Estimates of linkage disequilibrium and effective population sizes in Chinese Merino Xinjiang type sheep by genome-wide SNPsReportar como inadecuado




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Genes and Genomics

, Volume 39, Issue 7, pp 733–745

First Online: 17 April 2017Received: 11 June 2016Accepted: 19 March 2017DOI: 10.1007-s13258-017-0539-2

Cite this article as: Liu, S., He, S., Chen, L. et al. Genes Genom 2017 39: 733. doi:10.1007-s13258-017-0539-2

Abstract

Knowledge of linkage disequilibrium LD is important for effective genome-wide association studies and accurate genomic prediction. Chinese Merino Xinjiang type is well-known fine wool sheep breed. However, the extent of LD across the genome remains unexplored. In this study, we calculated autosomal LD based on genome-wide SNPs of 635 Chinese Merino Xinjiang type sheep by Illumina Ovine SNP50 BeadChip. A moderate level of LD r ≥ 0.25 across the whole genome was observed at short distances of 0–10 kb. Further, the ancestral effective population size Ne was analyzed by extent of LD and found that Ne increased with the increase of generations and declined rapidly within the most recent 50 generations, which is consistent with the history of Chinese Merino sheep breeding, initiated in 1971. We also noted that even when the effective population size was estimated across different single chromosomes, Ne only ranged from 140.36 to 183.33 at five generations in the past, exhibiting a rapid decrease compared with that at ten generations in the past. These results indicated that the genetic diversity in Chinese Merino sheep recently decreased and proper protective measures should be taken to maintain the diversity. Our datasets provided essential genetic information to track molecular variations which potentially contribute to phenotypic variation in Chinese Merino sheep.

KeywordsChinese Merino Xinjiang Type sheep Linkage disequilibrium Effective population size Genome-wide SNPs 



Autor: Shudong Liu - Sangang He - Lei Chen - Wenrong Li - Jiang Di - Mingjun Liu

Fuente: https://link.springer.com/







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