基于RAD重测序技术开发烟草品种SNP位点

Development of Tobacco SNPs based on RAD Re-sequencing Technology

利用限制性内切酶位点标签(RAD)技术,通过对10份供试烟草材料的基因组简化重测序,发掘了烟草高通量SNP位点,为烟草基因组学提供标记信息。结果表明,本研究共获得了44.33 Gb的Clean data数据,平均覆盖度1.01 X,共鉴定到291 770个SNP位点,SNP位点间的平均间距为10.066±29.801 kb。发掘到的SNP位点能够覆盖整个基因组,但在不同染色体部位上的分布密度存在一定差异,在17号染色上半臂的存在一段大范围的SNP密集区域。SNP变异类型以转换为主,通过功能注释在基因区域发现45 049处SNP位点。利用SNP分型信息,计算了供试品种间的遗传距离,平均为0.29,台烟8号的遗传背景与其他品种相对最远。该结果将为烟草QTL定位、候选基因发掘、亲本组配等研究提供科研依据。

Single Nucleotide Polymorphisms(SNPs)are the most widely used molecular markers in the genomics field.In this study,high throughput SNPs were developed through re-sequencing of ten tobacco varieties using Restriction-site Associated DNA(RAD)technology.The sequencing clean data of 44.33 Gb was obtained,with an average genome coverage of 1.01 X.291,770 SNPs were identified and the average spacing between adjacent SNPs was 10.066±29.801 kb.The SNPs cover the whole genome,but the distribution density of SNPs varies with the location of chromosomes.There is a long range of SNP-dense area in the upper arm of the 17th chromosome.Functional annotation showed that transition is the main type of SNP mutation and 45,049 SNPs were found in the gene regions.Based on the SNPs population genotyping information,genetic distance between the tested varieties was calculated,and the results showed that the average genetic distance is 0.29 and the genetic distance between Taiyan 8 and other varieties is the farthest.The results will provide scientific basis for tobacco QTL mapping,candidate gene discovery and parental group matching.