高等植物启动子元件鉴定与合成研究进展

doi:10.11983/CBB23171

植物学报 ›› 2024, Vol. 59 ›› Issue (5): 691-708.DOI: 10.11983/CBB23171 cstr: 32102.14.CBB23171

• 特邀综述 • 下一篇

高等植物启动子元件鉴定与合成研究进展

宋想^†, 王璐瑶^†, 富博晓, 李双达, 魏媛媛, 洪艳^*(), 戴思兰^*()

北京林业大学园林学院, 林木花卉遗传育种教育部重点实验室, 城乡生态环境北京实验室, 花卉种质创新与分子育种北京市重点实验室, 国家花卉工程技术研究中心, 北京 100083

收稿日期:2023-12-22 接受日期:2024-03-18 出版日期:2024-09-10 发布日期:2024-08-19
通讯作者: 洪艳,戴思兰
作者简介:第一联系人：† 共同第一作者
基金资助:
北京市自然科学基金(6222043);国家自然科学基金(32271946);北京林业大学“5·5工程”科研创新团队项目(BLRC2023A06)

Advances in Identification and Synthesis of Promoter Elements in Higher Plants

Xiang Song^†, Luyao Wang^†, Boxiao Fu, Shuangda Li, Yuanyuan Wei, Yan Hong^*(), Silan Dai^*()

Beijing Key Laboratory of Ornamental Plants Germplasm Innovation and Molecular Breeding, National Engineering Research Center for Floriculture, Beijing Laboratory of Urban and Rural Ecological Environment, Key Laboratory of Genetics and Breeding in Forest Tree and Ornamental Plants of Ministry of Education, School of Landscape and Architecture, Beijing Forestry University, Beijing 100083, China

Received:2023-12-22 Accepted:2024-03-18 Online:2024-09-10 Published:2024-08-19
Contact: Yan Hong, Silan Dai
About author:First author contact:† These authors contributed equally to this paper

摘要/Abstract

摘要： 启动子是高等植物中驱动基因表达不可或缺的重要调控序列。启动子元件的不同功能是导致基因表达效率和时空特异性差异的根本原因, 鉴定其结构和功能对理解植物生长发育进程、环境胁迫反应和进化发育均具有重要意义。随着高通量测序技术、人工智能和合成生物学的发展, 鉴定植物顺式作用元件组, 将符合设计需求的元件构建成人工调控元件的技术已逐渐兴起, 这些技术为分子育种中高效、精准和多样的基因调控奠定了基础。该文以启动子元件在分子设计中的重构应用为导向, 介绍了高等植物启动子的详细结构和功能, 及顺式作用元件的鉴定方法, 系统梳理了27类共计174个已鉴定到的诱导型和组织特异性元件及其应用。据此, 提出其设计方向和方法, 旨在为高等植物基因工程启动子元件的研究现状、发掘方法和重新设计提供指导, 提升分子设计育种中目的基因的表达效率和准确性。

关键词: 启动子, 顺式作用元件, 诱导型, 组织特异性, 人工合成启动子

Abstract: Promoter is an indispensable regulatory sequence for driving gene expression in higher plants. Different promoter elements cause diverse driving efficiency and space-time specificity. Identifying the structures and functions of promoter elements contributes to a better understanding of the growth and development, multi-stress tolerance, and evolution of plants. With the development of high-throughput sequencing technologies, artificial intelligence and synthetic biology, the techniques for identifying cis-acting elements and constructing artificial biological components that meet the design requirements has gradually emerged, providing a foundation for efficient, precise, and diverse gene regulation in molecular breeding. This article targets on the application of promoter reconstruction in molecular design, introducing the detailed structure and function of higher plant promoters and the methods of cis-acting element identification. We summarized a total of 174 inducible, tissue-specific promoter elements in 27 categories and their applications on artificial modification and synthesis. At the end, we proposed the future directions and methods of the promoter designs. This review will be helpful for the further functional analyses of promoters in higher plants and their applications on molecular design breeding.

Key words: promoter, cis-acting elements, inducible, tissue-specificity, artificial synthetic promote

中图分类号:

A180.37 分子生物学

宋想, 王璐瑶, 富博晓, 李双达, 魏媛媛, 洪艳, 戴思兰. 高等植物启动子元件鉴定与合成研究进展. 植物学报, 2024, 59(5): 691-708.

Xiang Song, Luyao Wang, Boxiao Fu, Shuangda Li, Yuanyuan Wei, Yan Hong, Silan Dai. Advances in Identification and Synthesis of Promoter Elements in Higher Plants. Chinese Bulletin of Botany, 2024, 59(5): 691-708.

