed_orcids":["https://orcid.org/0000-0002-9555-5054"]},"institutions":[{"id":"https://openalex.org/I4210148592","display_name":"Kazusa DNA Research Institute","ror":"https://ror.org/04pnjx786","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210148592"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Sachiko Isobe","raw_affiliation_strings":["Kazusa DNA Research Institute, Kisarazu, Chiba 292-0818, Japan","Kazusa DNA Research Institute, Kisarazu, Chiba 292-01, Japan"],"raw_orcid":"https://orcid.org/0000-0002-9555-5054","affiliations":[{"raw_affiliation_string":"Kazusa DNA Research Institute, Kisarazu, Chiba 292-0818, Japan","institution_ids":["https://openalex.org/I4210148592"]},{"raw_affiliation_string":"Kazusa DNA Research Institute, Kisarazu, Chiba 292-01, Japan","institution_ids":["https://openalex.org/I4210148592"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070867120","display_name":"Kenta Shirasawa","orcid":"https://orcid.org/0000-0001-7880-6221","observed_orcids":["https://orcid.org/0000-0001-7880-6221"]},"institutions":[{"id":"https://openalex.org/I113198587","display_name":"National Institute of Genetics","ror":"https://ror.org/02xg1m795","country_code":"JP","type":"facility","lineage":["https://openalex.org/I113198587","https://openalex.org/I1319490839","https://openalex.org/I4210158934"]},{"id":"https://openalex.org/I200475212","display_name":"The Graduate University for Advanced Studies, SOKENDAI","ror":"https://ror.org/0516ah480","country_code":"JP","type":"education","lineage":["https://openalex.org/I200475212"]},{"id":"https://openalex.org/I4210148592","display_name":"Kazusa DNA Research Institute","ror":"https://ror.org/04pnjx786","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210148592"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Kenta Shirasawa","raw_affiliation_strings":["Kazusa DNA Research Institute, Kisarazu, Chiba 292-0818, Japan","Department of Genetics, Sokendai (Graduate University for Advanced Studies), Mishima, Shizuoka, Japan","Molecular Life History Laboratory, National Institute of Genetics, Mishima, Shizuoka, 4-8540, Japan"],"raw_orcid":"https://orcid.org/0000-0001-7880-6221","affiliations":[{"raw_affiliation_string":"Kazusa DNA Research Institute, Kisarazu, Chiba 292-0818, Japan","institution_ids":["https://openalex.org/I4210148592"]},{"raw_affiliation_string":"Department of Genetics, Sokendai (Graduate University for Advanced Studies), Mishima, Shizuoka, Japan","institution_ids":["https://openalex.org/I200475212"]},{"raw_affiliation_string":"Molecular Life History Laboratory, National Institute of Genetics, Mishima, Shizuoka, 4-8540, Japan","institution_ids":["https://openalex.org/I113198587"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5022765178","display_name":"Akane Kawaguchi","orcid":"https://orcid.org/0000-0001-7722-0480","observed_orcids":["https://orcid.org/0000-0001-7722-0480"]},"institutions":[{"id":"https://openalex.org/I113198587","display_name":"National Institute of Genetics","ror":"https://ror.org/02xg1m795","country_code":"JP","type":"facility","lineage":["https://openalex.org/I113198587","https://openalex.org/I1319490839","https://openalex.org/I4210158934"]},{"id":"https://openalex.org/I200475212","display_name":"The Graduate University for Advanced Studies, SOKENDAI","ror":"https://ror.org/0516ah480","country_code":"JP","type":"education","lineage":["https://openalex.org/I200475212"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Akane Kawaguchi","raw_affiliation_strings":["Department of Genetics, Sokendai (Graduate University for Advanced Studies), Mishima, Shizuoka 411-8540, Japan;","Molecular Life History Laboratory, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan;"],"raw_orcid":"https://orcid.org/0000-0001-7722-0480","affiliations":[{"raw_affiliation_string":"Department of Genetics, Sokendai (Graduate University for Advanced Studies), Mishima, Shizuoka 411-8540, Japan;","institution_ids":["https://openalex.org/I200475212"]},{"raw_affiliation_string":"Molecular Life History Laboratory, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan;","institution_ids":["https://openalex.org/I113198587"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":11,"corresponding_author_ids":["https://openalex.org/A5062084820"],"corresponding_institution_ids":["https://openalex.org/I113198587","https://openalex.org/I200475212","https://openalex.org/I4210116810"],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":"36","issue":"8","first_page":"1708","last_page":"1723"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10434","display_name":"Chromosomal and Genetic Variations","score":0.9595000147819519,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10434","display_name":"Chromosomal and Genetic Variations","score":0.9595000147819519,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.029999999329447746,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T13664","display_name":"Genome Rearrangement