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| 沟眶象转录组微卫星特征分析 |
| Characteristic analysis of microsatellite in Eucryptorrhynchus chinensistranscriptome |
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| DOI： |
| 中文关键词: 沟眶象 微卫星 转录组 重复类型 重复基元 |
| 英文关键词:Eucryptorrhynchus chinensis microsatellite transcriptome repeat type repeat motif |
| 基金项目:林业公益性行业科研专项（201304412;201204501） |
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| 中文摘要: |
| 本研究基于高通量测序获得的沟眶象 Eucryptorrhynchus chinensis（Olivier）转录组数据，采用MISA（Micro Satellite）软件对其简单序列重复（simple sequence repeat, SSR）位点进行了高通量发掘。对筛选得到的1 kb以上的Unigene（17590条，占Unigene总数的26.98%）进行了SSR分析，结果发现含SSR的序列有1665条，共发现1823个SSR，平均32.52 kb出现一个SSR。沟眶象微卫星主要以三碱基重复类型为主（637，34.94%），其次为单碱基重复（576，31.60%）。共发现104种碱基重复基元，所占比例最高的为（A/T）n（30.39%），其次为（AT/AT）n（6.91%）。沟眶象SSR的平均长度为15.74 bp，长度大于20 bp的SSR仅占总数的12.70%。研究还发现沟眶象微卫星出现的频率和其长度呈极显著负相关(P<0.01），相关系数为-0.572。研究结果为开发高多态性微卫星引物来进行沟眶象功能基因组学、种群遗传结构、种群遗传多样性等研究奠定了基础。 |
| 英文摘要: |
| According to the constructed transcriptome database of Eucryptorrhynchus chinensis, the microsatellites have been explored at a high-throughput scale by using Micro Satellite identification tool. The microsatellites in the unigenes (the length ≥1 kb) (17590, 26.89%) were analyzed and a total of 1823 SSR were identified in 1665 unigenes, with one SSR per 32.52 kb. Tri-nucleotide repeats were the most abundant (637, 34.94%), followed by mono nucleotide repeats (576, 31.60%). Among all the 104 SSR motifs, (A/T) n was the most frequent repeat motif (30.39%), followed by (AT/AT) n (6.91%). The average length of microsatellites was 15.74 bp, the microsatellites over 20 bp were only 12.70%.There was significant negative correlation (P<0.01) between the frequency and the length of microsatellites in E. chinensis transcriptome and the correlation coefficient was -0.572. These results lay a foundation for developing high polymorphic microsatellites to research the functional genomics, population genetic structure and genetic diversity of E. chinensis. |
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