Selection signatures in Canchim beef cattle

查看全文 作　　者：Ismael [1]Urbinati;Nedenia Bonvino [1]Stafuzza;Marcos Túlio [2]Oliveira;Tatiane Cristina Seleguim [1]Chud;Roberto Hiroshi [3]Higa;Luciana Correia de Almeida [4]Regitano;Maurício Mello de [4]Alencar;Marcos Eli [1]Buzanskas;Danísio Prado [1]Munari 机构地区：[1]Departamento de Ciencias Exatas,Univ Estadual Paulista,Faculdade de Ciencias Agrairias e Veterinairias,jaboticabal,Sao Paulo 14884-900,Brazil;[2]Departamento de Tecnologia,UNESP-Univ Estadual Paulista,Faculdade de Ciencias Agrarias e Veterinarias,Jaboticabal,Sao Paulo 14884-900,Brazil;[3]Embrapa Agricultural Informatics,Campinas,Sao Paulo 13083-886,Brazil;[4]Embrapa Southeast Livestock,Sao Carlos,Sao Paulo 13560-970,Brazil 出　　处：《Journal of Animal Science and Biotechnology》索引2017年第8卷第1期,共9页 基　　金：the Brazilian Agricultural Research Corporation(EMBRAPA)for providing the data used in this study;the Sao Paulo Research Foundation(FAPESP)(grant 2013/09050-0,2014/02253-6,2015/08939-0,and 2013/19335-2,respectively);supported by a fellowship from the National Council of Technological and Scientific Development(CNPq) 摘　　要：Background: Recent technological advances in genomics have allowed the genotyping of cattle through single nucleotide polymorphism(SNP) panels. High-density SNP panels possess greater genome coverage and are useful for the identification of conserved regions of the genome due to selection, known as selection signatures(SS). The SS are detectable by different methods, such as the extended haplotype homozygosity(EHH); and the integrated haplotype score(i HS), which is derived from the EHH. The aim of this study was to identify SS regions in Canchim cattle(composite breed), genotyped with high-density SNP panel.Results: A total of 687,655 SNP markers and 396 samples remained for SS analysis after the genotype quality control. The i HS statistic for each marker was transformed into pi HS for better interpretation of the results.Chromosomes BTA5 and BTA14 showed pi HS > 5, with 39 and nine statistically significant SNPs(P < 0.00001),respectively. For the candidate selection regions, i HS values were computed across the genome and averaged within non-overlapping windows of 500 Kb. We have identified genes that play an important role in metabolism,melanin biosynthesis(pigmentation), and embryonic and bone development.Conclusions: The observation of SS indicates that the selection processes performed in Canchim, as well as in the founder breeds(i.e. Charolais), are maintaining specific genomic regions, particularly on BTA5 and BTA14. These selection signatures regions could be associated with Canchim characterization. 关 键 词：Composite breed Extended haplotype homozygosity GENOMICS Single nucleotide polymorphism