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Direct and indirect targets of Arabidopsis ABI3: genome wide binding sites [ChIP-chip]

ABSTRACT: Direct and indirect targets of Arabidopsis ABI3: genome wide binding sites [ChIP-chip]

PROVIDER: PRJNA632775 | ENA |

REPOSITORIES: ENA

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Direct and indirect targets of Arabidopsis ABI3: genome wide binding sites

Project description:Direct and indirect targets of Arabidopsis ABI3: genome wide binding sites

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Direct and indirect targets of Arabidopsis ABI3: genome wide binding sites [ChIP-chip]

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Project description:ABSCISIC ACID INSENSITIVE3 (ABI3) is a transcription factor that is a member of the B3 domain family and is involved in seed development. To understand how it controls development, we mapped genome-wide binding sites by ChIP-chip and combined this data wi Ran Tian, Fangfang Wang, Qiaolin Zheng, Venus Niza, A. Bruce Downie and Sharyn E. Perry (2020)

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ABI3 Network Walking

Project description:Deciphering gene regulatory networks (GRNs) is a key for understanding gene expression regulations in living systems. Here, we describe the investigation of the ABSCISIC ACID INSENSITIVE 3 (ABI3) plant transcription factor GRN vicinity by a technique called Network Walking. The method involves transient transformation of protoplasts and inducible nuclear re-localization of transcription factors along with transcriptomic analysis. This genome-wide approach allowed the de novo recovery of i) direct and indirect ABI3 target genes, ii) cis-binding site preference, and iii) biological processes regulated by this canonical abscisic acid response factor. This work improves our knowledge of ABI3 action by inferring network motifs (such as Feed Forwar Loops) under its influence. The novel high-throughput-oriented technique will help accelerate GRN systems investigations in plants, as well as in other organisms. This work studies ABI3 direct and indirect targets by a technique named Network Walking. Root/protoplasts were treated with or without dexamethasone (DEX) and cycloheximide (CHX). 3 reps each.

2013-01-01 | E-GEOD-33344 | biostudies-arrayexpress

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Direct and indirect targets of Arabidopsis ABI3: genome wide binding sites

Project description:This SuperSeries is composed of the SubSeries listed below.

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Foxa2 and Pet1 direct and indirect synergy drive serotonergic neuronal differentiation [ChIP-Seq]

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Project description:ABI3 is a key regulator of seed development in Arabidopsis and other plants.To identify DNA fragments (promoters) bound by ABI3 we performed array based ChIP analysis. Five ChIP-chip experiments were performed with chromatin of seeds of Arabidopsis and an anti-ABI3 antibody directed against a N-terminal fragment of ABI3, raised in rabbits. Non precipitated chromatin (input) served as control.

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