生物学杂志 ›› 2020, Vol. 37 ›› Issue (3): 40-.doi: 10.3969/j.issn.2095-1736.2020.03.040

• 研究报告 • 上一篇    下一篇

张氏江蓠microRNAs鉴定及其基因家族系统进化

  

  1. 1. 山西体育职业学院, 太原 030006; 2. 山西大学 生命科学学院, 太原 030006
  • 出版日期:2020-06-18 发布日期:2020-06-10
  • 通讯作者: 高帆,博士,高级实验师,研究方向为藻类非编码RNA的功能及应用,E-mail:gaofan@sxu.edu.cn
  • 作者简介:宋韡,硕士,讲师,研究方向为分子生物学与运动适应,E-mail:weioutlook@126.com
  • 基金资助:
    2018年山西省应用基础研究计划面上青年基金项目(201801D221242);2018年山西省高等学校大学生创新创业训练计划项目(2018025);2017年山西省体育局科研课题(17TY106)

Identification of microRNAs in Gracilaria changii and phylogenetic evolution of their gene families

  1. 1. Shanxi Sports Vocational School, Taiyuan 030006;2. School of Life Science, Shanxi University, Taiyuan 030006, China
  • Online:2020-06-18 Published:2020-06-10

摘要: 张氏江蓠是江蓠属的重要代表,具有宝贵的工业生产价值。随着海洋环境的恶化,江蓠资源亟待进一步开发与利用。作为基因转录后表达的重要调控子,microRNA (miRNA) 在植物组织器官发育、生理调节、胁迫应答等方面起着关键的调控作用。然而,迄今仍未有张氏江蓠miRNA(gch-miRNA)信息的报道,极大地阻碍了江蓠属非编码RNA的相关研究。运用生物信息学技术,通过gch-ESTs与miRBase数据库的比对分析,共鉴定到6条gch-miRNAs。序列特征分析结果显示,鉴定的gch-miRNA序列基本可信,并在其它植物间有保守性和多态性特征。颈环引物qRT-RCR的试验验证进一步证实了鉴定结果的可靠性。部分miRNA基因家族的NJ系统进化结果显示:gch-miRNA位于进化树的外类群;miRNA的进化与物种本身的进化并不同步。TargetFinder筛选获得8条gch-miRNA靶标序列,psRNATarget预测其抑制类型均为切割抑制。首次公布了张氏江蓠miRNA及其靶标信息,综合分析了部分miRNA基因家族在不同植物物种间的系统进化关系。研究结果为张氏江蓠非编码RNA研究,高品质藻种分子选育及其资源的开发利用奠定了基础。

关键词:  , MicroRNA(miRNA);张氏江蓠;靶标;系统进化

Abstract: As an important representative of Gracilaria, Gracilaria changii has valuable industrial value. With deterioration of the global marine environment, Gracilaria resources are in urgent need for further development and utilization. As an important regulator of gene post-transcriptional expression, microRNA (miRNA) plays a key role in regulating plant tissues and organs, physiological status, stress response and so on. However, there have been no any reports about G. changii miRNA (gch-miRNA) in the world, which greatly hampers the further study on non-coding RNA and its function. Based on bioinformatics, six gch-miRNAs were predicted by sequences alignment analysis of gch-ESTs and miRNAs in miRBase databases in this study. The sequences and structural features showed that our prediction results were reliable. Moreover, the results of sequences alignment analysis showed that gch-miRNAs had both conservative and polymorphic features among other plants. Furthermore, gch-miRNAs validation showed our identifying results are high confidence by stem-loop qRT-PCR. The phylogenetic results of some miRNA families with NJ algorithm revealed the gch-miRNAs located in the outer group of the phylogenetic tree and the evolutionary rate of miRNAs is not synchronized with their corresponding host species. Eight potential gch-miRNA targets had been screened by TargetFinder software, and cleavage is the main inhibition type of miRNA(target in G. changii thorough psRNATarget analysis). This research firstly reported the miRNAs and their putative targets in G. changii, and comprehensively analyzed the phylogenetic relationship of some miRNAs across different plant species. The researching results lay a foundation for the non-coding RNA research on G. changii, as well as the molecular breeding of high-quality Gracilaria species and the development and utilization of them in future.

Key words: microRNA (miRNA), Gracilaria changii, target, phylogenetic evolution

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