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Genomic Analyses Reveal Adaptation to Hot Arid and Harsh Environments in Native Chickens of China

The acute thermal response has been extensively studied in commercial chickens because of the adverse effects of heat stress on poultry production worldwide. Here, we performed whole-genome resequencing of autochthonous Niya chicken breed native to the Taklimakan Desert region as well as of 11 nativ...

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Autores principales: Gu, Jingjing, Liang, Qiqi, Liu, Can, Li, Sheng
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7793703/
https://www.ncbi.nlm.nih.gov/pubmed/33424922
http://dx.doi.org/10.3389/fgene.2020.582355
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author Gu, Jingjing
Liang, Qiqi
Liu, Can
Li, Sheng
author_facet Gu, Jingjing
Liang, Qiqi
Liu, Can
Li, Sheng
author_sort Gu, Jingjing
collection PubMed
description The acute thermal response has been extensively studied in commercial chickens because of the adverse effects of heat stress on poultry production worldwide. Here, we performed whole-genome resequencing of autochthonous Niya chicken breed native to the Taklimakan Desert region as well as of 11 native chicken breeds that are widely distributed and reared under native humid and temperate areas. We used combined statistical analysis to search for putative genes that might be related to the adaptation of hot arid and harsh environment in Niya chickens. We obtained a list of intersected candidate genes with log2 θπ ratio, FST and XP-CLR (including 123 regions of 21 chromosomes with the average length of 54.4 kb) involved in different molecular processes and pathways implied complex genetic mechanisms of adaptation of native chickens to hot arid and harsh environments. We identified several selective regions containing genes that were associated with the circulatory system and blood vessel development (BVES, SMYD1, IL18, PDGFRA, NRP1, and CORIN), related to central nervous system development (SIM2 and NALCN), related to apoptosis (CLPTM1L, APP, CRADD, and PARK2) responded to stimuli (AHR, ESRRG FAS, and UBE4B) and involved in fatty acid metabolism (FABP1). Our findings provided the genomic evidence of the complex genetic mechanisms of adaptation to hot arid and harsh environments in chickens. These results may improve our understanding of thermal, drought, and harsh environment acclimation in chickens and may serve as a valuable resource for developing new biotechnological tools to breed stress-tolerant chicken lines and or breeds in the future.
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spelling pubmed-77937032021-01-09 Genomic Analyses Reveal Adaptation to Hot Arid and Harsh Environments in Native Chickens of China Gu, Jingjing Liang, Qiqi Liu, Can Li, Sheng Front Genet Genetics The acute thermal response has been extensively studied in commercial chickens because of the adverse effects of heat stress on poultry production worldwide. Here, we performed whole-genome resequencing of autochthonous Niya chicken breed native to the Taklimakan Desert region as well as of 11 native chicken breeds that are widely distributed and reared under native humid and temperate areas. We used combined statistical analysis to search for putative genes that might be related to the adaptation of hot arid and harsh environment in Niya chickens. We obtained a list of intersected candidate genes with log2 θπ ratio, FST and XP-CLR (including 123 regions of 21 chromosomes with the average length of 54.4 kb) involved in different molecular processes and pathways implied complex genetic mechanisms of adaptation of native chickens to hot arid and harsh environments. We identified several selective regions containing genes that were associated with the circulatory system and blood vessel development (BVES, SMYD1, IL18, PDGFRA, NRP1, and CORIN), related to central nervous system development (SIM2 and NALCN), related to apoptosis (CLPTM1L, APP, CRADD, and PARK2) responded to stimuli (AHR, ESRRG FAS, and UBE4B) and involved in fatty acid metabolism (FABP1). Our findings provided the genomic evidence of the complex genetic mechanisms of adaptation to hot arid and harsh environments in chickens. These results may improve our understanding of thermal, drought, and harsh environment acclimation in chickens and may serve as a valuable resource for developing new biotechnological tools to breed stress-tolerant chicken lines and or breeds in the future. Frontiers Media S.A. 2020-12-21 /pmc/articles/PMC7793703/ /pubmed/33424922 http://dx.doi.org/10.3389/fgene.2020.582355 Text en Copyright © 2020 Gu, Liang, Liu and Li. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Genetics
Gu, Jingjing
Liang, Qiqi
Liu, Can
Li, Sheng
Genomic Analyses Reveal Adaptation to Hot Arid and Harsh Environments in Native Chickens of China
title Genomic Analyses Reveal Adaptation to Hot Arid and Harsh Environments in Native Chickens of China
title_full Genomic Analyses Reveal Adaptation to Hot Arid and Harsh Environments in Native Chickens of China
title_fullStr Genomic Analyses Reveal Adaptation to Hot Arid and Harsh Environments in Native Chickens of China
title_full_unstemmed Genomic Analyses Reveal Adaptation to Hot Arid and Harsh Environments in Native Chickens of China
title_short Genomic Analyses Reveal Adaptation to Hot Arid and Harsh Environments in Native Chickens of China
title_sort genomic analyses reveal adaptation to hot arid and harsh environments in native chickens of china
topic Genetics
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7793703/
https://www.ncbi.nlm.nih.gov/pubmed/33424922
http://dx.doi.org/10.3389/fgene.2020.582355
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