植物研究2018，Vol.38Issue(1)：141-147,7.DOI:10.7525/j.issn.1673-5102.2018.01.017
基于SLAF-seq简化基因组技术的沙冬青SNP位点开发及遗传分析
SNP Sites Developed by Specific Length Amplification Fragment Sequencing(SLAF-seq) and Genetic Analysis in Ammopitanthus mongolicus
摘要
Abstract
Ten site of Ammopiptanthus mongolicus distributed in Inner Mongolia,Ningxia and Gansu Province were used as experiment materials for sequencing by specific-locus amplified fragment sequencing(SLAF-seq).The scheme of the experiment was designed based on bio-informatics technology.Taking Glycine max as the reference genome,specific size of DNA were chosen to construct the SLAF-seq library.After high-throughput sequencing,a great amount of sequences were obtained and used to obtain the polymorphism SLAF tags by software alignment,then found the distribution of specific SNP sites.In total,we obtained 374 265 SLAF tags,including 56 295 polymorphic SLAF tags.According to these conditions that integrity ＞ 0.5 and MAF ＞ 0.05screening from all SNP,obtained 102 025 group SNP which have high consistency.Phylogenetic relationship population structure and PCA analysis of ten individuals of A.mongolicus were analyzed using mathematical statistic method based on screening SNP,from the level of the genome to reveal the genetic differentiation between different groups.The results show that these A.mongolicus in ten different sites all originate from the same ancestor,but due to these factor that geographical location make the A.mongolicus produced genetic differentiation.Therefore,A.mongolicus growing in Inner Mongolia have close relationship,and that distributed in Ningxia and Gansu Province have close relationship.关键词
蒙古沙冬青/SLAF-seq/SNP/遗传分化Key words
Thymus mongolicus/SLAF-seq/SNP/genetic differentiation分类
农业科技引用本文复制引用
段义忠,王建武,杜忠毓,亢福仁..基于SLAF-seq简化基因组技术的沙冬青SNP位点开发及遗传分析[J].植物研究,2018,38(1):141-147,7.基金项目
National Natural Science Foundation of China(41601059 （）
Phylogeography of ancient Mediterranean relic and endangered plant genus Ammopiptanthus)国家自然科学基金项目(41601059,古地中海孑遗濒危植物沙冬青属谱系地理学研究) （41601059,古地中海孑遗濒危植物沙冬青属谱系地理学研究）