Algorithms","score":0.0024999999441206455,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/genome-size-evolution","display_name":"genome size evolution","score":0.8399999737739563},{"id":"https://openalex.org/keywords/elasmobranchs","display_name":"elasmobranchs","score":0.9589999914169312},{"id":"https://openalex.org/keywords/sharks","display_name":"sharks","score":0.8180000185966492},{"id":"https://openalex.org/keywords/rays","display_name":"rays","score":0.9869999885559082},{"id":"https://openalex.org/keywords/skates","display_name":"skates","score":0.777999997138977},{"id":"https://openalex.org/keywords/chromosome-level-genome-assembly","display_name":"chromosome-level genome assembly","score":0.7139999866485596},{"id":"https://openalex.org/keywords/repetitive-elements","display_name":"repetitive elements","score":0.7269999980926514},{"id":"https://openalex.org/keywords/transposable-elements","display_name":"transposable elements","score":0.8989999890327454},{"id":"https://openalex.org/keywords/centromere","display_name":"centromere","score":0.9279999732971191},{"id":"https://openalex.org/keywords/tandem-gene-duplication","display_name":"tandem gene duplication","score":0.8859999775886536},{"id":"https://openalex.org/keywords/hox-genes","display_name":"Hox genes","score":0.7770000100135803},{"id":"https://openalex.org/keywords/sex-chromosomes","display_name":"sex chromosomes","score":0.7139999866485596},{"id":"https://openalex.org/keywords/chromosome-size","display_name":"chromosome length","score":0.3790000081062317}],"concepts":[{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.6187165379524231},{"id":"https://openalex.org/C138673069","wikidata":"https://www.wikidata.org/wiki/Q322229","display_name":"Tracing","level":2,"score":0.553104817867279},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5370627045631409},{"id":"https://openalex.org/C145912823","wikidata":"https://www.wikidata.org/wiki/Q113558","display_name":"Dynamics (music)","level":2,"score":0.5089786052703857},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.44608938694000244},{"id":"https://openalex.org/C24432333","wikidata":"https://www.wikidata.org/wiki/Q2068526","display_name":"Whole genome sequencing","level":4,"score":0.4292010962963104},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.41522926092147827},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.3869546055793762},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.35860854387283325},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2304220199584961},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.14864540100097656},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.09978535771369934},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004251","descriptor_name":"DNA Transposable Elements","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012091","descriptor_name":"Repetitive Sequences, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012754","descriptor_name":"Sharks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012860","descriptor_name":"Skates, Fish","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059646","descriptor_name":"Genome Size","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1101/gr.281149.125","doi":"https://doi.org/10.1101/gr.281149.125","is_oa":false,"landing_page_url":"https://doi.org/10.1101/gr.281149.125","pdf_url":null,"source":{"id":"https://openalex.org/S43092948","display_name":"Genome Research","issn_l":"1088-9051","issn":["1088-9051","1549-5469"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","dongbi-a","doyens","jufo-3","ki-jl-2","medline","norway-2","poland-200","russia-white-list-1"],"host_organization":"https://openalex.org/P4310315909","host_organization_name":"Cold Spring Harbor Laboratory Press","host_organization_lineage":["https://openalex.org/P4310315909"],"host_organization_lineage_names":["Cold Spring Harbor Laboratory Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genome Research","raw_type":"journal-article"},{"id":"doi:10.1101/2025.06.08.657570","doi":"https://doi.org/10.1101/2025.06.08.657570","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2025.06.08.657570","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2025/06/08/2025.06.08.657570.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},{"id":"pmid:42303448","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/42303448","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genome research","raw_type":"Journal Article"}],"best_oa_location":{"id":"doi:10.1101/2025.06.08.657570","doi":"https://doi.org/10.1101/2025.06.08.657570","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2025.06.08.657570","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2025/06/08/2025.06.08.657570.