Population genome of the newly discovered Jinchuan yak to understand its adaptive evolution in extreme environments and generation mechanism of the multirib trait.

Tytuł:: Population genome of the newly discovered Jinchuan yak to understand its adaptive evolution in extreme environments and generation mechanism of the multirib trait.
Autorzy:: Lan D; Ministry of Education of Key Laboratory of Qinghai-Tibet Plateau Animal Genetic Resource and Utilization, Southwest Minzu University, Chengdu, China.; Institute of Qinghai-Tibetan Plateau, Southwest Minzu University, Chengdu, China.
Ji W; Ministry of Education of Key Laboratory of Qinghai-Tibet Plateau Animal Genetic Resource and Utilization, Southwest Minzu University, Chengdu, China.; Institute of Qinghai-Tibetan Plateau, Southwest Minzu University, Chengdu, China.
Xiong X; Ministry of Education of Key Laboratory of Qinghai-Tibet Plateau Animal Genetic Resource and Utilization, Southwest Minzu University, Chengdu, China.; Institute of Qinghai-Tibetan Plateau, Southwest Minzu University, Chengdu, China.
Liang Q; Novogene Bioinformatics Institute, Beijing, China.
Yao W; Novogene Bioinformatics Institute, Beijing, China.
Mipam TD; Ministry of Education of Key Laboratory of Qinghai-Tibet Plateau Animal Genetic Resource and Utilization, Southwest Minzu University, Chengdu, China.; Institute of Qinghai-Tibetan Plateau, Southwest Minzu University, Chengdu, China.
Zhong J; Ministry of Education of Key Laboratory of Qinghai-Tibet Plateau Animal Genetic Resource and Utilization, Southwest Minzu University, Chengdu, China.; Institute of Qinghai-Tibetan Plateau, Southwest Minzu University, Chengdu, China.
Li J; Ministry of Education of Key Laboratory of Qinghai-Tibet Plateau Animal Genetic Resource and Utilization, Southwest Minzu University, Chengdu, China.; Institute of Qinghai-Tibetan Plateau, Southwest Minzu University, Chengdu, China.
Źródło:: Integrative zoology [Integr Zool] 2021 Sep; Vol. 16 (5), pp. 685-695. Date of Electronic Publication: 2020 Sep 02.
Typ publikacji:: Journal Article
Język:: English
Imprint Name(s):: Publication: 2012-: Richmond, Vic., Australia : Wiley Publishing Asia Pty Ltd
Original Publication: 2006-2012: [Oxford, England] : Blackwell Publishing
MeSH Terms:: Biological Evolution*
Genome*
Adaptation, Physiological/*genetics
Cattle/*genetics
Animals ; Bone Development/genetics ; Genome-Wide Association Study
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Grant Information:: 31872361 National Natural Science Foundation of China; 2018NQN02 "the Fundamental Research Funds for the Central Universities", Southwest Minzu University; 20ZYZYTS0020 Sichuan provincial central government guiding local science and technology development
Contributed Indexing:: Keywords: Qinghai-Tibet Plateau; adaptive evolution; genetic mechanism; multirib trait; yak
Entry Date(s):: Date Created: 20200822 Date Completed: 20210907 Latest Revision: 20210907
Update Code:: 20240105
DOI:: 10.1111/1749-4877.12484
PMID:: 32822522
: Czasopismo naukowe

Pełny tekst

The adaptation and diversity of animals to the extreme environments of the Qinghai-Tibet Plateau (QTP) are typical materials to study adaptive evolution. The recently discovered Jinchuan yak population has many individuals with multiple ribs. However, little is known about this yak's origin, evolution, and the genetic mechanisms that formed its unique multirib trait. Here, we report a valuable population genome resource of the Jinchuan yak by resequencing the whole genome of 150 individuals. Population genetic polymorphism and structure analysis reveal that Jinchuan yak can be differentiated as a unique and original yak population among the domestic yak. Combined with geological change, the Jinchuan yak's evolutionary origin is speculated to be about 6290 years ago, which may be related to the unique geographical environment of the eastern edge of the QTP during this period. Compared with other domestic yaks, this new population has 280 positively selected genes. The genes related to skeletal function hold a considerable and remarkable proportion, suggesting that the specific skeletal characteristics have been enhanced in the adaptive evolution of Jinchuan yak in the extreme plateau environment. The genome-wide association study has revealed that TUBA8 and TUBA4A, the genes that regulate the cytoskeleton, are potential genes associated with the multirib trait. Our findings provide a basis to further understand the generation mechanism of the adaptive evolution of this new population in high-altitude extreme environments and the multivertebrate trait of domestic animals.
(© 2020 International Society of Zoological Sciences, Institute of Zoology/Chinese Academy of Sciences and John Wiley & Sons Australia, Ltd.)

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