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植物研究 ›› 2019, Vol. 39 ›› Issue (1): 148-155.doi: 10.7525/j.issn.1673-5102.2019.01.018

• 研究报告 • 上一篇    下一篇

基于高通量测序的怒江红山茶微卫星位点特征分析

王大玮1,2, 周凡1,2, 沈兵琪1,2, 王连春1,2   

  1. 1. 西南林业大学云南省高校林木遗传改良与繁育重点实验室, 昆明 650224;
    2. 西南山地森林保育与利用省部共建教育部重点实验室, 昆明 650224
  • 收稿日期:2018-08-31 出版日期:2019-01-15 发布日期:2019-01-31
  • 通讯作者: 王连春 E-mail:kaixianlc@126.com
  • 作者简介:王大玮(1980-),男,博士,讲师,主要从事林木遗传育种研究。
  • 基金资助:
    云南省高校林木遗传改良与繁育重点实验室开放基金(2017011)

Characteristics of Microsatellite in Camellia saluenensis by High-throughput Sequencing

WANG Da-Wei1,2, ZHOU Fan1,2, SHEN Bing-Qi1,2, WANG Lian-Chun1,2   

  1. 1. Key Laboratory for Forest Genetic and Tree Improvement & Propagation in Universities of Yunnan Province, Southwest Forestry University, Kunming 650224;
    2. Key Laboratory for Forest Resource Conservation and Utilization in the Southwest Mountains of China, Southwest Forestry University, Kunming 650224
  • Received:2018-08-31 Online:2019-01-15 Published:2019-01-31
  • Supported by:
    Open fund of Key Laboratory for Forest Genetic and Tree Improvement & Propagation in Universities of Yunnan Province(2017011)

摘要: 以怒江红山茶叶片为材料,采用Illumina Hiseq 2000平台测序,共获得140 996条无冗余的序列,进行SSR位点搜索后,得到32 696个SSR位点,出现频率为23.2%。所搜索的SSR以二核苷酸重复类型最多,三核苷酸和单核苷酸次之,四、五、六核苷酸重复类型较少(<1%)。单核苷酸重复类型中以A/T基元较丰富(10.92%);二核苷酸中AG/CT基元出现频率最大,达到49.72%,AT/AT基元和AC/GT基元所占比例相差不多,而CG/CG基元所占比例最少,为0.07%;三核苷酸重复类型中AAG/CTT最多,ACC/GGT、ATC/ATG和AGG/CCT基元次之,CCG/GGC、ACT/AGT和ACG/CGT基元较低,都小于1%;四、五、六核苷酸类型中各重复基元均较少。在怒江红山茶转录组中,微卫星的数量随着对应的重复类型、重复次数的增加而降低,也随重复区段碱基长度的增加而降低。

关键词: 怒江红山茶, 转录组, 微卫星, 高通量测序

Abstract: Leaves sample of Camellia saluenensis Stapf ex Bean was sequenced with high-throughput sequencing technology(Illumina Hiseq 2000). In total 140 996 transcripts of C.saluenensis were screened using MISA software. The 32 696 SSRs were identified, and the frequency of SSR was 23.2% and mean distribution density was dinucleotide 32.02 kB. The di-nucleotide repeats were the highest, followed by tri-nucleotide and mono-nucleotide repeat types. The tetra-nucleotide, penta-nucleotide and hexa-nucleotide were all less than 1%. Among the mononucleotide repeats, the A/T repeats motifs were the highest frequency(10.92%). AG/CT was the most frequent repeat motifs in di-nucleotide repeats(49.72%), followed by AT/AT and AC/GT. CG/CG were minimum. AAG/CTT repeats motifs was the highest in tri-nucleotide followed by ACC/GGT, ATC/ATG and AGG/CCT, while CCG/GGC, ACT/AGT and ACG/CGT were lowest(<1%). The repeat motifs were very few in tetra-nucleotide, petra-nucleotide and hexa-nucleotide and had no obvious differences. The microsatellite number in C.saluenensis decreased with the increased number of repeats and length of repeats.

Key words: Camellia saluenensis Stapf ex Bean, Transcriptome, microsatellite, high-throughput sequencing

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