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      2. 大芻草苗期轉錄組RNA-Seq數據的de novo拼接
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        國家“863”計劃項目(2012AA10307)


        De novo assembly of teosinte seedling transcriptome defined by RNA-Seq
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          摘要:

          采用solexa測序技術,對大芻草苗期全株各組織轉錄組進行了RNA-Seq測序、de novo拼接和信息比對研究。結果表明:轉錄組測序共得到了46.4 GB的原始數據,歸并整理后獲得長76 bp的序列有175 101 250條,經質量控制和de novo拼接后,共獲得了58 147條大芻草轉錄本,其平均長度為1 335 bp。比對分析發現其中94.3%的轉錄本和玉米B73自交系的cDNA序列有較好的匹配,與水稻匹配的有84.1%,高粱84.6%,短柄草83.9%,共56 036條轉錄本。

          Abstract:

          Teosinte is the ancestor of maize,and plays an important role in maize domestication process and gene cloning.Solexa RNA-Seq was used to de novo assembly and analyze the transcriptome of teosintes.40.6 GB raw data were produced,including 175 101 250 reads of 76 bp length.After quality control and de novo assembly,58 147 teosinte transcripts with an average length of 1 335 bp were obtained.After bioinformatically comparing,it was found that 94.3% of teosinte transcripts had good matching with B73 cDNAs,and that 84.1% of the transcript had good matching with rice,84.6% with sorghum and 83.9% with brachypodium at protein level.This research will provide a reference for subsequent studies on maize evolution and gene discovery.

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        肖之夏,鄭用璉.大芻草苗期轉錄組RNA-Seq數據的de novo拼接[J].華中農業大學學報,2014,33(2):15-21

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        • 收稿日期:2013-06-13
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