Linkage disequilibrium and signatures of selection on chromosomes 19 and 29 in beef and dairy cattle.

Animal Genetics
A PrasadS S Moore

Abstract

The objective of this study was to quantify the extent of linkage disequilibrium (LD) on bovine chromosomes 19 and 29 and to study the pattern of selection signatures in beef and dairy breeds (Angus and Holstein) of Bos taurus. The extent of LD was estimated for 370 and 186 single nucleotide polymorphism markers on BTA19 and 29 respectively using the square of the correlation coefficient (r(2)) among alleles at pairs of loci. A comparison of the extent of LD found that the decline of LD followed a similar pattern in both breeds. We observed long-range LD and found that LD dissipates to background levels at a locus separation of about 20 Mb on both chromosomes. Along each chromosome, patterns of LD were variable in both breeds. We find that a minimum of 30 000 informative and evenly spaced markers would be required for whole-genome association studies in cattle. In addition, we have identified chromosomal regions that show some evidence of selection for economically important traits in Angus and Holstein cattle. The results of this study are of importance for the design and application of association studies.

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Citations

Mar 26, 2013·Animal : an International Journal of Animal Bioscience·A P Silesian, J Szyda
Nov 30, 2011·Genetics, Selection, Evolution : GSE·Mahdi SaatchiJeremy F Taylor
Oct 27, 2012·Yi chuan = Hereditas·Xi-Dong LiuHui-Jiang Gao
Jan 9, 2010·Animal Genetics·S QanbariH Simianer
Jan 26, 2010·Animal Genetics·S QanbariH Simianer
Jan 19, 2012·Animal Science Journal = Nihon Chikusan Gakkaihō·Daisuke HosokawaHideyuki Mannen
May 16, 2012·Journal of Animal Breeding and Genetics = Zeitschrift Für Tierzüchtung Und Züchtungsbiologie·K A EngelsmaJ J Windig
Apr 6, 2016·PloS One·Imtiaz A S RandhawaHerman W Raadsma
Jul 30, 2014·Genetics and Molecular Biology·João José de Simoni GouveiaSônia Maria Pinheiro de Oliveira
Aug 18, 2018·Journal of Animal Breeding and Genetics = Zeitschrift Für Tierzüchtung Und Züchtungsbiologie·Nilesh NayeeBernt Guldbrandtsen
Nov 14, 2019·BMC Genomics·Jennifer N KiserHolly L Neibergs

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Methods Mentioned

BETA
genotyping
chip

Software Mentioned

blast
genoprob
SAS

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