Signer-Hasler, Heidi; Casanova, Lucas; Barenco, Alex; Maitre, Blaise; Bagnato, Alessandro; Vevey, Mario; Berger, Beate; Simčič, Mojca; Boichon, Denis; Capitan, Aurélien; Medugorac, Ivica; Bennewitz, Jörn; Mészáros, Gábor; Sölkner, Johann; Drögemüller, Cord; Flury, Christine (2023). Genomic regions underlying positive selection in local, Alpine cattle breeds Animal Genetics, 54(3), pp. 239-253. Wiley-Blackwell 10.1111/age.13295
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Animal Genetics - 2023 - SignerHasler - Genomic regions underlying positive selection in local Alpine cattle breeds.pdf - Published Version Available under License Creative Commons: Attribution (CC-BY). Download (3MB) | Preview |
We used genome-wide SNP data from 18 local cattle breeds from six countries of the Alpine region to characterize population structure and identify genomic regions underlying positive selection. The geographically close breeds Evolèner, Eringer, Valdostana Pezzata Nera, and Valdostana Castana were found to differ from all other Alpine breeds. In addition, three breeds, Simmental, and Original Braunvieh from Switzerland and Pinzgauer from Austria built three separate clusters. Of the 18 breeds studied, the intra-alpine Swiss breed Evolèner had the highest average inbreeding based on runs of homozygosity (FROH) and the highest average genomic relationship within the breed. In contrast, Slovenian Cika cattle had the lowest average genomic inbreeding and the lowest average genomic relationship within the breed. We found selection signatures on chromosome 6 near known genes such as KIT and LCORL explaining variation in coat color and body size in cattle. The most prominent selection signatures were similar regardless of marker density and the breeds in the data set. In addition, using available high-density SNP data from 14 of the breeds we identified 47 genome regions as ROH islands. The proportion of homozygous animals was higher in all studied animals of local breeds than in Holstein and Brown Swiss cattle, the two most important commercial breeds in the Alpine region. We report ROH islands near genes related to thermoregulation, coat color, production, and stature. The results of this study serve as a basis for the search for causal variants underlying adaptation to the alpine environment and other specific characteristics selected during the evolution of local Alpine cattle breeds.
Item Type: |
Journal Article (Original Article) |
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Division/Institute: |
School of Agricultural, Forest and Food Sciences HAFL School of Agricultural, Forest and Food Sciences HAFL > Agriculture School of Agricultural, Forest and Food Sciences HAFL > Agriculture > Livestock and Horses |
Name: |
Signer-Hasler, Heidi 0000-0001-5193-5306; Casanova, Lucas; Barenco, Alex; Maitre, Blaise; Bagnato, Alessandro; Vevey, Mario; Berger, Beate; Simčič, Mojca; Boichon, Denis; Capitan, Aurélien; Medugorac, Ivica; Bennewitz, Jörn; Mészáros, Gábor; Sölkner, Johann; Drögemüller, Cord and Flury, Christine |
Subjects: |
Q Science > QH Natural history > QH426 Genetics S Agriculture > S Agriculture (General) S Agriculture > SF Animal culture |
ISSN: |
0268-9146 |
Publisher: |
Wiley-Blackwell |
Language: |
English |
Submitter: |
Heidi Signer-Hasler |
Date Deposited: |
10 Jan 2023 15:50 |
Last Modified: |
21 May 2023 01:37 |
Publisher DOI: |
10.1111/age.13295 |
ARBOR DOI: |
10.24451/arbor.18470 |
URI: |
https://arbor.bfh.ch/id/eprint/18470 |
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