斜纹夜蛾基因组拷贝数变异的全基因组图谱。

Genome-wide patterns of copy number variations in Spodoptera litura.

机构信息

State Key Laboratory of Silkworm Genome Biology, Southwest University, Chongqing 400716, China.

State Key Laboratory of Silkworm Genome Biology, Southwest University, Chongqing 400716, China; Chongqing Engineering and Technology Research Center for Novel Silk Materials, Southwest University, 2, Tiansheng Road, Beibei, Chongqing 400715, China.

出版信息

Genomics. 2019 Dec;111(6):1231-1238. doi: 10.1016/j.ygeno.2018.08.002. Epub 2018 Aug 13.

DOI:10.1016/j.ygeno.2018.08.002

PMID:30114452

Abstract

Spodoptera litura is a polyphagous pest and can feed on more than 100 species of plants, causing great damage to agricultural production. The SNP results showed that there were gene exchanges between different regions. To explore the variations of larger segments in S. litura genome, we used genome resequencing samples from 14 regions of China, India, and Japan to study the copy number variations (CNVs). We identified 3976 CNV events and 1581 unique copy number variation regions (CNVRs) occupying the 108.5 Mb genome of S. litura. A total of 5527 genes that overlapped with CNVRs were detected. Selection signal analysis identified 19 shared CNVRs and 105 group-specific CNVRs, whose related genes were involved in various biological processes in S. litura. We constructed the first CNVs map in S. litura genome, and our findings will be valuable for understanding the genomic variations and population differences of S. litura.

摘要

斜纹夜蛾是一种多食性害虫，能取食 100 多种植物，对农业生产造成了极大的危害。SNP 结果表明，不同区域之间存在基因交换。为了研究斜纹夜蛾基因组中较大片段的变异情况，我们利用来自中国、印度和日本的 14 个地区的基因组重测序样本，研究了拷贝数变异（CNV）。我们鉴定了 3976 个 CNV 事件和 1581 个独特的拷贝数变异区（CNVR），这些变异区占据了斜纹夜蛾 108.5 Mb 基因组的 108.5 Mb。总共检测到 5527 个与 CNVR 重叠的基因。选择信号分析鉴定了 19 个共享的 CNVR 和 105 个组特异性 CNVR，它们相关的基因参与了斜纹夜蛾的各种生物学过程。我们构建了斜纹夜蛾基因组中的第一个 CNVs 图谱，我们的发现将有助于理解斜纹夜蛾的基因组变异和种群差异。