独行菜种子转录组的高通量测序及分析

doi:10.13523/j.cb.20160106

中国生物工程杂志

2016, Vol. 36

Issue (1): 38-46 DOI: 10.13523/j.cb.20160106

研究报告

独行菜种子转录组的高通量测序及分析

周茜¹, 赵惠新¹, 李萍萍¹, 曾卫军¹, 李艳红¹, 葛风伟¹, 赵君洁¹, 赵和平²

1. 新疆特殊环境物种多样性应用与调控重点实验室新疆师范大学生命科学学院乌鲁木齐 830054;
2. 北京师范大学生命科学学院抗性基因资源与分子发育北京市重点实验室北京 100875

De novo Characterization of the Seed Transcriptome of Lepidium apetalum Willd

ZHOU Qian¹, ZHAO Hui-xin¹, LI Ping-ping¹, ZENG Wei-jun¹, LI Yan-hong¹, GE Feng-wei¹, ZHAO Jun-jie¹, ZHAO He-ping²

1. Xinjiang Key Laboratory of Special Species Diversity Application and Regulatory, College of Life Science, Xinjiang Normal University, Urumqi 830054, China;
2. Beijing Key Laboratory of Gene Resource and Molecular Development, College of Life Science, Beijing Normal University, Beijing 100875, China

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摘要：

独行菜种子为我国传统常用中药,从中已提取出多种药用活性成分,但目前尚不清楚其次级代谢过程中这些活性物质合成的遗传基础。采用Illumina Hiseq^TM 2000高通量测序平台对独行菜种子转录组进行测序,经de novo组装后获得40 303条unigene。进一步利用六大公共数据库进行同源比对,注释了27 935条unigene。研究发现,534个基因参与了独行菜次生物质的合成和代谢,其中在芥子苷、黄酮类和芪类化合物生物合成途径中的unigene分别有4个、19个和69个,在苯丙氨酸代谢途径中的unigene有92个。这些基因可能参与独行菜种子药性活性物质的生物合成,并分析获得了参与上述合成代谢途径的13个关键基因的同源序列。另外,从转录组序列中搜索到6 304个SSR位点,分布于5 306条unigene中,出现频率为15.64%。研究结果不仅为挖掘独行菜种子药用次生代谢物生物合成关键基因提供了基础数据信息,而且为独行菜遗传多样性研究和分子标记开发奠定了分子基础。

关键词： 转录组; SSR; 独行菜; 次生代谢

Abstract:

Lepidium apetalum Willd is an important traditional Chinese medicine. Various active components have been extracted from the Lepidium apetalum. However, the genetic basis for their activity is virtually unknown. The transcriptome of Lepidium apetalum was sequenced using the Illumina HiSeq^TM 2000 sequencing platform. The clean reads were then de novo assembled into 40 303 unigenes. 27 935 unigene were annotated by a similarity search against SiX public databases. The results showed that 534 genes were assigned to second metabolic pathway. Among them, 4 unigenes were mapped to the glucosinolate, 19 to flavonoids, stilbenoid, diarylheptanoid, 69 to gingerol shikimate biosynthesis pathways, and 92 unigenes were respectively mapped to the phenylalanine metabolism pathways, suggesting that they are involved in these pathways of pharmaceutically important. Thirteen homologous fragments of key genes identified were referred to these pathways. In addition, a total of 6 304 SSRs were identified from the sequence of transcription, distributed in 5 306 unigenes(15.64%). This work not only provides many valuable basal data for gene cloning and molecular biology research, but also lays the foundation for genetic diversity analysis and development of molecular marker in Lepidium apetalum.

Key words: Second metabolism Transcriptome Lepidium apetalum Willd Simple sequence repeat

收稿日期: 2015-09-08 出版日期: 2016-01-11

ZTFLH:

Q785

基金资助:

新疆维吾尔自治区重点实验室项目(XJSD2015-01),国家自然科学基金(31460041),抗性基因资源与分子发育北京市重点实验室开放课题(2015GD03)资助项目

通讯作者: 赵惠新,赵和平 E-mail: zhaohuixin101@sina.com;hpzhao@bnu.edu.cn

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引用本文:

周茜, 赵惠新, 李萍萍, 曾卫军, 李艳红, 葛风伟, 赵君洁, 赵和平. 独行菜种子转录组的高通量测序及分析[J]. 中国生物工程杂志, 2016, 36(1): 38-46.

ZHOU Qian, ZHAO Hui-xin, LI Ping-ping, ZENG Wei-jun, LI Yan-hong, GE Feng-wei, ZHAO Jun-jie, ZHAO He-ping. De novo Characterization of the Seed Transcriptome of Lepidium apetalum Willd. China Biotechnology, 2016, 36(1): 38-46.

链接本文:

https://manu60.magtech.com.cn/biotech/CN/10.13523/j.cb.20160106 或 https://manu60.magtech.com.cn/biotech/CN/Y2016/V36/I1/38

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