转座子来源的植物长链非编码RNA

doi:10.11983/CBB20098

植物学报 ›› 2020, Vol. 55 ›› Issue (6): 768-776.DOI: 10.11983/CBB20098

转座子来源的植物长链非编码RNA

王益军¹^,²^,^*(), 王亚丽¹^,², 陈煜东¹^,²

¹扬州大学农学院, 江苏省作物遗传生理重点实验室/植物功能基因组学教育部重点实验室/江苏省作物基因组学和分子育种重点实验室, 扬州 225009
²扬州大学, 江苏省粮食作物现代产业技术协同创新中心, 扬州 225009

收稿日期:2020-05-26 接受日期:2020-09-03 出版日期:2020-11-01 发布日期:2020-11-11
通讯作者: 王益军
作者简介:*E-mail: wyj@yzu.edu.cn
基金资助:
国家自然科学基金(31571671);扬州大学高端人才支持计划(18HTYZU12);扬州大学青蓝工程(QLYZU201809);扬州大学科技创新培育基金(2019CXJ097);江苏高校优势学科建设工程(PAPD)

Transposon-derived Long Noncoding RNA in Plants

Yijun Wang¹^,²^,^*(), Yali Wang¹^,², Yudong Chen¹^,²

¹Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/Key Laboratory of Plant Functional Genomics of the Ministry of Education/Jiangsu Key Laboratory of Crop Genetics and Physiology, College of Agriculture, Yangzhou University, Yangzhou 225009, China
²Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou 225009, China

Received:2020-05-26 Accepted:2020-09-03 Online:2020-11-01 Published:2020-11-11
Contact: Yijun Wang

摘要/Abstract

摘要：

转座子是基因组的重要组分, 影响基因组的结构与稳定。长链非编码RNA (lncRNA)在转录及转录后水平调控多个生物学过程。转座子与lncRNA是物种进化的重要驱动力。含有转座子序列的lncRNA在自然界广泛存在。该文对植物lncRNA的发掘策略和功能研究进行概述, 围绕植物转座子来源lncRNA (TE-lncRNA)的分布和功能展开综述, 并对植物TE-lncRNA的调控机制、表观修饰及育种潜势等进行探讨与展望。

关键词: 转座子, 长链非编码RNA, 转座子来源的长链非编码RNA, 植物

Abstract:

Transposable element (TE), core component of the genome, influences genome structure and stability. Long noncoding RNA (lncRNA) modulates diverse biological events at transcriptional and post-transcriptional levels. TE and lncRNA are major driving forces of evolution. Emerging evidence has revealed the wide distribution of lncRNA that harbors TE. In this review, we first briefly introduce the methodologies of identification and functional analysis of plant lncRNA. We focus on the distribution and function of transposable element-derived lncRNA (TE-lncRNA). Finally, we discuss the regulatory mechanism, epigenetic modification, and breeding potential of TE-lncRNA in plants.

Key words: transposable element, long noncoding RNA, transposon-derived lncRNA, plant

王益军, 王亚丽, 陈煜东. 转座子来源的植物长链非编码RNA. 植物学报, 2020, 55(6): 768-776.

Yijun Wang, Yali Wang, Yudong Chen. Transposon-derived Long Noncoding RNA in Plants. Chinese Bulletin of Botany, 2020, 55(6): 768-776.

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链接本文: https://www.chinbullbotany.com/CN/10.11983/CBB20098

https://www.chinbullbotany.com/CN/Y2020/V55/I6/768

图/表 3

图1 拟南芥和玉米基因组中转座子的分布(数据来源: The Arabidopsis Genome Initiative, 2000; Schnable et al., 2009) (A) 拟南芥基因组中转座子分布(左图)和拟南芥长末端重复序列(LTR)逆转座子占全部转座子的比例(右图); (B) 玉米基因组中转座子分布(左图)和玉米LTR逆转座子占全部转座子的比例(右图)。Class I: 逆转座子; Class II: DNA转座子

Figure 1 Transposon composition in the genomes of Arabidopsis and maize (data source: The Arabidopsis Genome Initiative, 2000; Schnable et al., 2009) (A) Transposon composition in Arabidopsis genome (left) and the proportion of Arabidopsis long terminal repeat (LTR) retrotransposons (right); (B) Transposon composition in maize genome (left) and the proportion of maize LTR retrotransposons (right). Class I: Retrotransposons; Class II: DNA trotransposons

表1 植物长链非编码RNA (lncRNA)功能

Table 1 Function of plant long noncoding RNA (lncRNA)

物种	lncRNA ID	lncRNA调控通路	参考文献
拟南芥	COLDAIR (COLD ASSISTED INTRONIC NONCODING RNA)	成花转变	Heo and Sung, 2011
	COOLAIR (cold induced long antisense intragenic RNA)	成花转变	Swiezewski et al., 2009
	DRIR (DROUGHT INDUCED lncRNA)	干旱和盐胁迫应答	Qin et al., 2017
	ELENA1 (ELF18-INDUCED LONG-NONCODING RNA1)	先天免疫反应	Seo et al., 2017
	MAS (lncRNA from MADS AFFECTING FLOWERING4)	春化响应	Zhao et al., 2018b
	T5120	NO₃^-同化	Liu et al., 2019
	TE-lincRNA11195*	ABA响应	Wang et al., 2017
水稻	ALEX1 (An Leaf Expressed and Xoo-induced lncRNA 1)	白叶枯病抗性	Yu et al., 2020
	Ef-cd (Early flowering-completely dominant)	开花期和产量	Fang et al., 2019
	LAIR (LRK Antisense Intergenic RNA)	产量	Wang et al., 2018a
	TL (TWISTED LEAF)	叶片发育	Liu et al., 2018
玉米	PILNCR1 (Pi-deficiency-induced long non-coding RNA 1)	磷胁迫应答	Du et al., 2018
棉花	XLOC_409583*	苗高	Zhao et al., 2018a
番茄	lncRNA-314*	果实成熟	Wang et al., 2016
	lncRNA16397	晚疫病抗性	Cui et al., 2017
	lncRNA39026	晚疫病抗性	Hou et al., 2020

图2 植物中转座子来源的基因间长链非编码RNA (TE-lincRNA)占全部lincRNA的比例(数据来源: Wang et al., 2017; Golicz et al., 2018)

Figure 2 The proportion of plant transposable element-de- rived long intergenic noncoding RNA (TE-lincRNA) (data source: Wang et al., 2017; Golicz et al., 2018)

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转座子来源的植物长链非编码RNA

Transposon-derived Long Noncoding RNA in Plants

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