Please use this identifier to cite or link to this item: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1006604
Title: Linkage disequilibrium and haplotype block structure in a composite beef cattle breed.
Authors: MOKRY, F. B.
BUZANSKAS, M. E.
MUDADU, M. de A.
GROSSI, D. do A.
HIGA, R. H.
VENTURA, R. V.
LIMA, A. O. de
SARGOLZAEI, M.
MEIRELLES, S. L. C.
SCHENKEL, F. S.
SILVA, M. V. G. B.
NICIURA, S. C. M.
ALENCAR, M. M. de
MINARI, D. P.
REGITANO, L. C. de A.
Affiliation: MARCOS VINICIUS GUALBERTO B SILVA, CNPGL.
Date Issued: 2014
Citation: BMC Genomics, London v. 15, p. 1-9, Oct. 2014.
Description: Abstract. Background: The development of linkage disequilibrium (LD) maps and the characterization of haplotype block structure at the population level are useful parameters for guiding genome wide association (GWA) studies, and for understanding the nature of non-linear association between phenotypes and genes. The elucidation of haplotype block structure can reduce the information of several single nucleotide polymorphisms (SNP) into the information of a haplotype block, reducing the number of SNPs in a coherent way for consideration in GWA and genomic selection studies. Results: The maximum average LD, measured by r2 varied between 0.33 to 0.40 at a distance of < 2.5 kb, and the minimum average values of r2 varied between 0.05 to 0.07 at distances ranging from 400 to 500 kb, clearly showing that the average r2 reduced with the increase in SNP pair distances. The persistence of LD phase showed higher values at shorter genomic distances, decreasing with the increase in physical distance, varying from 0.96 at a distance of < 2.5 kb to 0.66 at a distance from 400 to 500 kb. A total of 78% of all SNPs were clustered into haplotype blocks, covering 1,57 Mb of the total autosomal genome size. Conclusions: This study presented the first high density linkage disequilibrium map and haplotype block structure for a composite beef cattle population, and indicates that the high density SNP panel over 700 k can be used for genomic selection implementation and GWA studies for Canchim beef cattle.
Thesagro: Gado de corte.
NAL Thesaurus: beef cattle
linkage disequilibrium
single nucleotide polymorphism.
Keywords: Composite
Desequilíbrio de ligação
Genome wide association studies
Halplotype block
Linjage disequilibirium
Polimorfismo de nucleotídeo único.
Language: en
DOI: 10.1186/1471-2164-15-S7-S6
Notes: Suppl 7.
Type of Material: Separatas
Access: openAccess
Appears in Collections:Artigo em periódico indexado (CNPGL)

Files in This Item:
File Description SizeFormat 
MOKRY.pdf2,39 MBAdobe PDFThumbnail
View/Open

FacebookTwitterDeliciousLinkedInGoogle BookmarksMySpace