Positive correlation between recombination rate and nucleotide diversity is shown under domestication selection in the chicken genome
Positive correlation between recombination rate and nucleotide diversity is shown under domestication selection in the chicken genome
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DOI：
10.1007/s11434-008-0159-y
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发表时间：
2008-03-01
影响因子：
--
通讯作者：
Wang Jun
中科院分区：
文献类型：
--
作者：
Fang Lin;Ye Jia;Wang Jun
在大量的真核生物中，重组率和核苷酸多样性之间存在着正相关关系。通过比较3个家鸡品种与野生鸡的遗传变异图谱和标记在遗传连锁图谱上的位置，我们发现所有染色体的SNPs率相似，但在微染色体上的重组率增加。换句话说，染色体大小不存在相关性。然而，当我们通过计算不重叠窗口内每个特征的值来扫描基因组时，发现核苷酸多样性与重组率显著相关(r=0.27P<；0.0005)，而不是每个染色体的单一值。此外，不仅这两个性状之间存在显著的关联，而且核苷酸多样性、重组率、GC含量和平均基因长度的6个配对组合之间也存在显著的关联。这种协变对于序列演化的研究具有重要意义。
Positive correlation between recombination rate and nucleotide diversity has been observed in a wide variety of eukaryotes on megabase scale. On the basis of genome-wide chicken genetic variation map generated by comparing three domestic breeds with wild ancestor and the positions of markers on the genetic linkage map, we found that SNPs rates were similar for all chromosomes while the recombination rates increased in micro chromosomes. In other words no correlation exists in chromosome size. Nevertheless, when we scanned the genome by calculating the values of each characteristic within non-overlapping windows, instead of single value for each chromosomes, the nucleotide diversity was found to be significantly correlated with the recombination rate (r=0.27, P < 0.0005). Furthermore, the significant association not only existed between these two features, but also existed between all 6 pairwise combinations of nucleotide diversity, recombination rate, GC content and average gene length. This co-variation is very meaningful for the studies of sequence evolution.