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基于转录组数据高通量发掘灰茶尺蠖微卫星标记

High-throughput Unveiling ofMicrosatellite Markers Using Ectropisgrisescens Transcriptome

  • 摘要: 灰茶尺蠖Ectropis grisescens是一种重要的茶树害虫,在我国主要产茶区均有分布。为高通量发掘该虫的SSR标记,利用MISA软件对灰茶尺蠖转录组中66468条unigenes进行SSR检测。结果显示,共找到18339个SSR位点,出现频率为27.59%。这些SSR位点分布在13465条unigenes中,分布频率为20.26%。单核苷酸是主要重复类型,占SSR总数的68.14%。灰茶尺蠖转录组SSR中共发现84种重复基元,其中单核苷酸重复基元A/T出现频率最高,占总量的65.47%。10次重复的SSR数量最多有6822个,占总SSR的37.20%;其次是11次重复的为2526个,占13.77%。本研究表明灰茶尺蠖转录组中SSR位点数量大、出现频率高、基元类型极丰富,这些信息将为今后更好地利用SSR标记研究灰茶尺蠖种群遗传多样性、种群起源演化和害虫综合治理等提供参考。

     

    Abstract: The tea Geometrid moth Ectropis grisescens is themost devastating insect pest of tea plants, which widely distributed in all tea-growingareas in China. For high-throughput excavation single sequence repeat (SSR)markers from E. grisescens, thesoftware MISA was employed to filter 66468 unigenes obtained from thetranscriptome of E. grisescens forSSR. The results showed that 18339 SSR loci were identified, and the frequencyof occurrences for SSRs was 27.59%. These SSR loci were distributed in 13465unigenes with a distribution frequency of 20.26%. Most repeat type was mononucleotide motifs,accounting for 68.14% of all SSRs. There were 84 kinds ofrepeat motifs in the E. grisescens transcriptome, in which A/Twas the dominant type of mononucleotide repeat motifs, accounting for 65.47% of all SSRs. The number of tenrepeat SSRs was the most, which were 6822(37.20%), followed by 11 repeats2526 (13.77%). Our study indicated that there were a large number ofSSRs in transcriptome of E. grisescens with high frequency andabundant motif types. All of this information would lay a foundation for thefurther study of population genetic diversity, population origin and evolution,and integrated pest management of E. grisescens.

     

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