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Title: The G-box transcriptional regulatory code in arabidopsis
Authors: Daphne Ezer
Samuel J.K. Shepherd
Anna Brestovitsky
Patrick Dickinson
Sandra Cortijo
Varodom Charoensawan
Mathew S. Box
Surojit Biswas
Katja E. Jaeger
Philip A. Wigge
University of Cambridge
Mahidol University
Harvard Medical School
Keywords: Agricultural and Biological Sciences;Biochemistry, Genetics and Molecular Biology
Issue Date: 1-Oct-2017
Citation: Plant Physiology. Vol.175, No.2 (2017), 628-640
Abstract: © 2017 American Society of Plant Biologists. All Rights Reserved. Plants have significantly more transcription factor (TF) families than animals and fungi, and plant TF families tend to contain more genes; these expansions are linked to adaptation to environmental stressors. Many TF family members bind to similar or identical sequence motifs, such as G-boxes (CACGTG), so it is difficult to predict regulatory relationships. We determined that the flanking sequences near G-boxes help determine in vitro specificity but that this is insufficient to predict the transcription pattern of genes near G-boxes. Therefore, we constructed a gene regulatory network that identifies the set of bZIPs and bHLHs that are most predictive of the expression of genes downstream of perfect G-boxes. This network accurately predicts transcriptional patterns and reconstructs known regulatory subnetworks. Finally, we present Ara-BOX-cis (, a Web site that provides interactive visualizations of the G-box regulatory network, a useful resource for generating predictions for gene regulatory relations.
ISSN: 15322548
Appears in Collections:Scopus 2016-2017

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