Supporting data for "Genome sequence of the corn leaf aphid (Rhopalosiphum maidis Fitch)"

The corn leaf aphid (Rhopalosiphum maidis Fitch) is the most economically damaging aphid pest on maize (Zea mays), one of the worlds most important grain crops. In addition to causing direct damage due to the removal of photoassimilates, R. maidis transmits several destructive maize viruses, including Maize yellow dwarf virus, Barley yellow dwarf virus, Sugarcane mosaic virus, and Cucumber mosaic virus. The genome of a parthenogenetically reproducing R. maidis clone was assembled with a combination of PacBio (207-fold coverage) and Illumina (83-fold coverage) sequencing. The 689 assembled contigs, which have an N50 size of 9.0 Mb and a low level of heterozygosity, were clustered using Phase Genomics Hi-C interaction maps. Consistent with the commonly observed 2n = 8 karyotype of R. maidis, most of the contigs (473 spanning 321 Mb) were successfully oriented into four scaffolds. The genome assembly captured the full length of 95.8% of the core eukaryotic genes, indicating that it is highly complete. Repetitive sequences accounted for 21.2% of the assembly, and a total of 17,629 protein-coding genes were predicted with integrated evidence from ab initio and homology-based gene predictions and transcriptome sequences generated with both PacBio and Illumina. An analysis of likely horizontally transferred genes identified two from bacteria, seven from fungi, two from protozoa, and nine from algae. A high-quality R. maidis genome was assembled at the chromosome level. This genome sequence will enable further research related to ecological interactions, virus transmission, pesticide resistance, and other aspects of R. maidis biology. It also serves as a valuable resource for comparative investigation of other aphid species.

搜集汇总

背景与挑战

背景概述

该数据集为玉米蚜虫（Rhopalosiphum maidis）的基因组和转录组数据，发布于2019年，结合PacBio和Illumina测序技术，生成了高质量、染色体级别的基因组组装，包含17,629个预测基因和低水平杂合度。数据支持研究玉米蚜虫作为玉米重要害虫的生态交互、病毒传播和生物学特性，并包括玉米蚜虫及其内共生体的三个样本详细信息。