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A stele-enriched gene regulatory network in the Arabidopsis root.

Publication ,  Journal Article
Brady, SM; Zhang, L; Megraw, M; Martinez, NJ; Jiang, E; Yi, CS; Liu, W; Zeng, A; Taylor-Teeples, M; Kim, D; Ahnert, S; Ohler, U; Ware, D ...
Published in: Mol Syst Biol
January 18, 2011

Tightly controlled gene expression is a hallmark of multicellular development and is accomplished by transcription factors (TFs) and microRNAs (miRNAs). Although many studies have focused on identifying downstream targets of these molecules, less is known about the factors that regulate their differential expression. We used data from high spatial resolution gene expression experiments and yeast one-hybrid (Y1H) and two-hybrid (Y2H) assays to delineate a subset of interactions occurring within a gene regulatory network (GRN) that determines tissue-specific TF and miRNA expression in plants. We find that upstream TFs are expressed in more diverse cell types than their targets and that promoters that are bound by a relatively large number of TFs correspond to key developmental regulators. The regulatory consequence of many TFs for their target was experimentally determined using genetic analysis. Remarkably, molecular phenotypes were identified for 65% of the TFs, but morphological phenotypes were associated with only 16%. This indicates that the GRN is robust, and that gene expression changes may be canalized or buffered.

Duke Scholars

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Published In

Mol Syst Biol

DOI

EISSN

1744-4292

Publication Date

January 18, 2011

Volume

7

Start / End Page

459

Location

England

Related Subject Headings

  • Two-Hybrid System Techniques
  • Transcription Factors
  • Systems Biology
  • Reproducibility of Results
  • Plant Roots
  • MicroRNAs
  • Gene Regulatory Networks
  • Gene Expression Profiling
  • Bioinformatics
  • Arabidopsis Proteins
 

Citation

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Brady, S. M., Zhang, L., Megraw, M., Martinez, N. J., Jiang, E., Yi, C. S., … Benfey, P. N. (2011). A stele-enriched gene regulatory network in the Arabidopsis root. Mol Syst Biol, 7, 459. https://doi.org/10.1038/msb.2010.114
Brady, Siobhan M., Lifang Zhang, Molly Megraw, Natalia J. Martinez, Eric Jiang, Charles S. Yi, Weilin Liu, et al. “A stele-enriched gene regulatory network in the Arabidopsis root.Mol Syst Biol 7 (January 18, 2011): 459. https://doi.org/10.1038/msb.2010.114.
Brady SM, Zhang L, Megraw M, Martinez NJ, Jiang E, Yi CS, et al. A stele-enriched gene regulatory network in the Arabidopsis root. Mol Syst Biol. 2011 Jan 18;7:459.
Brady, Siobhan M., et al. “A stele-enriched gene regulatory network in the Arabidopsis root.Mol Syst Biol, vol. 7, Jan. 2011, p. 459. Pubmed, doi:10.1038/msb.2010.114.
Brady SM, Zhang L, Megraw M, Martinez NJ, Jiang E, Yi CS, Liu W, Zeng A, Taylor-Teeples M, Kim D, Ahnert S, Ohler U, Ware D, Walhout AJM, Benfey PN. A stele-enriched gene regulatory network in the Arabidopsis root. Mol Syst Biol. 2011 Jan 18;7:459.
Journal cover image

Published In

Mol Syst Biol

DOI

EISSN

1744-4292

Publication Date

January 18, 2011

Volume

7

Start / End Page

459

Location

England

Related Subject Headings

  • Two-Hybrid System Techniques
  • Transcription Factors
  • Systems Biology
  • Reproducibility of Results
  • Plant Roots
  • MicroRNAs
  • Gene Regulatory Networks
  • Gene Expression Profiling
  • Bioinformatics
  • Arabidopsis Proteins