甘薯近缘野生种Ipomoea Littoralis全基因组Survey分析

Genome Survey Analysis of Relative Wild Species Ipomoea Littoralis in Sweetpotato

Ipomoea littoralis是甘薯的近缘野生种之一,对其全基因组的研究可为甘薯种质资源的创新提供参考,同时为全基因组精细图谱的绘制打下基础。本研究通过二代高通量测序技术(Illumina Hiseq 2500),测序深度约为60,经过滤后得到22.45 G数据,结合生物信息学手段估算基因组大小、杂合率、重复序列和GC含量等基因组特征。预估基因组大小经修正后为676.27 Mb。K-mer分析结果得出I.littoralis基因组中重复序列所占比率为60.98%,杂合率为0.81%;初步组装结果,contigs N50为0.684 kb,总读长为0.538 Gb,scaffolds N50为12.09 kb,总读长为0.602 Gb;GC平均深度及含量分布出现分层现象。本研究首次报道I.littoralis的基因组特征信息,为进一步全基因组深度测序提供参考。

Ipomoea littoralis is one of the wild relatives of sweet potato. Its genome-wide research can provide reference for the innovation of sweet potato germplasm resources and for the mapping of the whole genome.This study used a second-generation high-throughput sequencing technology (Illumina Hiseq 2500) with a sequencing depth of approximately 60× and filtered to obtain 22.45 G data. Bioinformatics was used to estimate genome size, heterozygosity, repeat sequence and GC. The predicted genome size was 676.27 Mb. The K-mer analysis showed that the ratio of repeats was 60.98%, and the heterozygosity rate was 0.81%. The contigs N50 was 684 kb after preliminary assembly. The total reading length was 0.538 Gb, scaffolds N50 was 12.09 kb, and the total reading length was 0.602 Gb. The average depth and content distribution of GC were stratified.