基于牙鲆RNA-seq数据中SSR标记的信息分析  

Bioinformatic analysis of SSR markers in transcriptomic sequenceing Paralichthys olivaceus

作　　者：李超[1] 侯吉伦[2] 王桂兴[2] 张晓彦[2] 刘永富[1] 童爱萍 刘海金[3] 

机构地区：[1]上海海洋大学水产与生命学院,上海201306 [2]中国水产科学研究院北戴河中心实验站,河北秦皇岛066100 [3]中国水产科学研究院水产生物应用基因组研究中心,北京100141

出　　处：《海洋渔业》2015年第2期122-127,共6页Marine Fisheries

基　　金：国家863计划项目(2012AA10A408);现代农业产业技术体系建设专项资金(CARS-50-G02;CARS-50-Z03)

摘　　要：通过对牙鲆（Paralichthys olivaceus）进行转录组测序（RNA-seq）,利用Micro SAtellite（MISA）软件对1~6个碱基重复、碱基数在10 bp以上的微卫星进行鉴定。结果表明,牙鲆转录组水平上,共发现42 183个SSR位点,分布在26 457条Unigene上,发生频率为27.12%,平均密度为339个/Mbp。获得的SSR一共有216种重复基元,其中二核苷酸重复基元类型数量最多,共有17 570个,占所鉴定SSR总数的41.65%。同时用SPSS statistics 20.0软件对牙鲆转录组SSR的多态性进行了评估。Transcriptomic sequencing was performed on Japanese flounder（ Paralichthys olivaceus）,and the Microsatellite（ MISA） software was used to identify and analyze the SSRs with 1-6 base repeats and base above 10 bp. A total of 42 183 SSRs were identified,distributed in 26 457 unigenes,which accounted for27. 12% of total number of unigenes and the distribution density of the transcriptomic SSRs from transcriptome were 339 / Mbp. In total,we found 216 different types of repeat motifs,in which the dinucleotide repeats SSRs were the major types with the number of 17 570,accounting for 41. 65% of all SSRs identified. Meanwhile,the polymorphism of all transcriptomic SSRs was assessed by SPSS statistics 20. 0 software.

关 键 词：牙鲆 转录组测序 SSR标记 

分 类 号：S961.6[农业科学—水产养殖]