Cited by 133Plant Molecular Biology ResearchGene Regulatory Network AnalysisDevelopmental Biology and Gene Regulation

An organ boundary‐enriched gene regulatory network uncovers regulatory hierarchies underlying axillary meristem initiation

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Tian, Caihuan, Zhang, Xiaoni, He, Jun, Yu, Haopeng, Wang, Ying, Shi, Bihai, Han, Yingying, Wang, Guoxun +6 more·2014·Molecular Systems Biology

Abstract

Gene regulatory networks (GRNs) control development via cell type‐specific gene expression and interactions between transcription factors (TFs) and regulatory promoter regions. Plant organ boundaries separate lateral organs from the apical meristem and harbor axillary meristems (AMs). AMs, as stem cell niches, make the shoot a ramifying system. Although AMs have important functions in plant development, our knowledge of organ boundary and AM formation remains rudimentary. Here, we generated a cellular‐resolution genomewide gene expression map for low‐abundance Arabidopsis thaliana organ boundary cells and constructed a genomewide protein–DNA interaction map focusing on genes affecting boundary and AM formation. The resulting GRN uncovers transcriptional signatures, predicts cellular functions, and identifies promoter hub regions that are bound by many TFs. Importantly, further experimental studies determined the regulatory effects of many TFs on their targets, identifying regulators and regulatory relationships in AM initiation. This systems biology approach thus enhances our understanding of a key developmental process.

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Authors
Tian, C., Zhang, X., He, J., Yu, H., Wang, Y., Shi, B., Han, Y., Wang, G., Feng, X., Zhang, C., Wang, J., Qi, J., Yu, R., & Jiao, Y.
Affiliations
Chinese Academy of Sciences (CN)
Corresponding author
Jiao, Yuling
Venue
Molecular Systems Biology
Published
2014-10-01
Volume
10
Issue
10
Pages
755-755
ISSN
1744-4292 (ISSN-L)
OpenAlex
W2148257190
Cited by
133
References
85
Citations by year
2026: 6 · 2025: 12 · 2024: 18 · 2023: 9 · 2022: 14 · 2021: 17 · 2020: 15 · 2019: 8 · 2018: 6 · 2017: 10 · 2016: 8 · 2015: 10
FWCI
10.91
Type
journal article
Language
en
Open access
Locations
  • Molecular Systems Biology (publishedVersion, cc-by)
  • Europe PMC (PubMed Central) (publishedVersion, cc-by)
  • PubMed Central (publishedVersion, cc-by)
  • PubMed (publishedVersion)
  • DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion)
Funders
  • Ministry of Agriculture of China (2011ZX08010‐002)
  • National Basic Research Program of China (2012CB910902, 2014CB943500)
  • National Natural Science Foundation of China (31171159, 31222033, 31300298, 31430010)
  • Hundred Talents Program and the Strategic Priority Research Program of CAS
Topics
  • Life Sciences › Agricultural and Biological Sciences › Plant Science › Plant Molecular Biology Research
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gene Regulatory Network Analysis
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Developmental Biology and Gene Regulation
Keywords
axillary meristem initiation, organ boundaries, gene regulatory networks, transcription factors, protein-DNA interactions, Arabidopsis thaliana, stem cell niche, regulatory hierarchy
MeSH terms
Models, Genetic, Promoter Regions, Genetic, Transcription Factors, Arabidopsis, Gene Expression Regulation, Plant, Meristem, Genome, Plant, Gene Expression Profiling, Arabidopsis Proteins, Gene Regulatory Networks

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