Genomic analysis of conservation status, population structure, and admixture in local Czech and Slovak dairy goat breeds

Result code in IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F60460709%3A41210%2F24%3A98132" target="_blank" >RIV/60460709:41210/24:98132 - isvavai.cz</a>

Alternative codes found

RIV/00027014:_____/24:10006003

Result on the web

<a href="https://doi.org/10.3168/jds.2023-24607" target="_blank" >https://doi.org/10.3168/jds.2023-24607</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.3168/jds.2023-24607" target="_blank" >10.3168/jds.2023-24607</a>

Result language

angličtina

Original language name

Genomic analysis of conservation status, population structure, and admixture in local Czech and Slovak dairy goat breeds

Original language description

Although dairy goat production, characterized by traditional production on small farms, is an important source of income in the Czech Republic and Slovakia, locally adapted breeds have not been fully consolidated over the last 100 yr due to large fluctuations in population size and inconsistent breeding programs that allowed for different crossbreeding strategies. Our main objective in this study was therefore to assess the conservation status of 4 Czech (Alpine Goat, White Shorthair, Brown Shorthair, and Czech Landrace) and 1 Slovak (Slovak White Shorthair) local goat breeds, to analyze their population structure and admixture, and to estimate their relatedness to several neighboring breeds. Our analyses included 142 goats belonging to 5 local breeds genotyped with the Illumina 50K BeadChip, and 618 previously genotyped animals representing 15 goat breeds from Austria and Switzerland (all analyses based on 46,862 autosomal SNPs and 760 animals). In general, the conservation status of the Czech and Slovak local goat breeds was satisfactory, with the exception of the Brown Shorthair goat, as the analyzed parameters (heterozygosity, haplotype richness, runs of homozygosity–based inbreeding, and effective population size) were mostly above the median of 20 breeds. However, for all 5 Czech and Slovakian breeds, an examination of historical effective population size indicated a substantial decline about 8 to 22 generations ago. In addition, our study revealed that the Czech and Slovakian breeds are not fully consolidated; for instance, White Shorthair and Brown Shorthair were not clearly distinguishable. Considerable admixture, especially in Czech Landrace (effective number of parental clusters = 4.2), and low but numerous migration rates from other Austrian and Swiss breeds were found. These results provide valuable insights for future breeding programs and genetic diversity management of local Czech and Slovak goat breeds.

Czech name

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Czech description

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Type

J_imp - Article in a specialist periodical, which is included in the Web of Science database

CEP classification

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OECD FORD branch

40201 - Animal and dairy science; (Animal biotechnology to be 4.4)

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)

Publication year

2024

Confidentiality

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Name of the periodical

Journal of Dairy Science

ISSN

0022-0302

e-ISSN

1525-3198

Volume of the periodical

107

Issue of the periodical within the volume

10

Country of publishing house

US - UNITED STATES

Number of pages

18

Pages from-to

8205-8222

UT code for WoS article

001320543000001

EID of the result in the Scopus database

2-s2.0-85204469143