项目编号

PRJCA002620

项目标题

Chromatin Accessibility Dynamics and Hierarchical Structure of Transcriptional Regulatory Network for Plant Somatic Embryogenesis

涉及领域

Model organism

数据类型

Epigenomics
Raw sequence reads
Transcriptome

物种名称

Arabidopsis thaliana

描述信息

Plant somatic embryogenesis refers to a phenomenon where embryos develop from somatic cells in the absence of fertilization. It provides powerful system to produce genetically modified crops as well as to obtain artificial seeds. Previous studies have revealed that somatic embryo formation can be achieved by the treatment of somatic tissue with auxin, ectopic overexpression of a specific transcription factor, or the disruption of certain chromatin-modifying proteins. However, how auxin induces cell totipotent state and how transcription factors trigger somatic embryogenesis are poorly understood. Here, we show that auxin rapidly rewires cell totipotency network by altering chromatin accessibility. The chromatin accessibility dynamics analysis further reveals a hierarchical gene regulatory network underlying somatic embryogenesis. Particularly, we find that the embryonic nature of explants is a prerequisite for somatic cell reprogramming. Upon cell reprogramming, the high hierarchical B3-type transcription factor LEC2 promotes somatic embryo formation by direct activation of a subset of early-stage embryonic WOX transcription factors. Our results thus shed light on the molecular mechanism by which auxin promotes the acquisition of plant cell totipotency and establish a direct link between cell totipotent genes and embryonic development pathway.

样品范围

Monoisolate

发布日期

2024-04-12

出版信息

PubMed ID	文章标题	杂志名称	Doi	发表年份
32755547			10.1016/j.devcel.2020.07.003
35832616	REGENOMICS: A web-based application for plant REGENeration-associated transcriptOMICS analyses	Computational and Structural Biotechnology Journal	10.1016/j.csbj.2022.06.033	2022
38296999	BCL7A and BCL7B potentiate SWI/SNF-complex-mediated chromatin accessibility to regulate gene expression and vegetative phase transition in plants	Nature Communications	10.1038/s41467-024-45250-x	2024
40328763	LEC2 induces somatic cell reprogramming through epigenetic activation of plant cell totipotency regulators	Nature Communications	10.1038/s41467-025-59335-8	2025
33529193	Redundant and specific roles of individual MIR172 genes in plant development Decision Letter 0 Decision Letter 1 Author response to Decision Letter 1 Decision Letter 2 Author response to Decision Letter 2 Decision Letter 3	PLoS Biology	10.1371/journal.pbio.3001044	2021
33532736	Protocol for assaying chromatin accessibility using ATAC-seq in plants	STAR Protocols	10.1016/j.xpro.2020.100289	2021

项目资金来源

机构	项目类型	授权项目ID
National Natural Science Foundation of China (NSFC)	Key Program	31430013
National Natural Science Foundation of China (NSFC)	Young Scientists Fund	31525004
Chinese Academy of Sciences (CAS)	Strategic Priority Research Program of Chinese Academy of Sciences (CAS)	XDB27030000
Chinese Academy of Sciences (CAS)	Strategic Priority Research Program of Chinese Academy of Sciences (CAS)	XDB27030101

提交者

Guandong Shang (shangguandong1996@163.com)

提交单位

Chinese Academy of Sciences

提交日期

2020-04-30

项目包含数据信息

资源名称	描述
BioSample (68) show	-
SAMC183149	Fx395-DEX-IP-R2
SAMC183148	Fx395-DEX-IP-R1
SAMC183147	Fx395-DEX-input-R2
SAMC183146	Fx395-DEX-input-R1
SAMC183145	Fx395-DMSO-IP-R2
SAMC183144	Fx395-DMSO-IP-R1
SAMC183143	Fx395-DMSO-input-R2
SAMC183142	Fx395-DMSO-input-R1
SAMC183141	Fx019-DEX-R3
SAMC183140	Fx019-DEX-R2
SAMC183139	Fx019-DEX-R1
SAMC183138	Fx019-DMSO-R3
SAMC183137	Fx019-DMSO-R2
SAMC183136	Fx019-DMSO-R1
SAMC183135	GM-3D-IP-R2
SAMC183134	GM-3D-IP-R1
SAMC183133	GM-3D-input-R2
SAMC183132	GM-3D-input-R1
SAMC183131	E5-0D-IP-R2
SAMC183130	E5-0D-IP-R1
SAMC183129	E5-0D-input-R2
SAMC183128	E5-0D-input-R1
SAMC183127	G3E3-R2
SAMC183126	G3E3-R1
SAMC183125	G3E1-R2
SAMC183124	G3E1-R1
SAMC183123	G3-R2
SAMC183122	G3-R1
SAMC183121	WT-E5-72h-R3
SAMC183120	WT-E5-72h-R2
SAMC183119	WT-E5-72h-R1
SAMC183118	WT-E5-48h-R2
SAMC183117	WT-E5-48h-R1
SAMC183116	WT-E5-24h-R2
SAMC183115	WT-E5-24h-R1
SAMC183114	WT-E5-16h-R2
SAMC183113	WT-E5-16h-R1
SAMC183112	WT-E5-8h-R2
SAMC183111	WT-E5-8h-R1
SAMC183110	WT-E5-4h-R3
SAMC183109	WT-E5-4h-R2
SAMC183108	WT-E5-4h-R1
SAMC183107	WT-E5-0h-R2
SAMC183106	WT-E5-0h-R1
SAMC183105	395-DEX-7D_R1
SAMC183104	395-DEX-7D_R1
SAMC183103	WT-G3E3-R2
SAMC183102	WT-G3E3-R1
SAMC183101	WT-G3E1-R2
SAMC183100	WT-G3E1-R1
SAMC183099	WT-G3-R2
SAMC183098	WT-G3-R1
SAMC183097	WT-E5-72h-R3
SAMC183096	WT-E5-72h-R2
SAMC183095	WT-E5-72h-R1
SAMC183094	WT-E5-48h-R3
SAMC183093	WT-E5-48h-R2
SAMC183092	WT-E5-48h-R1
SAMC183091	WT-E5-24h-R2
SAMC183090	WT-E5-24h-R1
SAMC183089	WT-E5-16h-R2
SAMC183088	WT-E5-16h-R1
SAMC183087	WT-E5-8h-R2
SAMC183086	WT-E5-8h-R1
SAMC183085	WT-E5-4h-R2
SAMC183084	WT-E5-4h-R1
SAMC183083	WT-E5-0h-R2
SAMC183082	WT-E5-0h-R1
GSA (1)	-
CRA002609	Chromatin Accessibility Dynamics and Hierarchical Structure of Transcriptional Regulatory Network for Plant Somatic Embryogenesis