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链接本文: https://www.chinbullbotany.com/CN/10.11983/CBB23171

https://www.chinbullbotany.com/CN/Y2024/V59/I5/691

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元件类型	时空响应因子			元件名称
诱导型	生物因子	病原体		W-box、S-box、D-box、EIRE、GCC-box、H-box、G-box、GST1、PRE2PRE4E-box、SARE、PR-1基序、ERE、NPR-1基序、JERE、E17元件、F元件、FELEMENT1 (大豆根瘤菌)、TDBA12NTCHN50 (TMV)和OSE1ROOTNODULE (根瘤菌)
	生物因子	创伤		20NTNTNOS、W-box、WIN、WRE、WUN-box和as-1-like
	物理因子	光	光质	10PEHVPSBD (蓝光、白光或UV-A光)、ACE (UV-B和UV-1/蓝光)和ELRE1 (UV)
			光强	3AF1-box、AT-1 box、BOX-C、BOX-I、CPRF、CYTO位点、DE1、DRE (高光强胁迫)、G-box、GT2、HY5、I-box、LRE-box、MNF1、PAL-box、PI、PII、PRE、SITE1、SORLIPs、T-box、Z-DNA-forming序列和GT1基序
			光周期	EVENING
		温度	低温	DRE、CARGATCONSENSUS、CBF、CRT、LTRE、TCA-like、CAT-box、HSE
		温度	高温	和GAATTC
		干旱和盐胁迫		ABAD、ABRE、ACGT、DRE、EMBP1、MYB1、MYB2和SRENTTTO1、NACR/HDZFR、MYBR/MYR、MBS、Erd1、TC-rich重复、GT1基序、E-box和STRE
	化学因子	激素	生长素	RE、AuxRE、TGA元件、偶联元件CE1和CE3
			脱落酸	ABRE、ABRC、ABRERATCAL、ABRELATERD1、偶联元件CEs和STRE
			细胞分裂素	CANBNNAPA、MYBGAHV和CARG1
			赤霉素	GARE基序和as-1-like
			茉莉酸	20NTNTNOS、JASE1、JERE、T/G-box、ACG基序和as-1-like
			乙烯	EIN3、EREGCC、ERE、GCCCORE、YREGIONNTPRB1B和Y区
			水杨酸	AS1、LS5、LS7、SARECAMV和TCA1基序
		糖		284MOTIF、314MOTIF、ACGTABOX、TATCCAY基序、BBOXSITE1STPATS-box、CMSRE1和SREATMSD
		氮		EM和GLMHVCHORD
		其它物质		PAS (镉)、IDE1 (缺铁)、IRO (缺铁)和SURECORE (硫)
组织特异性	根			RSE、ROOTMOTIFTAPOX1、RHERPATEXPA7、tef-box、TGA1a、MYCCONSENSUSAT、SORLIP1AT、RAV1AAT、LEAFYATAG、SURECOREATSULTR11、P1BS (根毛)、SP8BFIBSP8AIB (块根)、141NTG13 (根尖)、AUXREPSIAA4 (根尖)、OSE1ROOTNODULE (根瘤感染细胞)、OSE2ROOTNODULE (根瘤感染细胞)、WUSATAg (根尖分生组织)和XYLAT (核心木质部)
	茎			ABF、as-2-box、BBOXSITE1STPAT (块茎)和TSSR (块茎)
	叶			GATFLK、LPSE1、LSE1、GRA、RAV1 (莲座叶)和TCCAAAA基序(抑制基因在叶片表达)
	绿色组织			GEAT、GSE1和GSE2
	其它组织			ACIIIPVPAL2 (维管束)、BS1 (维管束)、DOF结合位点(保卫细胞)和LPRSE1 (抑制基因在茎和种子中表达)
	花			AGAMOUSAT、AGL1、CArG-box、TACPyAT和CHS启动子核心片段(PCHS、LCHS) GATA-box、CACT-box、CACG-box、MYBPLANT (花茎)和MYB26PS (花蕾)
	花粉			PS区、POLLEN1LELAT52、POLLEN1、5256-box、定量元件、GTGANTG10、VOZ 结合序列、GTGA-box、telo-box、A9和TA29启动子片段(绒毡层)及anther box (花药)
	果实			TAAAG基序、E-box、SEF结合位点、AGTTAGG、TGTCACA和SlHDC-A核心启动子区
	种子			Skn-1、RY基序、O2位点、E-box、AACACORE、ABAD、AMYBOX1、CAREOSREP1、EM、ESP、GLMHVCHORD、Sph元件、TGACGT基序、A27zn、Glb1、GCN4基序、CANBNNAPA和CATGTAA (大麦糊粉层)

