{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,28]],"date-time":"2026-09-28T03:38:27Z","timestamp":1790566707298,"version":"4.1.0"},"reference-count":108,"publisher":"Wiley","issue":"6","license":[{"start":{"date-parts":[[2020,6,7]],"date-time":"2020-06-07T00:00:00Z","timestamp":1591488000000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0\/"}],"funder":[{"DOI":"10.13039\/100000928","name":"Welch Foundation","doi-asserted-by":"publisher","award":["Q\u20101866"],"award-info":[{"award-number":["Q\u20101866"]}],"id":[{"id":"10.13039\/100000928","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["onlinelibrary.wiley.com"],"crossmark-restriction":true},"short-container-title":["Molecular Ecology Resources"],"published-print":{"date-parts":[[2020,11]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>\n                    Captive populations provide a valuable insurance against extinctions in the wild. However, they are also vulnerable to the negative impacts of inbreeding, selection and drift. Genetic information is therefore considered a critical aspect of conservation management. Recent developments in sequencing technologies have the potential to improve the outcomes of management programmes; however, the transfer of these approaches to applied conservation has been slow. The scimitar\u2010horned oryx (\n                    <jats:italic>Oryx dammah)<\/jats:italic>\n                    is a North African antelope that has been extinct in the wild since the early 1980s and is the focus of a large\u2010scale and long\u2010term reintroduction project. To enable the selection of suitable founder individuals, facilitate post\u2010release monitoring and improve captive breeding management, comprehensive genomic resources are required. Here, we used 10X Chromium sequencing together with Hi\u2010C contact mapping to develop a chromosomal\u2010level genome assembly for the species. The resulting assembly contained 29 chromosomes with a scaffold N50 of 100.4\u00a0Mb, and displayed strong chromosomal synteny with the cattle genome. Using resequencing data from six additional individuals, we demonstrated relatively high genetic diversity in the scimitar\u2010horned oryx compared to other mammals, despite it having experienced a strong founding event in captivity. Additionally, the level of diversity across populations varied according to management strategy. Finally, we uncovered a dynamic demographic history that coincided with periods of climate variation during the Pleistocene. Overall, our study provides a clear example of how genomic data can uncover valuable insights into captive populations and contributes important resources to guide future management decisions of an endangered species.\n                  <\/jats:p>","DOI":"10.1111\/1755-0998.13181","type":"journal-article","created":{"date-parts":[[2020,5,4]],"date-time":"2020-05-04T19:50:46Z","timestamp":1588621846000},"page":"1668-1681","update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":31,"title":["Chromosomal\u2010level genome assembly of the scimitar\u2010horned oryx: Insights into diversity and demography of a species extinct in the wild"],"prefix":"10.1111","volume":"20","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-6841-1269","authenticated-orcid":false,"given":"Emily","family":"Humble","sequence":"first","affiliation":[{"name":"Royal (Dick) School of Veterinary Studies and the Roslin Institute University of Edinburgh Edinburgh 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and Biological Physics Rice University Houston TX USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Arina D.","family":"Omer","sequence":"additional","affiliation":[{"name":"The Center for Genome Architecture Department of Molecular and Human Genetics Baylor College of Medicine Houston TX USA"},{"name":"Department of Computer Science Department of Computational and Applied Mathematics Rice University Houston TX USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zane","family":"Colaric","sequence":"additional","affiliation":[{"name":"The Center for Genome Architecture Department of Molecular and Human Genetics Baylor College of Medicine Houston TX USA"},{"name":"Department of Computer Science Department of Computational and Applied Mathematics Rice University Houston TX USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Erez","family":"Lieberman Aiden","sequence":"additional","affiliation":[{"name":"The Center for Genome Architecture Department of Molecular and Human Genetics Baylor College of Medicine Houston TX USA"},{"name":"Department of Computer Science Department of Computational and Applied Mathematics Rice University Houston TX USA"},{"name":"Center for Theoretical and Biological Physics Rice University Houston TX USA"},{"name":"Shanghai Institute for Advanced Immunochemical Studies ShanghaiTech University Shanghai China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shaikha Salem","family":"Al Dhaheri","sequence":"additional","affiliation":[{"name":"Environment Agency Abu Dhabi United Arab Emirates"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"David","family":"Wildt","sequence":"additional","affiliation":[{"name":"Smithsonian Conservation Biology Institute Center for Species Survival National Zoological Park Front Royal VA USA"},{"name":"Smithsonian Conservation Biology Institute Center for Species Survival National Zoological Park Washington DC USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shireen","family":"Oliaji","sequence":"additional","affiliation":[{"name":"Royal (Dick) School of Veterinary Studies and the Roslin Institute University of Edinburgh Edinburgh UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Gaik","family":"Tamazian","sequence":"additional","affiliation":[{"name":"Computer Technologies Laboratory ITMO University St. Petersburg Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Budhan","family":"Pukazhenthi","sequence":"additional","affiliation":[{"name":"Smithsonian Conservation Biology Institute Center for Species Survival National Zoological Park Front Royal VA USA"},{"name":"Smithsonian Conservation Biology Institute Center for Species Survival National Zoological Park Washington DC USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Rob","family":"Ogden","sequence":"additional","affiliation":[{"name":"Royal (Dick) School of 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