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.

本研究建立了一套基于RADseq（限制性酶切位点相关DNA测序，Restriction site Associated DNA sequencing）的基因组文库构建方法，用于分子标记发掘，可应用于南美重要农业害虫甘蔗螟虫（Diatraea saccharalis）的进化生物学研究。本研究采用RADtag技术结合Illumina双端测序方案，对6个个体的样本进行测序，共获得122.8百万条双端读段，总测序数据量达40吉字节；通过从头组装，成功发掘出12811个单核苷酸多态性（Single Nucleotide Polymorphism，SNP），并完成了高质量的读段拼接。针对至少发掘出一个单核苷酸多态性且完成基因分型的RADtag位点，研究人员利用其初始读段对应的次级读段进行组装，最终获得了分布于5289个微型重叠群（minicontigs）上、总长约1.7 Mb的甘蔗螟虫基因组片段。该批微型重叠群的长度区间为200~611 bp，可用于功能注释与微卫星标记的发掘。上述分子标记将在后续研究中用于解析种群基因流、宿主植物适应性及害虫防治策略相关的生物学机制。