Data from: RAD (Restriction site Associated DNA) for de novo sequencing and marker discovery in sugarcane borer, Diatraea saccharalis Fab. (Lepidoptera: Crambidae).

We present the development of a genomic library using RADseq (Restriction site Associated DNA sequencing) protocol for marker discovery that can be applied on evolutionary studies of the sugarcane borer Diatraea saccharalis, an important South American insect pest. A RADtag protocol combined with Illumina paired-end sequencing allowed de novo discovery of 12,811 SNPs and a high quality assembly of 122.8M paired-end reads from six individuals, representing 40Gb of sequencing data. Approximately 1.7Mb of the sugarcane borer genome distributed over 5,289 minicontigs were obtained upon assembly of second reads from first reads RADtag loci where at least one SNP was discovered and genotyped. Minicontig lengths ranged from 200 to 611bp and were used for functional annotation and microsatellite discovery. These markers will be used in future studies to understand gene flow and adaptation to host plants and control tactics.

本研究开发了基于RADseq（限制性酶切位点相关DNA测序，Restriction site Associated DNA sequencing）技术的基因组文库，用于分子标记开发，可应用于重要南美农业害虫——甘蔗螟虫（Diatraea saccharalis）的进化生物学研究。本研究结合RADtag技术与Illumina双端测序策略，对6个个体的样本进行测序，最终从头（de novo）发现了12811个单核苷酸多态性位点（Single Nucleotide Polymorphisms，SNPs），并高质量组装得到1.228亿条双端测序读段，总测序数据量达40Gb。通过对至少携带一个已发现并完成基因分型SNP的RADtag位点的初始读段进行二次组装，本研究获得了分布于5289个微型重叠群（minicontigs）上的、总长约1.7Mb的甘蔗螟虫基因组序列。这些微型重叠群的长度介于200bp至611bp之间，可用于功能注释与微卫星标记开发。上述开发的分子标记将在后续研究中用于解析甘蔗螟虫的基因流、寄主植物适应性以及防控策略相关机制。