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Detecting selection signatures in three Iranian sheep breeds
Author(s) -
Manzari Z.,
MehrabaniYeganeh H.,
NejatiJavaremi A.,
Moradi M. H.,
Gholizadeh M.
Publication year - 2019
Publication title -
animal genetics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.756
H-Index - 81
eISSN - 1365-2052
pISSN - 0268-9146
DOI - 10.1111/age.12772
Subject(s) - biology , selective sweep , genetics , candidate gene , linkage disequilibrium , genome , haplotype , gene , population , domestication , phenotype , genotype , selection (genetic algorithm) , evolutionary biology , demography , sociology , artificial intelligence , computer science
Summary The objective of genome mapping is to achieve valuable insight into the connection between gene variants (genotype) and observed traits (phenotype). Part of that objective is to understand the selective forces that have operated on a population. Finding links between genotype–phenotype changes makes it possible to identify selective sweeps by patterns of genetic variation and linkage disequilibrium. Based on Illumina 50 KSNP chip data, two approaches, XP ‐ EHH (cross‐population extend haplotype homozygosity) and F ST (fixation index), were carried out in this research to identify selective sweeps in the genome of three Iranian local sheep breeds: Baluchi ( n = 86), Lori‐Bakhtiari ( n = 45) and Zel ( n = 45). Using both methods, 93 candidate genomic regions were identified as harboring putative selective sweeps. Bioinformatics analysis of the genomic regions showed that signatures of selection related to multiple candidate genes, such as HOXB 9 , HOXB 13 , ACAN , NPR 2 , TRIL , AOX 1 , CSF 2 , GHR , TNS 2 , SPAG 8 , HINT 2 , ALS 2 , AAAS , RARG , SYCP 2 , CAV 1 , PPP 1R3D , PLA 2G7 , TTLL 7 and C20orf10 , that play a role in skeletal system and tail, sugar and energy metabolisms, growth, reproduction, immune and nervous system traits. Our findings indicated diverse genomic selection during the domestication of Iranian sheep breeds.