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作物学报 ›› 2014, Vol. 40 ›› Issue (01): 80-85.doi: 10.3724/SP.J.1006.2014.00080

• 作物遗传育种·种质资源·分子遗传学 • 上一篇    下一篇

茶树花转录组微卫星分布特征

王丽鸳,韦康,张成才,成浩*   

  1. 中国农业科学院茶叶研究所 / 国家茶树改良中心,浙江杭州 310008
  • 收稿日期:2013-05-21 修回日期:2013-07-25 出版日期:2014-01-12 网络出版日期:2013-09-29
  • 通讯作者: 成浩, E-mail: chenghao@mail.tricaas.com
  • 基金资助:

    本研究由国家现代农业产业技术体系建设专项(nycytx-23), 浙江省自然科学基金(LY13C160004)和浙江省茶产业技术创新战略联盟项目资助。

Characterization of Micorsatellites in Tea (Camellia sinensis) Floral Transcriptome

WANG Li-Yuan,WEI Kang,ZHANG Cheng-Cai,CHENG Hao*   

  1. Tea Research Institute, Chinese Academy of Agricultural Sciences / National Center for Tea Improvement, Hangzhou 310008, China
  • Received:2013-05-21 Revised:2013-07-25 Published:2014-01-12 Published online:2013-09-29
  • Contact: 成浩, E-mail: chenghao@mail.tricaas.com

摘要:

利用Perl语言,对茶树花转录组序列进行大通量SSR位点的发掘,发现含SSRs的序列10 290条, 共12 582个SSRs,平均2.41 kb出现一个SSR。在茶树花的转录组中共发现340种碱基重复模式,所占比例最高的是(AG/CT)n (44.99%)。在49 586条注释成功的茶树花Unigene中,共发现10 490个SSR位点,其中位于编码区的1917个,其出现频率仅为0.102 SSR/1000 bp,而非编码区为3.072 SSR/1000 bp。在基因编码区中出现频率最高的是三碱基微卫星(1140 59.5%),其次是六碱基微卫星(524, 27.3%)。茶树花转录组所含微卫星以重复长度小于20 bp的序列最多,大于20 bp的仅为25.22%。茶树花转录组中,含微卫星基因的平均表达水平显著低于不含微卫星基因,其中含复杂微卫星基因的平均基因表达水平最低。

关键词: 茶树, 微卫星, 花, 转录组

Abstract:

The microsatellites or simple sequence repeats (SSRs) in Camellia sinensis floral transcriptome were characterized. A total of 12 582 SSRs were identified in 10 290 unigenes, with one SSR per 2.41 kb. Among all 340 SSR motifs,(AG/CT)n was the most frequent repeat motif (44.99%). A total of 10 409 SSRs occurred in 49586 unigenes with Blast matches to annotated proteins in four databases, only 1 917 of which occurred in protein-coding regions of these sequences. The density of SSRs was much higher in non-coding regions than in coding regions (0.102 SSRs per 1000 base pairs in coding regions vs. 3.072 in non-coding regions). In the six repeat motifs, tri-nucleotide repeats were the most abundant in coding regions (1140), followed by hexa-nucleotide (524) repeats. The microsatellites with length below 20 bp were in maximum proportion, while the microsatellites over 20 bp were only 25.22%. The expression level of genes containing microsatellites was significantly lower than that not containing microsatellites. The overall expression levels of genes containing compound microsatellites were lowest.

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