基于高通量测序的怒江红山茶微卫星位点特征分析

doi:10.7525/j.issn.1673-5102.2019.01.018

摘要/Abstract

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

中图分类号:

S685.14

王大玮, 周凡, 沈兵琪, 王连春. 基于高通量测序的怒江红山茶微卫星位点特征分析[J]. 植物研究, 2019, 39(1): 148-155.

WANG Da-Wei, ZHOU Fan, SHEN Bing-Qi, WANG Lian-Chun. Characteristics of Microsatellite in Camellia saluenensis by High-throughput Sequencing[J]. Bulletin of Botanical Research, 2019, 39(1): 148-155.

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