首页|Genomic signatures of selection,local adaptation and production type characterisation of East Adriatic sheep breeds

Genomic signatures of selection,local adaptation and production type characterisation of East Adriatic sheep breeds

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Background The importance of sheep breeding in the Mediterranean part of the eastern Adriatic has a long tradi-tion since its arrival during the Neolithic migrations.Sheep production system is extensive and generally carried out in traditional systems without intensive systematic breeding programmes for high uniform trait production(carcass,wool and milk yield).Therefore,eight indigenous Croatian sheep breeds from eastern Adriatic treated here as metapopulation(EAS),are generally considered as multipurpose breeds(milk,meat and wool),not specialised for a particular type of production,but known for their robustness and resistance to certain environmental condi-tions.Our objective was to identify genomic regions and genes that exhibit patterns of positive selection signatures,decipher their biological and productive functionality,and provide a "genomic"characterization of EAS adaptation and determine its production type.Results We identified positive selection signatures in EAS using several methods based on reduced local variation,linkage disequilibrium and site frequency spectrum(eROHi,iHS,nSL and CLR).Our analyses identified numerous genomic regions and genes(e.g.,desmosomal cadherin and desmoglein gene families)associated with environmen-tal adaptation and economically important traits.Most candidate genes were related to meat/production and health/immune response traits,while some of the candidate genes discovered were important for domestication and evo-lutionary processes(e.g.,HOXa gene family and FSIP2).These results were also confirmed by GO and QTL enrichment analysis.Conclusions Our results contribute to a better understanding of the unique adaptive genetic architecture of EAS and define its productive type,ultimately providing a new opportunity for future breeding programmes.At the same time,the numerous genes identified will improve our understanding of ruminant(sheep)robustness and resistance in the harsh and specific Mediterranean environment.

Composite-likelihood ratioEast Adriatic sheepExtreme ROH islandsGenomic selection signaturesIntegrated haplotype scoreNumber of segregating sites by length

Boris Lukic、Ino Curik、Ivana Drzaic、Vlatko Gali?、Mario Shihabi、Lubo? Vostry、Vlatka Cubric-Curik

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Faculty of Agrobiotechnical Sciences Osijek,J.J,Strossmayer University of Osijek,Vladimira Preloga 1,31000 Osijek,Croatia

Department of Animal Science,Faculty of Agriculture,University of Zagreb,Svetošimunska Cesta 25,10000 Zagreb,Croatia

Department of Maize Breeding and Genetics,Agri-cultural Institute Osijek,Južno predgrade 17,31000 Osijek,Croatia

Czech Uni-versity of Life Sciences Prague,Kamýcká 129,165 00 Praque,Czech Republic

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Croatian Science FoundationEU Operational Program Competitiveness and Cohesion project(2014-2020)project of the Ministry of Agriculture,Czech Republic

2018-01-8708KK.01.1.1.04.0058QK1919156

2024

10.1186/s40104-023-00936-y

畜牧与生物技术杂志(英文版)
中国科学技术协会

畜牧与生物技术杂志(英文版)

CSTPCD
影响因子：0.765
ISSN：1674-9782
年,卷(期)：2024.15(2)
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