Data/hora: 10/06/2024 03:33:28

Provedor de dados: | Genetics and Molecular Biology
País: | Brazil
Título: | Linkage disequilibrium levels and allele frequency distribution in Blanco Orejinegro and Romosinuano Creole cattle using medium density SNP chip data
Autores: | Bejarano,Diego; Martínez,Rodrigo; Manrique,Carlos; Parra,Luis Miguel; Rocha,Juan Felipe; Gómez,Yolanda; Abuabara,Yesid; Gallego,Jaime.
Data: | 2018-06-01
Ano: | 2018
Palavras-chave: | Creole breeds; BovineSNP50; Linkage disequilibrium; Minor allele frequency.
Resumo: | Abstract The linkage disequilibrium (LD) between molecular markers affects the accuracy of genome-wide association studies and genomic selection application. High-density genotyping platforms allow identifying the genotype of thousands of single nucleotide polymorphisms (SNPs) distributed throughout the animal genomes, which increases the resolution of LD evaluations. This study evaluated the distribution of minor allele frequencies (MAF) and the level of LD in the Colombian Creole cattle breeds Blanco Orejinegro (BON) and Romosinuano (ROMO) using a medium density SNP panel (BovineSNP50K_v2). The LD decay in these breeds was lower than those reported for other taurine breeds, achieving optimal LD values (r2 ≥ 0.3) up to a distance of 70 kb in BON and 100 kb in ROMO, which is possibly associated with the conservation status of these cattle populations and their effective population size. The average MAF for both breeds was 0.27 ± 0.14 with a higher SNP proportion having high MAF values (≥ 0.3). The LD levels and distribution of allele frequencies found in this study suggest that it is possible to have adequate coverage throughout the genome of these breeds using the BovineSNP50K_v2, capturing the effect of most QTL related with productive traits, and ensuring an adequate prediction capacity in genomic analysis.
Tipo: | Info:eu-repo/semantics/article
Idioma: | Inglês
Identificador: | http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572018000300426
Editor: | Sociedade Brasileira de Genética
Relação: | 10.1590/1678-4685-gmb-2016-0310
Formato: | text/html
Fonte: | Genetics and Molecular Biology  v.41 n.2 2018
Fonte: | info:eu-repo/semantics/openAccess