An Annotated Draft Genome for the Andean Bear, Tremarctos ornatus

The Andean bear is the only extant member of the Tremarctine subfamily and the only extant ursid species to inhabit South America. Here, we present an annotated de novo assembly of a nuclear genome from a captive-born female Andean bear, Mischief, generated using a combination of short and long DNA...

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Autores principales: Saremi, Nedda F, Oppenheimer, Jonas, Vollmers, Christopher, O’Connell, Brendan, Milne, Shard A, Byrne, Ashley, Yu, Li, Ryder, Oliver A, Green, Richard E, Shapiro, Beth
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2021
Materias:
Genome Resources
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8280923/
https://www.ncbi.nlm.nih.gov/pubmed/33882130
http://dx.doi.org/10.1093/jhered/esab021
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author Saremi, Nedda F
Oppenheimer, Jonas
Vollmers, Christopher
O’Connell, Brendan
Milne, Shard A
Byrne, Ashley
Yu, Li
Ryder, Oliver A
Green, Richard E
Shapiro, Beth
author_facet Saremi, Nedda F
Oppenheimer, Jonas
Vollmers, Christopher
O’Connell, Brendan
Milne, Shard A
Byrne, Ashley
Yu, Li
Ryder, Oliver A
Green, Richard E
Shapiro, Beth
author_sort Saremi, Nedda F
collection PubMed
description The Andean bear is the only extant member of the Tremarctine subfamily and the only extant ursid species to inhabit South America. Here, we present an annotated de novo assembly of a nuclear genome from a captive-born female Andean bear, Mischief, generated using a combination of short and long DNA and RNA reads. Our final assembly has a length of 2.23 Gb, and a scaffold N50 of 21.12 Mb, contig N50 of 23.5 kb, and BUSCO score of 88%. The Andean bear genome will be a useful resource for exploring the complex phylogenetic history of extinct and extant bear species and for future population genetics studies of Andean bears.
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spelling pubmed-82809232021-07-16 An Annotated Draft Genome for the Andean Bear, Tremarctos ornatus Saremi, Nedda F Oppenheimer, Jonas Vollmers, Christopher O’Connell, Brendan Milne, Shard A Byrne, Ashley Yu, Li Ryder, Oliver A Green, Richard E Shapiro, Beth J Hered Genome Resources The Andean bear is the only extant member of the Tremarctine subfamily and the only extant ursid species to inhabit South America. Here, we present an annotated de novo assembly of a nuclear genome from a captive-born female Andean bear, Mischief, generated using a combination of short and long DNA and RNA reads. Our final assembly has a length of 2.23 Gb, and a scaffold N50 of 21.12 Mb, contig N50 of 23.5 kb, and BUSCO score of 88%. The Andean bear genome will be a useful resource for exploring the complex phylogenetic history of extinct and extant bear species and for future population genetics studies of Andean bears. Oxford University Press 2021-04-21 /pmc/articles/PMC8280923/ /pubmed/33882130 http://dx.doi.org/10.1093/jhered/esab021 Text en © The American Genetic Association. 2021. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Genome Resources
Saremi, Nedda F
Oppenheimer, Jonas
Vollmers, Christopher
O’Connell, Brendan
Milne, Shard A
Byrne, Ashley
Yu, Li
Ryder, Oliver A
Green, Richard E
Shapiro, Beth
An Annotated Draft Genome for the Andean Bear, Tremarctos ornatus
title An Annotated Draft Genome for the Andean Bear, Tremarctos ornatus
title_full An Annotated Draft Genome for the Andean Bear, Tremarctos ornatus
title_fullStr An Annotated Draft Genome for the Andean Bear, Tremarctos ornatus
title_full_unstemmed An Annotated Draft Genome for the Andean Bear, Tremarctos ornatus
title_short An Annotated Draft Genome for the Andean Bear, Tremarctos ornatus
title_sort annotated draft genome for the andean bear, tremarctos ornatus
topic Genome Resources
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8280923/
https://www.ncbi.nlm.nih.gov/pubmed/33882130
http://dx.doi.org/10.1093/jhered/esab021
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