巴西橡胶树转录组中SSR位点的信息分析

Bioinformatic analysis of SSR markers in transcriptome of rubber tree Hevea brasiliensis Muell. Arg.

从NCBI网站下载橡胶树（Hevea brasiliensis）品种RRIM 600的全转录组数据（登录号：JT914190-JT981478）,利用SSR软件MicroSAtellite （MISA）,并采用含有1～10个碱基重复、碱基数在12 bp以上的鉴定标准对SSR基元进行鉴定分析.结果表明,从RRIM 600的全转录组数据中,共发现91 846个SSR,分布于42 859条Unigene中,发生频率为63.71％.橡胶树转录组SSR的平均长度为9 bp,平均分布频率是1/0.92 kb.其中含6个碱基重复基元类型最多,共有52 615个,占所鉴定SSR总数的57.29％.同时对这些SSR的可用性进行了评价.

Unigenes were downloaded from NCBI （http：//www.ncbi.nhn,nih.gov/genbank/） to screen SSRs in complete transcriptome sequence of H. brasiliensis RRIM 600 （accession number：JT914190-JT981478）. Micros Aiellile（MISA） software was used to identify and analyze the SSRs with 1-10 base repeat and bases above 12 bp. A total of 91 846 SSRs were found in H. brasiliensis RRIM 600, distributing in 42 859 unigenes, which accounted for 63.71% of the total number of unigenes. The average length and distribution distance of the transcriptomic SSRs were about 9 bp and 1/0.92 kb, respectively. In the 91 846 SSRs, the hexamers were the main types with the SSR numbers of 52 615, accounting for 57.29% of all the SSRs. The potential of the transcriptomic SSRs for further usage was assessed.