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草业学报 ›› 2021, Vol. 30 ›› Issue (2): 143-155.DOI: 10.11686/cyxb2020326

• 研究论文 • 上一篇    下一篇

巨菌草幼叶及根转录组功能基因测序及分析

周晶1(), 陈思齐2, 史文娇2, 阳伏林2, 林辉1, 林占熺1   

  1. 1.福建农林大学国家菌草工程技术研究中心,福建 福州 350002
    2.福建农林大学动物科学学院,蜂学学院,福建 福州 350002
  • 收稿日期:2020-07-13 修回日期:2020-10-10 出版日期:2021-02-20 发布日期:2021-01-19
  • 通讯作者: 周晶
  • 作者简介:E-mail: zhoujing_lz@hotmail.com
    周晶(1983-),女,甘肃兰州人,助理研究员,博士。E-mail: zhoujing_lz@hotmail.com
  • 基金资助:
    福建省自然科学基金项目(2019J05053);福建省教育厅项目(JT180120);国家自然科学基金项目(41775105)

Transcriptome analyses of functional genes in young leaves and roots of Giant Juncao

Jing ZHOU1(), Si-qi CHEN2, Wen-jiao SHI2, Fu-lin YANG2, Hui LIN1, Zhan-xi LIN1   

  1. 1.National Engineering Research Center of Juncao,Fujian Agriculture and Forestry University,Fuzhou 350002,China
    2.College of Animal Sciences,College of Bee Science,Fujian Agriculture and Forestry University,Fuzhou 350002,China
  • Received:2020-07-13 Revised:2020-10-10 Online:2021-02-20 Published:2021-01-19
  • Contact: Jing ZHOU

摘要:

巨菌草生物量巨大,根系发达,是一种理想的水土保持、防风固沙禾本科C4植物。为了探讨巨菌草转录组信息,对其幼叶、根样本进行Illumina高通量测序和差异表达基因分析。经组装拼接共获得210806个转录本(transcripts)和150336条单基因簇(unigene),平均长度分别为760和642 bp。将获得的unigene与通用公共数据库进行比对,共有88765条unigene获得了基因注释。通过将巨菌草幼叶与根进行比较,共鉴定到5735个差异表达基因(DEGs),其中上调3435个,下调2300个。对DEGs做GO功能分析,上调DEGs主要集中在电子传递,碳水化合物代谢,金属离子结合等过程,下调DEGs则与代谢过程,催化活性,小分子代谢过程等相关。KEGG pathway富集分析共得到120条代谢通路,其中参与光合生物的固碳作用通路DEGs富集程度最高;参与次生代谢物的生物合成通路的DEGs数目最多。对DEGs转录因子分析显示,bHLH和WRKY是调控叶、根差异表达的主要转录因子。研究结果极大地丰富了巨菌草转录组信息,为今后巨菌草分子生物学研究提供了宝贵的数据资源,同时为巨菌草品种改良提供了理论依据。

关键词: 巨菌草, 转录组, 差异表达基因, 转录因子

Abstract:

Giant Juncao (Pennisetum giganteumis a Poaceous C4 plant that grows to more than 3 m in height, with high biomass and a well-developed fibrous root system making it ideal for use in waterway, soil and sand stabilization, and as a wind shelter. In order to investigate transcriptome information of Giant Juncao grass, high-throughput Illumina sequencing was conducted on tissues of young leaves and roots, gene expression profiles of leaves and roots were compared, and differentially expressed genes (DEGs) were identified. A total of 210806 transcripts and 150336 unigenes were de novo assembled with an average length of 760 bp and 642 bp, respectively. A total of 88765 unigenes were annotated from at least one of the following databases: Nr, Nt, Swiss-Prot, KOG, GO, KEGG and Pfam. Comparing the young leaf and root tissues, 5735 DEGs were detected, of which 3435 were upregulated and 2300 were downregulated unigenes. GO function analysis showed that upregulated DEGs were mainly involved in electron transport, carbohydrate metabolism, and metal ion binding, while downregulated DEGs included those related to metabolic processes, catalytic activity, and small molecule metabolic processes, among others. KEGG pathway enrichment analysis identified a total of 120 metabolic pathways, among which the DEGs involved in carbon fixation of photosynthetic organisms showed the highest level of enrichment and DEGs involved in biosynthesis of secondary metabolites were the most abundant. Two DEG transcription factors, bHLH and WRKY, were identified as the main regulators of differential gene expression in leaves and roots. This study has greatly enhanced the transcriptomic information available for Giant Juncao, provided a valuable data resource for future molecular biology research, and established a theoretical foundation for improvement of Giant Juncao varieties.

Key words: Giant Juncao, transcriptome, differential expression genes, transcript factors