A compendium and functional characterization of mammalian genes involved in adaptation to Arctic or Antarctic environments
Abstract Background Many mammals are well adapted to surviving in extremely cold environments. These species have likely accumulated genetic changes that help them efficiently cope with low temperatures. It is not known whether the same genes related to cold adaptation in one species would be under...
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ftdoajarticles:oai:doaj.org/article:064714909d9246daa22abc61aa7145a6 2023-05-15T14:04:29+02:00 A compendium and functional characterization of mammalian genes involved in adaptation to Arctic or Antarctic environments Nikolay S. Yudin Denis M. Larkin Elena V. Ignatieva 2017-12-01T00:00:00Z https://doi.org/10.1186/s12863-017-0580-9 https://doaj.org/article/064714909d9246daa22abc61aa7145a6 EN eng BMC http://link.springer.com/article/10.1186/s12863-017-0580-9 https://doaj.org/toc/1471-2156 doi:10.1186/s12863-017-0580-9 1471-2156 https://doaj.org/article/064714909d9246daa22abc61aa7145a6 BMC Genetics, Vol 18, Iss S1, Pp 33-43 (2017) Cold Adaptation Mammal Database Genome Gene Genetics QH426-470 article 2017 ftdoajarticles https://doi.org/10.1186/s12863-017-0580-9 2022-12-31T03:21:31Z Abstract Background Many mammals are well adapted to surviving in extremely cold environments. These species have likely accumulated genetic changes that help them efficiently cope with low temperatures. It is not known whether the same genes related to cold adaptation in one species would be under selection in another species. The aims of this study therefore were: to create a compendium of mammalian genes related to adaptations to a low temperature environment; to identify genes related to cold tolerance that have been subjected to independent positive selection in several species; to determine promising candidate genes/pathways/organs for further empirical research on cold adaptation in mammals. Results After a search for publications containing keywords: “whole genome”, “transcriptome or exome sequencing data”, and “genome-wide genotyping array data” authors looked for information related to genetic signatures ascribable to positive selection in Arctic or Antarctic mammalian species. Publications related to Human, Arctic fox, Yakut horse, Mammoth, Polar bear, and Minke whale were chosen. The compendium of genes that potentially underwent positive selection in >1 of these six species consisted of 416 genes. Twelve of them showed traces of positive selection in three species. Gene ontology term enrichment analysis of 416 genes from the compendium has revealed 13 terms relevant to the scope of this study. We found that enriched terms were relevant to three major groups: terms associated with collagen proteins and the extracellular matrix; terms associated with the anatomy and physiology of cilium; terms associated with docking. We further revealed that genes from compendium were over-represented in the lists of genes expressed in the lung and liver. Conclusions A compendium combining mammalian genes involved in adaptation to cold environment was designed, based on the intersection of positively selected genes from six Arctic and Antarctic species. The compendium contained 416 genes that have been positively ... Article in Journal/Newspaper Antarc* Antarctic Arctic Fox Arctic minke whale Directory of Open Access Journals: DOAJ Articles Arctic Antarctic BMC Genetics 18 S1 |
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Directory of Open Access Journals: DOAJ Articles |
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English |
topic |
Cold Adaptation Mammal Database Genome Gene Genetics QH426-470 |
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Cold Adaptation Mammal Database Genome Gene Genetics QH426-470 Nikolay S. Yudin Denis M. Larkin Elena V. Ignatieva A compendium and functional characterization of mammalian genes involved in adaptation to Arctic or Antarctic environments |
topic_facet |
Cold Adaptation Mammal Database Genome Gene Genetics QH426-470 |
description |
Abstract Background Many mammals are well adapted to surviving in extremely cold environments. These species have likely accumulated genetic changes that help them efficiently cope with low temperatures. It is not known whether the same genes related to cold adaptation in one species would be under selection in another species. The aims of this study therefore were: to create a compendium of mammalian genes related to adaptations to a low temperature environment; to identify genes related to cold tolerance that have been subjected to independent positive selection in several species; to determine promising candidate genes/pathways/organs for further empirical research on cold adaptation in mammals. Results After a search for publications containing keywords: “whole genome”, “transcriptome or exome sequencing data”, and “genome-wide genotyping array data” authors looked for information related to genetic signatures ascribable to positive selection in Arctic or Antarctic mammalian species. Publications related to Human, Arctic fox, Yakut horse, Mammoth, Polar bear, and Minke whale were chosen. The compendium of genes that potentially underwent positive selection in >1 of these six species consisted of 416 genes. Twelve of them showed traces of positive selection in three species. Gene ontology term enrichment analysis of 416 genes from the compendium has revealed 13 terms relevant to the scope of this study. We found that enriched terms were relevant to three major groups: terms associated with collagen proteins and the extracellular matrix; terms associated with the anatomy and physiology of cilium; terms associated with docking. We further revealed that genes from compendium were over-represented in the lists of genes expressed in the lung and liver. Conclusions A compendium combining mammalian genes involved in adaptation to cold environment was designed, based on the intersection of positively selected genes from six Arctic and Antarctic species. The compendium contained 416 genes that have been positively ... |
format |
Article in Journal/Newspaper |
author |
Nikolay S. Yudin Denis M. Larkin Elena V. Ignatieva |
author_facet |
Nikolay S. Yudin Denis M. Larkin Elena V. Ignatieva |
author_sort |
Nikolay S. Yudin |
title |
A compendium and functional characterization of mammalian genes involved in adaptation to Arctic or Antarctic environments |
title_short |
A compendium and functional characterization of mammalian genes involved in adaptation to Arctic or Antarctic environments |
title_full |
A compendium and functional characterization of mammalian genes involved in adaptation to Arctic or Antarctic environments |
title_fullStr |
A compendium and functional characterization of mammalian genes involved in adaptation to Arctic or Antarctic environments |
title_full_unstemmed |
A compendium and functional characterization of mammalian genes involved in adaptation to Arctic or Antarctic environments |
title_sort |
compendium and functional characterization of mammalian genes involved in adaptation to arctic or antarctic environments |
publisher |
BMC |
publishDate |
2017 |
url |
https://doi.org/10.1186/s12863-017-0580-9 https://doaj.org/article/064714909d9246daa22abc61aa7145a6 |
geographic |
Arctic Antarctic |
geographic_facet |
Arctic Antarctic |
genre |
Antarc* Antarctic Arctic Fox Arctic minke whale |
genre_facet |
Antarc* Antarctic Arctic Fox Arctic minke whale |
op_source |
BMC Genetics, Vol 18, Iss S1, Pp 33-43 (2017) |
op_relation |
http://link.springer.com/article/10.1186/s12863-017-0580-9 https://doaj.org/toc/1471-2156 doi:10.1186/s12863-017-0580-9 1471-2156 https://doaj.org/article/064714909d9246daa22abc61aa7145a6 |
op_doi |
https://doi.org/10.1186/s12863-017-0580-9 |
container_title |
BMC Genetics |
container_volume |
18 |
container_issue |
S1 |
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1766275576318918656 |