辣木转录组SSR位点信息分析

SSR Loci in Transcriptome of Moringa oleifera Lam

采用MISA对15 824条长度大于1kb的辣木Unigene进行SSR位点分布频率和基本特征的分析,共检测到8 272个SSR位点,分布于6 003条Unigene,SSR位点出现频率为52.28%,共包含114种重复单元。辣木转录组的SSR以单核苷酸重复为主,占总SSR的55.69%。其次是二、三核苷酸重复,分别占总SSR的32.34%和11.24%。A/T、AG/CT和AAG/CTT是单核苷酸、二核苷酸和三核苷酸中的优势重复基元。辣木转录组SSR以10~20次重复为主,基序长度主要集中于12~19bp。结果表明辣木转录组中含有大量SSR,且类型丰富,可为辣木SSR引物开发提供候选序列。

MISA software was employed to analyze the distribution and basic characteristics of SSR loci of 15 824 unigenes,which were longer than 1 kb,from the transcriptome of Moringa oleifera Lam leaves at different development stages.A total of 8 272 SSR loci consisting of 114 motifs were detected in 6 003 unigenes,i.e.,a frequency of 52.28%.The most abundant repeating motif was a single nucleotide（55.69%）,which was followed by dinucleotide（32.34%）and trinucleotide（11.24%）;and,their SSRs were A/T,AG/CT and AAG/CTT,respectively.The most commonly found SSRs had 10-20 tandem repeats（30.35%）with their motif lengths ranging from 12 bp to 19 bp.It appeared that there were numerous SSRs in the transcriptomes with high distribution frequencies and many varieties.The results obtained from this study provided valuable information for developing SSR markers.