The Antarctic Weddell seal genome reveals evidence of selection on cardiovascular phenotype and lipid handling
The Weddell seal (Leptonychotes weddellii) thrives in its extreme Antarctic environment. We generated the Weddell seal genome assembly and a high-quality annotation to investigate genome-wide evolutionary pressures that underlie its phenotype and to study genes implicated in hypoxia tolerance and a...
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ftpubmed:oai:pubmedcentral.nih.gov:8854659 2023-05-15T13:37:22+02:00 The Antarctic Weddell seal genome reveals evidence of selection on cardiovascular phenotype and lipid handling Noh, Hyun Ji Turner-Maier, Jason Schulberg, S. Anne Fitzgerald, Michael L. Johnson, Jeremy Allen, Kaitlin N. Hückstädt, Luis A. Batten, Annabelle J. Alfoldi, Jessica Costa, Daniel P. Karlsson, Elinor K. Zapol, Warren M. Buys, Emmanuel S. Lindblad-Toh, Kerstin Hindle, Allyson G. 2022-02-17 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8854659/ http://www.ncbi.nlm.nih.gov/pubmed/35177770 https://doi.org/10.1038/s42003-022-03089-2 en eng Nature Publishing Group UK http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8854659/ http://www.ncbi.nlm.nih.gov/pubmed/35177770 http://dx.doi.org/10.1038/s42003-022-03089-2 © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . CC-BY Commun Biol Article Text 2022 ftpubmed https://doi.org/10.1038/s42003-022-03089-2 2022-03-06T01:44:45Z The Weddell seal (Leptonychotes weddellii) thrives in its extreme Antarctic environment. We generated the Weddell seal genome assembly and a high-quality annotation to investigate genome-wide evolutionary pressures that underlie its phenotype and to study genes implicated in hypoxia tolerance and a lipid-based metabolism. Genome-wide analyses included gene family expansion/contraction, positive selection, and diverged sequence (acceleration) compared to other placental mammals, identifying selection in coding and non-coding sequence in five pathways that may shape cardiovascular phenotype. Lipid metabolism as well as hypoxia genes contained more accelerated regions in the Weddell seal compared to genomic background. Top-significant genes were SUMO2 and EP300; both regulate hypoxia inducible factor signaling. Liver expression of four genes with the strongest acceleration signals differ between Weddell seals and a terrestrial mammal, sheep. We also report a high-density lipoprotein-like particle in Weddell seal serum not present in other mammals, including the shallow-diving harbor seal. Text Antarc* Antarctic harbor seal Weddell Seal Weddell Seals PubMed Central (PMC) Antarctic The Antarctic Weddell Communications Biology 5 1 |
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Article Noh, Hyun Ji Turner-Maier, Jason Schulberg, S. Anne Fitzgerald, Michael L. Johnson, Jeremy Allen, Kaitlin N. Hückstädt, Luis A. Batten, Annabelle J. Alfoldi, Jessica Costa, Daniel P. Karlsson, Elinor K. Zapol, Warren M. Buys, Emmanuel S. Lindblad-Toh, Kerstin Hindle, Allyson G. The Antarctic Weddell seal genome reveals evidence of selection on cardiovascular phenotype and lipid handling |
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Article |
description |
The Weddell seal (Leptonychotes weddellii) thrives in its extreme Antarctic environment. We generated the Weddell seal genome assembly and a high-quality annotation to investigate genome-wide evolutionary pressures that underlie its phenotype and to study genes implicated in hypoxia tolerance and a lipid-based metabolism. Genome-wide analyses included gene family expansion/contraction, positive selection, and diverged sequence (acceleration) compared to other placental mammals, identifying selection in coding and non-coding sequence in five pathways that may shape cardiovascular phenotype. Lipid metabolism as well as hypoxia genes contained more accelerated regions in the Weddell seal compared to genomic background. Top-significant genes were SUMO2 and EP300; both regulate hypoxia inducible factor signaling. Liver expression of four genes with the strongest acceleration signals differ between Weddell seals and a terrestrial mammal, sheep. We also report a high-density lipoprotein-like particle in Weddell seal serum not present in other mammals, including the shallow-diving harbor seal. |
format |
Text |
author |
Noh, Hyun Ji Turner-Maier, Jason Schulberg, S. Anne Fitzgerald, Michael L. Johnson, Jeremy Allen, Kaitlin N. Hückstädt, Luis A. Batten, Annabelle J. Alfoldi, Jessica Costa, Daniel P. Karlsson, Elinor K. Zapol, Warren M. Buys, Emmanuel S. Lindblad-Toh, Kerstin Hindle, Allyson G. |
author_facet |
Noh, Hyun Ji Turner-Maier, Jason Schulberg, S. Anne Fitzgerald, Michael L. Johnson, Jeremy Allen, Kaitlin N. Hückstädt, Luis A. Batten, Annabelle J. Alfoldi, Jessica Costa, Daniel P. Karlsson, Elinor K. Zapol, Warren M. Buys, Emmanuel S. Lindblad-Toh, Kerstin Hindle, Allyson G. |
author_sort |
Noh, Hyun Ji |
title |
The Antarctic Weddell seal genome reveals evidence of selection on cardiovascular phenotype and lipid handling |
title_short |
The Antarctic Weddell seal genome reveals evidence of selection on cardiovascular phenotype and lipid handling |
title_full |
The Antarctic Weddell seal genome reveals evidence of selection on cardiovascular phenotype and lipid handling |
title_fullStr |
The Antarctic Weddell seal genome reveals evidence of selection on cardiovascular phenotype and lipid handling |
title_full_unstemmed |
The Antarctic Weddell seal genome reveals evidence of selection on cardiovascular phenotype and lipid handling |
title_sort |
antarctic weddell seal genome reveals evidence of selection on cardiovascular phenotype and lipid handling |
publisher |
Nature Publishing Group UK |
publishDate |
2022 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8854659/ http://www.ncbi.nlm.nih.gov/pubmed/35177770 https://doi.org/10.1038/s42003-022-03089-2 |
geographic |
Antarctic The Antarctic Weddell |
geographic_facet |
Antarctic The Antarctic Weddell |
genre |
Antarc* Antarctic harbor seal Weddell Seal Weddell Seals |
genre_facet |
Antarc* Antarctic harbor seal Weddell Seal Weddell Seals |
op_source |
Commun Biol |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8854659/ http://www.ncbi.nlm.nih.gov/pubmed/35177770 http://dx.doi.org/10.1038/s42003-022-03089-2 |
op_rights |
© The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . |
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CC-BY |
op_doi |
https://doi.org/10.1038/s42003-022-03089-2 |
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Communications Biology |
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1 |
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