Cargando…
First Draft Genome of the Sable, Martes zibellina
Members of genus Martes provide early warning signals about forest ecosystem health and are designated as a Management Indicator Species. As one of the most widespread members in Martes, the sable (Martes zibellina) is a circumboreal small predator found throughout all taiga zoogeographical zones of...
Autores principales: | , , , , , , , , , , , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2020
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7144822/ https://www.ncbi.nlm.nih.gov/pubmed/32058545 http://dx.doi.org/10.1093/gbe/evaa029 |
_version_ | 1783519890882166784 |
---|---|
author | Liu, Guangshuai Zhao, Chao Xu, Dongming Zhang, Huanxin Monakhov, Vladimir Shang, Shuai Gao, Xiaodong Sha, Weilai Ma, Jianzhang Zhang, Wei Tang, Xuexi Li, Bo Hua, Yan Cao, Xiaofang Liu, Zhen Zhang, Honghai |
author_facet | Liu, Guangshuai Zhao, Chao Xu, Dongming Zhang, Huanxin Monakhov, Vladimir Shang, Shuai Gao, Xiaodong Sha, Weilai Ma, Jianzhang Zhang, Wei Tang, Xuexi Li, Bo Hua, Yan Cao, Xiaofang Liu, Zhen Zhang, Honghai |
author_sort | Liu, Guangshuai |
collection | PubMed |
description | Members of genus Martes provide early warning signals about forest ecosystem health and are designated as a Management Indicator Species. As one of the most widespread members in Martes, the sable (Martes zibellina) is a circumboreal small predator found throughout all taiga zoogeographical zones of Eurasia and shows distinct population differentiation and morphological variations. To support further studies on striking local adaptation and population evolution, we present the first sable genome, assembled de novo from an individual originating in the Great Khingan Mountains (China). The assembled genome is 2.42 Gb, consisting of 15,814 scaffolds with a scaffold N50 of 5.20 Mb. Searches for complete Mammalia BUSCO (Benchmarking Universal Single-Copy Ortholog) gene groups found that 95.15% of the curated single-copy orthologs were assembled as complete, suggesting a high level of completeness of the genome. We totally predicted 19,413 protein-coding genes, and 0.82 Gb of repeat sequences was annotated. We also detected 1,257 olfactory receptor genes and found more functional olfactory receptor genes in sable than in other Mustelidae species, which provide a possible genetic explanation for the acute sense of smell of the sable for searching the preys under deep snow. Phylogenetic analyses revealed that the ferret (Mustela putorius furo) and sea otter (Enhydra lutris) form a clade that is sister to the sable, which was dated ∼16.4 Ma. Overall, our study provided the first reference genome for research in a broad range of areas including local adaptations, population evolution, conservation, and management for sable. |
format | Online Article Text |
id | pubmed-7144822 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-71448222020-04-13 First Draft Genome of the Sable, Martes zibellina Liu, Guangshuai Zhao, Chao Xu, Dongming Zhang, Huanxin Monakhov, Vladimir Shang, Shuai Gao, Xiaodong Sha, Weilai Ma, Jianzhang Zhang, Wei Tang, Xuexi Li, Bo Hua, Yan Cao, Xiaofang Liu, Zhen Zhang, Honghai Genome Biol Evol Genome Report Members of genus Martes provide early warning signals about forest ecosystem health and are designated as a Management Indicator Species. As one of the most widespread members in Martes, the sable (Martes zibellina) is a circumboreal small predator found throughout all taiga zoogeographical zones of Eurasia and shows distinct population differentiation and morphological variations. To support further studies on striking local adaptation and population evolution, we present the first sable genome, assembled de novo from an individual originating in the Great Khingan Mountains (China). The assembled genome is 2.42 Gb, consisting of 15,814 scaffolds with a scaffold N50 of 5.20 Mb. Searches for complete Mammalia BUSCO (Benchmarking Universal Single-Copy Ortholog) gene groups found that 95.15% of the curated single-copy orthologs were assembled as complete, suggesting a high level of completeness of the genome. We totally predicted 19,413 protein-coding genes, and 0.82 Gb of repeat sequences was annotated. We also detected 1,257 olfactory receptor genes and found more functional olfactory receptor genes in sable than in other Mustelidae species, which provide a possible genetic explanation for the acute sense of smell of the sable for searching the preys under deep snow. Phylogenetic analyses revealed that the ferret (Mustela putorius furo) and sea otter (Enhydra lutris) form a clade that is sister to the sable, which was dated ∼16.4 Ma. Overall, our study provided the first reference genome for research in a broad range of areas including local adaptations, population evolution, conservation, and management for sable. Oxford University Press 2020-02-14 /pmc/articles/PMC7144822/ /pubmed/32058545 http://dx.doi.org/10.1093/gbe/evaa029 Text en © The Author(s) 2020. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://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 Report Liu, Guangshuai Zhao, Chao Xu, Dongming Zhang, Huanxin Monakhov, Vladimir Shang, Shuai Gao, Xiaodong Sha, Weilai Ma, Jianzhang Zhang, Wei Tang, Xuexi Li, Bo Hua, Yan Cao, Xiaofang Liu, Zhen Zhang, Honghai First Draft Genome of the Sable, Martes zibellina |
title | First Draft Genome of the Sable, Martes zibellina |
title_full | First Draft Genome of the Sable, Martes zibellina |
title_fullStr | First Draft Genome of the Sable, Martes zibellina |
title_full_unstemmed | First Draft Genome of the Sable, Martes zibellina |
title_short | First Draft Genome of the Sable, Martes zibellina |
title_sort | first draft genome of the sable, martes zibellina |
topic | Genome Report |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7144822/ https://www.ncbi.nlm.nih.gov/pubmed/32058545 http://dx.doi.org/10.1093/gbe/evaa029 |
work_keys_str_mv | AT liuguangshuai firstdraftgenomeofthesablemarteszibellina AT zhaochao firstdraftgenomeofthesablemarteszibellina AT xudongming firstdraftgenomeofthesablemarteszibellina AT zhanghuanxin firstdraftgenomeofthesablemarteszibellina AT monakhovvladimir firstdraftgenomeofthesablemarteszibellina AT shangshuai firstdraftgenomeofthesablemarteszibellina AT gaoxiaodong firstdraftgenomeofthesablemarteszibellina AT shaweilai firstdraftgenomeofthesablemarteszibellina AT majianzhang firstdraftgenomeofthesablemarteszibellina AT zhangwei firstdraftgenomeofthesablemarteszibellina AT tangxuexi firstdraftgenomeofthesablemarteszibellina AT libo firstdraftgenomeofthesablemarteszibellina AT huayan firstdraftgenomeofthesablemarteszibellina AT caoxiaofang firstdraftgenomeofthesablemarteszibellina AT liuzhen firstdraftgenomeofthesablemarteszibellina AT zhanghonghai firstdraftgenomeofthesablemarteszibellina |