利用高通量测序分析青藏高原地区青杨的SSR和SNP特征  

Characteristic Analysis of SSR and SNP in Populus cathayana on the Qinghai-Tibetan Plateau by High-Throughput Sequencing

作　　者：雷淑芸 张发起[1,3] KhanGulzar 王久利[1,2] 刘海瑞[1,2] 陈世龙[1] 

机构地区：[1]中国科学院大学,北京100049 [2]西南大学生命科学学院,重庆400715 [3]中国科学院高原生物适应与进化重点实验室中国科学院西北高原生物研究所,青海西宁810008

出　　处：《林业科学研究》2015年第1期37-43,共7页Forest Research

基　　金：国家自然科学基金(31270270);青海省国际科技合作项目(2014-HZ-812)

摘　　要：利用Illumina Hi SeqTM2000平台对采自青海玉树的青杨进行高通量测序,SSR分析共获得7 067条SSR序列,复合型SSR共525条,发生频率0.149,平均跨度4 531.87 bp。SSR重复类型中,单核苷酸重复类型最多(33.96%);三核苷酸重复类型次之(31.00%);二核苷酸重复类型位居第三(27.69%);四核苷酸、五核苷酸、六核苷酸重复类型SSR含量很少(<8%)。二核苷酸重复类型中,AG重复类型所占比例最高,GA次之,CT、TC则紧随其后;三核苷酸重复类型中,AAG重复类型所占比例最高,GAA次之,TTC、AGA、GAG、CAG、TCT、TGG等重复类型数量相近。SNP分析发现,L1A中含SNP 162 343个,L2A中含SNP 229 115个。SNP类型中,转换类型明显高于颠换类型,L1A中转换类型占61.06%,颠换类型占38.94%,L2A中转换类型占61.27%,颠换类型占38.73%。转换类型中,C-T发生频率最高,分别为30.75%、30.66%,A-G发生频率与C-T相差不大,分别为30.31%、30.62%。L1A和L2A中SNPs类型及其发生频率变化趋势基本一致,L2A中与L1A中相对应的同一SNPs类型的数量之比约为2∶1。分析表明,在青杨的遗传多样性中,SNP标记较SSR标记更为可靠。Two samples of Populus cathayana from Yushu were sequenced with high-throughput sequencing technology （ Illumina HiSeqTM2000）. A total of 7076 sequences were hunted for microsatellites analysis, including 525 com- pound microsatellite sequences. The results showed that the mononucleotide repeats were the highest （33.96%）, followed by trinucleotide repeats （31.00% ） and dinucleotide repeats 27.69%. The tetranucleotide, pentanucleoti- de and hexanucleotide repeats were all less than 8%. Among the dinnucleotide repeats, the AG repeats were with highest frequency followed by GA, CT and TC respectively. Similarly in trinucleotide repeats, the AAG repeats were the highest followed by GAA, TTC, AGA, GAG, CAG, TCT and TGG. In the single nucleotide polymorphism, the transition types were higher than transversion in both samples. In sample L1 A, the transition types of SNPs were 61.06% while the transversion types were 38.94%. In sample L2A, the transition types were 61.27%,while the transversion types were 38.73%. Among the transitions of two samples, C-T occurrences frequencies were the most, 30.75% and 30.66% respectively. A-G oceurrenees frequencies were similar to C-T, list to the second （30.31% and 30.62% ）. In both samples, the single nueleotide polymorphism trends were similar. The ratios of the same single nucleotide polymorphism in both samples were 2： 1. The results of analysis indicated that the SNP was a more reliable maker in genetiediversity than SSR.

关 键 词：青杨 青藏高原 高通量测序 微卫星 单核苷酸多态性 

分 类 号：S718.46[农业科学—林学]