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Whole-genome sequencing reveals the genetic mechanisms of domestication in classical inbred mice
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SYSNO ASEP 0562222 Document Type J - Journal Article R&D Document Type Journal Article Subsidiary J Článek ve WOS Title Whole-genome sequencing reveals the genetic mechanisms of domestication in classical inbred mice Author(s) Liu, M. (CN)
Yu, C. (CN)
Zhang, Z. (CN)
Song, M. (CN)
Sun, X. (CN)
Piálek, Jaroslav (UBO-W) RID, ORCID, SAI
Jacob, J. (DE)
Lu, J. (CN)
Cong, L. (CN)
Zhang, H. (CN)
Wang, Y. (CN)
Li, G. (CN)
Feng, Z. (CN)
Du, Z. (CN)
Wang, M. (CN)
Wan, X. (CN)
Wang, D. (CN)
Wang, Y.-L. (CN)
Li, H. (CN)
Wang, Z. (US)
Zhang, B. (CN)
Zhang, Z. (CN)Number of authors 22 Article number 203 Source Title Genome Biology - ISSN 1474-760X
Roč. 23, č. 1 (2022)Number of pages 23 s. Language eng - English Country GB - United Kingdom Keywords Mus musculus ; Domestication ; Positively selected gene ; Genome sequencing ; Alternative splicing Subject RIV EG - Zoology OECD category Zoology R&D Projects GA16-23773S GA ČR - Czech Science Foundation (CSF) Method of publishing Open access Institutional support UBO-W - RVO:68081766 UT WOS 000859917800001 EID SCOPUS 85138951970 DOI 10.1186/s13059-022-02772-1 Annotation Background The laboratory mouse was domesticated from the wild house mouse. Understanding the genetics underlying domestication in laboratory mice, especially in the widely used classical inbred mice, is vital for studies using mouse models. However, the genetic mechanism of laboratory mouse domestication remains unknown due to lack of adequate genomic sequences of wild mice. Results We analyze the genetic relationships by whole-genome resequencing of 36 wild mice and 36 inbred strains. All classical inbred mice cluster together distinctly from wild and wild-derived inbred mice. Using nucleotide diversity analysis, Fst, and XP-CLR, we identify 339 positively selected genes that are closely associated with nervous system function. Approximately one third of these positively selected genes are highly expressed in brain tissues, and genetic mouse models of 125 genes in the positively selected genes exhibit abnormal behavioral or nervous system phenotypes. These positively selected genes show a higher ratio of differential expression between wild and classical inbred mice compared with all genes, especially in the hippocampus and frontal lobe. Using a mutant mouse model, we find that the SNP rs27900929 (T>C) in gene Astn2 significantly reduces the tameness of mice and modifies the ratio of the two Astn2 (a/b) isoforms. Conclusion Our study indicates that classical inbred mice experienced high selection pressure during domestication under laboratory conditions. The analysis shows the positively selected genes are closely associated with behavior and the nervous system in mice. Tameness may be related to the Astn2 mutation and regulated by the ratio of the two Astn2 (a/b) isoforms. Workplace Institute of Vertebrate Biology Contact Hana Slabáková, slabakova@ivb.cz, Tel.: 543 422 524 Year of Publishing 2023 Electronic address https://genomebiology.biomedcentral.com/articles/10.1186/s13059-022-02772-1
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