Estimation of linkage disequilibrium, persistence of phase and effective population size of Brazilian Hereford and Braford breeds.

A set of 41,241 SNP genotypes from 2,435 Hereford (HH) and Braford (BO) bovines were analyzed to estimate linkage disequilibrium (LD) levels, persistence of phase and effective population size of these populations. LD levels were estimated using the squared correlation of alleles at two loci (r2) at varying distances. Average r2 between adjacent SNP was 0.21 for HH and 0.16 for BO. Average inter-marker distance was 61 kb in both breeds. Useful LD values (r2>0.2) were observed at 0-60 kb bins in HH and 0-20 kb bins in BO. Breeds demonstrated moderate to strong persistence of phase at all distances (range=0.53-0.97). The greatest phase correlations (r>0.9) were found in 0-50 kb bins. LD estimates decreased rapidly with increasing distances between SNPs, however, useful LD was observed in genomic regions spanning up to ~50 kb.

Bibliographic Details

Main Authors:	BIEGELMEYER, P., OLIVEIRA, M. M., CARDOSO, L. L., GOMES, C. C. G., HIGA, R. H., DIONELLO, N. J. L., CAETANO, A. R., STEIBEL, J. P., CARDOSO, F. F.
Other Authors:	PATRÍCIA BIEGELMEYER, UFPEL; MAURICIO MORGADO OLIVEIRA, BOLSISTA CPPSUL; LEANDRO LUNARDINI CARDOSO, BOLSISTA CPPSUL; CLAUDIA CRISTINA GULIAS GOMES, CPPSUL; ROBERTO HIROSHI HIGA, CNPTIA; NELSON JOSÉ LAURINO DIONELLO, UFPEL; ALEXANDRE RODRIGUES CAETANO, CENARGEN; JUAN P. STEIBEL, Michigan State University; FERNANDO FLORES CARDOSO, CPPSUL.
Format:	Anais e Proceedings de eventos biblioteca
Language:	English eng
Published:	2014-12-24
Subjects:	Desequilíbrio de ligação, Tamanho populacional, Persistence of phase, Gado de corte, Beef cattle, Linkage disequilibrium, Population size,
Online Access:	http://www.alice.cnptia.embrapa.br/alice/handle/doc/1003699
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