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Estimates of linkage disequilibrium and effective population sizes in Chinese Merino (Xinjiang type) sheep by genome-wide SNPs

文献类型： 外文期刊

作者： Liu, Shudong 1 ; He, Sangang 2 ; Chen, Lei 2 ; Li, Wenrong 2 ; Di, Jiang 4 ; Liu, Mingjun 2 ;

作者机构： 1.Shihezi Univ, Coll Anim Sci & Technol, Shihezi, Xinjiang, Peoples R China

2.MOA, Key Lab Genet Breeding & Reprod Grass Feeding Liv, Urumqi, Xinjiang, Peoples R China

3.Xinjiang Acad Anim Sci, Key Lab Anim Biotechnol Xinjiang, Urumqi, Xinjiang, Peoples R China

4.Xinjiang Acad Anim Sci, Inst Anim Sci, Xinjiang Wool Sheep & Cashmere Goat Key Breeding, Urumqi, Xinjiang, Peoples R China

关键词： Chinese Merino (Xinjiang Type) sheep;Linkage disequilibrium;Effective population size;Genome-wide SNPs

期刊名称：GENES & GENOMICS （ 影响因子：1.839； 五年影响因子：1.329 ）

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收录情况： SCI

摘要： 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 (2) >= 0.25) across the whole genome was observed at short distances of 0-10 kb. Further, the ancestral effective population size (N-e ) was analyzed by extent of LD and found that N-e 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, N-e 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.

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