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滇东南濒危植物长梗杜鹃转录组微卫星特征分析
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Journal Article
滇东南濒危植物长梗杜鹃转录组微卫星特征分析
2017
Overview
[目的] 全面了解滇东南特有濒危植物长梗杜鹃转录组SSR位点的分布及序列特征，为长梗杜鹃的保护和合理开发利用提供遗传学资料，为同属植物及近缘种SSR标记的开发及遗传研究提供便利。[方法] 利用Illumina Hiseq 4000高通量测序平台对长梗杜鹃叶片进行转录组测序，再通过MISA软件对测序所得Unigenes进行SSR位点的发掘和分析。[结果] 发现含SSR的序列17 354条，共得到23 192个SSR，出现频率为31.30%，平均每3 kb出现1个SSR。二碱基和三碱基重复为长梗杜鹃SSR主要重复单元类型，分别占SSR总数的69.25%和15.07%，187种重复基元中，所占比例最高的是（AG/CT）n（62.01%），其次是（A/T）n（12.34%）、（AC/GT）n（4.52%）和（AAG/CTT）n（4.23%）。在SSR和CDS的交集基因中，共发现15 908个SSR位点，其中2 792个位于编码区，出现频率为0.076 SSR/kb，而非编码区为0.344 SSR/kb，在基因编码区中出现频率最高的是三碱基重复（1 356， 48.57%）。在不同长度重复单元中，二碱基重复SSR长度变异程度最高，其次是单碱基重复。长梗杜鹃SSR的频率和长度呈显著负相关（P〈0.01），相关系数为-0.566。[结论] 长梗杜鹃转录组SSR位点的出现频率高、分布密度大、基元类型丰富、重复次数较高、长片段较多，具有较高的多态性潜能，用于遗传分析的潜力很大，能满足该物种的保护遗传学研究。
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