基于简化基因组的花生InDel标记开发和功能解析

Development and Functional Analysis of Peanut Insertion and Deletion(InDel)Markers Based on Genotyping-by-Sequencing(GBS)

InDel在基因组中的分布密度仅次于SNP,可作为动植物群体遗传分析、分子辅助育种等研究领域的有效分子标记。花生是世界范围内重要的油料作物之一。目前,花生栽培种全基因组已经公布,为准确挖掘花生基因组信息提供了重要参考。本研究通过169份花生核心种质的GBS(Genotyping-by-sequencing)测序和比对,共获得大小分布在1～14 bp范围内的10401个InDels。染色体Arahy.16上分布的InDels最多,达741个;而在染色体Arahy.08上分布的最少,有263个。参考基因组注释信息,仅有1167个InDels分布在功能基因相关区域。经GO注释,InDel分子功能主要包括催化活性(catalytic activity)和结合(binding);生物过程主要涉及代谢过程(metabolic process)、单组织过程(single-organism process)和细胞过程(cellular process)。经KEGG通路分析发现,InDels所在的基因区域的功能主要与代谢相关。本研究开发出全基因组水平的InDel标记,并做了相应功能分类和注释,为进一步分子验证和利用提供丰富的基因资源。

Insertion/deletion(InDel)is the second largest molecular markers,which provide the valuable reference for population genetic and marker-assisted selection study.Peanut is one of the most important oil crops worldwide.The whole genome sequence of cultivated peanut has been released and therefore provided the important genome reference.In this study,we focus on InDels detection in peanut genome based on 169 peanut core collections.10401 InDels ranged from 1 to 14 bp have been detected by double digest genotypingby sequencing(ddGBS).The largest number of InDels distributed on Arahy.16,while the smallest number of In Dels found on Arahy.08.Obviously,the coding regions of these InDels showed the specific functions,including catalytic activity and binding compared with other regions.The KEGG analysis suggested that InDels were mainly detected in the metabolism process.These InDels will provide the important genetic resources for the further validation.