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G4590012531","display_name":"\u767a\u751f\u7684\u62d8\u675f\u3092\u751f\u307f\u51fa\u3059\u67d3\u8272\u4f53\u7acb\u4f53\u69cb\u9020\u306b\u6bd4\u8f03\u30af\u30ed\u30de\u30c1\u30f3\u89e3\u6790\u304b\u3089\u8feb\u308b","funder_award_id":"23K05798","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G5933430282","display_name":null,"funder_award_id":"25H01308","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G6237344544","display_name":"Tackling the global regulation of Hox clusters with molecular evolutionary and epigenomic approaches","funder_award_id":"20H03269","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"}],"funders":[{"id":"https://openalex.org/F4320314183","display_name":"Research Organization of Information and Systems","ror":"https://ror.org/04p4e8t29"},{"id":"https://openalex.org/F4320328616","display_name":"Japan Fisheries Research and Education Agency","ror":"https://ror.org/02gmwvg31"},{"id":"https://openalex.org/F4320334764","display_name":"Japan Society for the Promotion of Science","ror":"https://ror.org/00hhkn466"},{"id":"https://openalex.org/F4320335125","display_name":"RIKEN","ror":"https://ror.org/01sjwvz98"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4411159757.pdf","grobid_xml":"https://content.openalex.org/works/W4411159757.grobid-xml"},"referenced_works_count":5,"referenced_works":["https://openalex.org/W4395010610","https://openalex.org/W4408007349","https://openalex.org/W6911626212","https://openalex.org/W7128813698","https://openalex.org/W7161682766"],"related_works":["https://openalex.org/W4385932181","https://openalex.org/W4387014465","https://openalex.org/W2479574596","https://openalex.org/W2263391408","https://openalex.org/W2894335751","https://openalex.org/W4387671716","https://openalex.org/W4396944597","https://openalex.org/W2074765204","https://openalex.org/W7099947333","https://openalex.org/W7204702687"],"abstract_inverted_index":{"Genomes":[0],"have":[1],"maintained":[2],"relatively":[3,97],"stable":[4],"gene":[5,182],"sets":[6],"during":[7],"evolution,":[8],"whereas":[9],"chromosome":[10,76,159],"organization":[11],"and":[12,46,55,62,71,105,120,130,154,184,243,251],"genome":[13,22,54,69,99,177,192],"size":[14,23,70,100],"vary":[15],"drastically,":[16],"even":[17],"among":[18,101],"vertebrates.":[19],"Changes":[20],"in":[21,136,165,211],"are":[24],"often":[25],"attributed":[26],"to":[27,189,223,247],"variable":[28],"amounts":[29],"of":[30,52,68,75,92,115,127,134,152,260],"repetitive":[31,162,173,220],"sequences,":[32],"including":[33,59,118],"transposable":[34],"elements.":[35],"However,":[36],"it":[37],"remains":[38],"poorly":[39],"understood":[40],"what":[41],"allows":[42],"such":[43],"drastic":[44],"changes":[45],"how":[47],"they":[48,186],"affect":[49],"various":[50],"components":[51],"the":[53,88,93,106,113,195,202,212,227],"their":[56],"functions.":[57],"Elasmobranchs,":[58],"sharks,":[60],"rays,":[61],"skates,":[63],"exhibit":[64],"high":[65,72],"among-species":[66],"variation":[67,74],"within-species":[73],"length,":[77],"offering":[78],"a":[79,145,231,252],"unique":[80],"study":[81,235],"system.":[82],"In":[83,194],"this":[84],"study,":[85],"we":[86,179,200],"present":[87],"first":[89,203],"whole-genome":[90],"sequences":[91],"whitebelly":[94],"skate":[95],"with":[96,158,161,176,191,226],"small":[98],"elasmobranchs":[102],"(2.2":[103],"Gb)":[104],"red":[107,213],"stingray.":[108],"These":[109],"chromosome-scale":[110],"assemblies":[111],"enable":[112],"assessment":[114],"genomic":[116,147],"compositions":[117],"centromeres":[119],"noncoding":[121,244],"elements,":[122],"which":[123,216],"reveal":[124,144],"notable":[125],"profiles":[126],"tRNA":[128],"loci":[129],"unbiased":[131],"intragenomic":[132],"distribution":[133],"transposons":[135],"elasmobranch":[137],"genomes.":[138],"Comparative":[139],"analyses":[140],"across":[141],"these":[142],"species":[143],"shared":[146],"architecture":[148],"characterized":[149],"by":[150,208],"correlations":[151],"intergenic":[153],"intronic":[155],"sequence":[156],"lengths":[157],"sizes,":[160],"element":[163,221],"accumulation":[164],"elongated":[166],"regions.":[167],"To":[168],"assess":[169],"whether":[170],"elements":[171,174],"beyond":[172],"scale":[175],"size,":[178],"analyze":[180],"tandem":[181,198],"duplications":[183],"find":[185],"also":[187],"tend":[188],"increase":[190],"expansion.":[193],"quest":[196],"for":[197,254],"genes,":[199],"characterize":[201],"batoid":[204],"HoxC":[205],"cluster":[206,229],"supported":[207],"transcriptional":[209],"evidence":[210],"stingray":[214],"genome,":[215],"has":[217],"undergone":[218],"extensive":[219],"invasion":[222],"unexpectedly":[224],"colocalize":[225],"HoxB":[228],"on":[230,257],"sex":[232],"chromosome.":[233],"Our":[234],"demonstrates":[236],"an":[237],"inclusive":[238],"analysis":[239],"encompassing":[240],"both":[241],"coding":[242],"regions,":[245],"adaptable":[246],"diverse":[248],"vertebrate":[249],"taxa":[250],"basis":[253],"molecular-level":[255],"understanding":[256],"phenotypic":[258],"diversity":[259],"elasmobranchs.":[261]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":1}],"updated_date":"2026-11-09T13:22:03.289127","created_date":"2025-10-10T00:00:00"}