Linkage disequilibrium decay and haplotype block structure in the pig
Linkage disequilibrium decay and haplotype block structure in the pig
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DOI：
10.1534/genetics.107.084277
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发表时间：
2008-05-01
期刊：
影响因子：
3.3
通讯作者：
Groenen, Martien A. M.
中科院分区：
文献类型：
--
作者：
Amaral, Andreia J.;Megens, Hendrik-Jan;Groenen, Martien A. M.
连锁不平衡（LD）可以揭示驯化和育种历史。进行了所有调查，以分析来自中国和欧洲的几个猪品种以及欧洲野猪的LD、单块划分和单块内单倍型多样性的程度。总共有371个位于三个基因组区域的单核苷酸多态性进行了基因分型。欧洲和中国品种之间的LD的程度显着不同，在欧洲和中国的尖端延伸到2厘米，高达0.05厘米。在欧洲品种中，LD延伸到大的单倍体顶端400 kb，而在中国品种的LD的范围较小，一般不超过10 kb。欧洲野猪的LD介于中国和欧洲猪种之间。在欧洲，LD的程度也因基因组区域而异。中国猪种表现出较高的单倍型多样性，与大白色猪、长白猪和杜洛克猪共享高水平的频繁单倍型。两个猪驯化中心的LD程度不同，欧洲更高。有两种假设可以解释这些发现。首先，欧洲祖先的股票有一个更高的LD水平。第二，现代育种计划增加了LD在欧洲的程度，并导致LD基因组区域之间的差异。大白色，长白猪，杜洛克显示过去渗入中国品种的证据。
Linkage disequilibrium (LD) may reveal much about domestication and breed history. Ail investigation was conducted, to analyze the extent of LD, haploblock partitioning, and haplotype diversity within haploblocks across several pig breeds from China and Europe and in European wild boar. In total, 371 single-nucleotide-polymorph isms located in three genomic regions were genotyped. The extent of LD differed significantly between European and Chinese breeds, extending tip to 2 cM in Europe and up to 0.05 cM in China. In European breeds, LD extended over large haploblocks tip to 400 kb, whereas in Chinese breeds the extent of LD was smaller and generally did not exceed 10 kb. The European wild boar showed an intermediate level of LD between Chinese and European breeds. In Europe, the extent of LD also differed according to genomic region. Chinese breeds showed a higher level of haplotype diversity and shared high levels of frequent haplotypes with Large White, Landrace, and Duroc. The extent of LD differs between both centers of pig domestication, being higher in Europe. Two hypotheses can explain these findings. First, the European ancestral stock had a higher level of LD. Second, modern breeding programs increased the extent of LD in Europe and caused differences of LD between genomic regions. Large White, Landrace, and Duroc showed evidence of past introgression from Chinese breeds.