Genomic diversity and population structure of the Czech Holstein cattle
The result's identifiers
Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00027014%3A_____%2F23%3A10005831" target="_blank" >RIV/00027014:_____/23:10005831 - isvavai.cz</a>
Alternative codes found
RIV/60460709:41210/23:94788
Result on the web
<a href="https://vuzv.cz/_privat/23099.pdf" target="_blank" >https://vuzv.cz/_privat/23099.pdf</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.1016/j.livsci.2023.105261" target="_blank" >10.1016/j.livsci.2023.105261</a>
Alternative languages
Result language
angličtina
Original language name
Genomic diversity and population structure of the Czech Holstein cattle
Original language description
Holstein-Friesian (HF) is a cosmopolitan breed distributed in more than 150 countries. It represents a large metapopulation with intensive gene flow, realised mainly through artificial insemination and the intensive use of the popular "star" bulls. The breed is known for its superiority in milk yield, production efficiency and black and white coat color. In contrast to the enormous size of the census population, which exceeds nine million animals in the U.S. alone, the genetic diversity of this highly commercialised breed is surprisingly low, necessitating genetic monitoring, especially of subpopulations in individual countries. Our main objective in this study was to analyze genomic diversity (estimated by genomic inbreeding and effective population size) and population structure (relationship to other subpopulations) of the subpopulation from the Czech Republic and, based on high-throughput SNP array genotypes. We analysed 2178 animal samples (32,865 autosomal SNP) from 12 sub-populations and the Simental cattle breed (98 animals), which represents an outlier population. Czech bulls showed high genomic inbreeding (FROH>2Mb=0.133), well above the inbreeding level of Czech cows (FROH>2Mb=0.091), with particularly high recent inbreeding (ROH>8Mb). Unexpectedly, the estimated effective population size (NeLD) was relatively high, ranging from 202 (GONE) to 283 (NeEstimator v2), depending on the estimation algorithm. Our phylogenetic analyses showed that the Czech HF belonged to the "core metapopulation HF ", together with Belgian, British, Canadian, Dutch, French, German, and USA subpopulations, which was separated from the Swiss, Irish, and Croatian subpopulations. We also showed that Czech AI bulls differed slightly from cows, especially in genes affecting meat and carcass. Our results have defined the population structure of the Czech HF and indicate the potential problems of increased inbreeding due to selection of AI bulls.
Czech name
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Czech description
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Classification
Type
J<sub>imp</sub> - Article in a specialist periodical, which is included in the Web of Science database
CEP classification
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OECD FORD branch
40203 - Husbandry
Result continuities
Project
Result was created during the realization of more than one project. More information in the Projects tab.
Continuities
P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)<br>I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace
Others
Publication year
2023
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů
Data specific for result type
Name of the periodical
Livestock Science
ISSN
1871-1413
e-ISSN
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Volume of the periodical
273
Issue of the periodical within the volume
July
Country of publishing house
NL - THE KINGDOM OF THE NETHERLANDS
Number of pages
9
Pages from-to
105261
UT code for WoS article
001012560400001
EID of the result in the Scopus database
2-s2.0-85162780977