元件类型	时空响应因子			元件名称
诱导型	生物因子	病原体		W-box、S-box、D-box、EIRE、GCC-box、H-box、G-box、GST1、PRE2PRE4E-box、SARE、PR-1基序、ERE、NPR-1基序、JERE、E17元件、F元件、FELEMENT1 (大豆根瘤菌)、TDBA12NTCHN50 (TMV)和OSE1ROOTNODULE (根瘤菌)
	生物因子	创伤		20NTNTNOS、W-box、WIN、WRE、WUN-box和as-1-like
	物理因子	光	光质	10PEHVPSBD (蓝光、白光或UV-A光)、ACE (UV-B和UV-1/蓝光)和ELRE1 (UV)
			光强	3AF1-box、AT-1 box、BOX-C、BOX-I、CPRF、CYTO位点、DE1、DRE (高光强胁迫)、G-box、GT2、HY5、I-box、LRE-box、MNF1、PAL-box、PI、PII、PRE、SITE1、SORLIPs、T-box、Z-DNA-forming序列和GT1基序
			光周期	EVENING
		温度	低温	DRE、CARGATCONSENSUS、CBF、CRT、LTRE、TCA-like、CAT-box、HSE
		温度	高温	和GAATTC
		干旱和盐胁迫		ABAD、ABRE、ACGT、DRE、EMBP1、MYB1、MYB2和SRENTTTO1、NACR/HDZFR、MYBR/MYR、MBS、Erd1、TC-rich重复、GT1基序、E-box和STRE
	化学因子	激素	生长素	RE、AuxRE、TGA元件、偶联元件CE1和CE3
			脱落酸	ABRE、ABRC、ABRERATCAL、ABRELATERD1、偶联元件CEs和STRE
			细胞分裂素	CANBNNAPA、MYBGAHV和CARG1
			赤霉素	GARE基序和as-1-like
			茉莉酸	20NTNTNOS、JASE1、JERE、T/G-box、ACG基序和as-1-like
			乙烯	EIN3、EREGCC、ERE、GCCCORE、YREGIONNTPRB1B和Y区
			水杨酸	AS1、LS5、LS7、SARECAMV和TCA1基序
		糖		284MOTIF、314MOTIF、ACGTABOX、TATCCAY基序、BBOXSITE1STPATS-box、CMSRE1和SREATMSD
		氮		EM和GLMHVCHORD
		其它物质		PAS (镉)、IDE1 (缺铁)、IRO (缺铁)和SURECORE (硫)
组织特异性	根			RSE、ROOTMOTIFTAPOX1、RHERPATEXPA7、tef-box、TGA1a、MYCCONSENSUSAT、SORLIP1AT、RAV1AAT、LEAFYATAG、SURECOREATSULTR11、P1BS (根毛)、SP8BFIBSP8AIB (块根)、141NTG13 (根尖)、AUXREPSIAA4 (根尖)、OSE1ROOTNODULE (根瘤感染细胞)、OSE2ROOTNODULE (根瘤感染细胞)、WUSATAg (根尖分生组织)和XYLAT (核心木质部)
	茎			ABF、as-2-box、BBOXSITE1STPAT (块茎)和TSSR (块茎)
	叶			GATFLK、LPSE1、LSE1、GRA、RAV1 (莲座叶)和TCCAAAA基序(抑制基因在叶片表达)
	绿色组织			GEAT、GSE1和GSE2
	其它组织			ACIIIPVPAL2 (维管束)、BS1 (维管束)、DOF结合位点(保卫细胞)和LPRSE1 (抑制基因在茎和种子中表达)
	花			AGAMOUSAT、AGL1、CArG-box、TACPyAT和CHS启动子核心片段(PCHS、LCHS) GATA-box、CACT-box、CACG-box、MYBPLANT (花茎)和MYB26PS (花蕾)
	花粉			PS区、POLLEN1LELAT52、POLLEN1、5256-box、定量元件、GTGANTG10、VOZ 结合序列、GTGA-box、telo-box、A9和TA29启动子片段(绒毡层)及anther box (花药)
	果实			TAAAG基序、E-box、SEF结合位点、AGTTAGG、TGTCACA和SlHDC-A核心启动子区
	种子			Skn-1、RY基序、O2位点、E-box、AACACORE、ABAD、AMYBOX1、CAREOSREP1、EM、ESP、GLMHVCHORD、Sph元件、TGACGT基序、A27zn、Glb1、GCN4基序、CANBNNAPA和CATGTAA (大麦糊粉层)

高等植物启动子元件鉴定与合成研究进展

Advances in Identification and Synthesis of Promoter Elements in Higher Plants

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