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An auxin-regulable oscillatory circuit drives the root clock in Arabidopsis

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE149997 | GEO | 2021/01/07

REPOSITORIES: GEO

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An auxin-regulable oscillatory circuit drives the root clock in <i>Arabidopsis</i>.

Project description:In Arabidopsis, the root clock regulates the spacing of lateral organs along the primary root through oscillating gene expression. The core molecular mechanism that drives the root clock periodicity and how it is modified by exogenous cues such as auxin and gravity remain unknown. We identified the key elements of the oscillator (AUXIN RESPONSE FACTOR 7, its auxin-sensitive inhibitor IAA18/POTENT, and auxin) that form a negative regulatory loop circuit in the oscillation zone. Through multilevel computer modeling fitted to experimental data, we explain how gene expression oscillations coordinate with cell division and growth to create the periodic pattern of organ spacing. Furthermore, gravistimulation experiments based on the model predictions show that external auxin stimuli can lead to entrainment of the root clock. Our work demonstrates the mechanism underlying a robust biological clock and how it can respond to external stimuli.

| S-EPMC7775764 | biostudies-literature

An auxin-regulable oscillatory circuit drives the root clock in Arabidopsis

Project description:An auxin-regulable oscillatory circuit drives the root clock in Arabidopsis

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Auxin production in the endosperm drives seed coat development in Arabidopsis

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

2016-11-15 | GSE85848 | GEO

TOR acts as metabolic gatekeeper for auxin-dependent lateral root initiation in Arabidopsis thaliana

Project description:This SuperSeries is composed of the SubSeries listed below. https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE199202 https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE199203

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Auxin responses in the Arabidopsis stem and cambium

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Extensive oscillatory gene expression during C. elegans larval development

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2014-03-01 | E-GEOD-52910 | biostudies-arrayexpress

A Master Cistromic Circuit Governing Hepatic Fibrogenesis

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

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Auxin-independent NAC pathway regulates cell wall metabolism in response to explant-specific wounding during regeneration in Arabidopsis

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2015-12-31 | E-GEOD-74587 | biostudies-arrayexpress

A DAO1-Mediated Circuit Controls Auxin and Jasmonate Crosstalk Robustness during Adventitious Root Initiation in <i>Arabidopsis</i>.

Project description:Adventitious rooting is a post-embryonic developmental program governed by a multitude of endogenous and environmental cues. Auxin, along with other phytohormones, integrates and translates these cues into precise molecular signatures to provide a coherent developmental output. Auxin signaling guides every step of adventitious root (AR) development from the early event of cell reprogramming and identity transitions until emergence. We have previously shown that auxin signaling controls the early events of AR initiation (ARI) by modulating the homeostasis of the negative regulator jasmonate (JA). Although considerable knowledge has been acquired about the role of auxin and JA in ARI, the genetic components acting downstream of JA signaling and the mechanistic basis controlling the interaction between these two hormones are not well understood. Here we provide evidence that COI1-dependent JA signaling controls the expression of DAO1 and its closely related paralog DAO2. In addition, we show that the dao1-1 loss of function mutant produces more ARs than the wild type, probably due to its deficiency in accumulating JA and its bioactive metabolite JA-Ile. Together, our data indicate that DAO1 controls a sensitive feedback circuit that stabilizes the auxin and JA crosstalk during ARI.

| S-EPMC6769753 | biostudies-literature

ABCB-mediated shootward auxin transport feeds into the root clock

Project description:Although strongly influenced by environmental conditions, lateral root (LR) positioning along the primary root appears to follow obediently an internal spacing mechanism dictated by auxin oscillations that prepattern the primary root, referred to as the root clock. Surprisingly, none of the hitherto characterized PIN- and ABCB-type auxin transporters seem to be involved in this LR prepatterning mechanism. Here, we characterize ABCB15, 16, 17, 18 and 22 (ABCB15-22) as novel auxin transporting ABCBs. Knock-down and genome editing of this genetically linked group of ABCBs caused strongly reduced LR densities. These phenotypes were correlated with reduced amplitude, but not reduced frequency of the root clock oscillation. High-resolution auxin transport assays, and tissue-specific silencing revealed contributions of ABCB15-22 to shootward auxin transport in the lateral root cap (LRC) and epidermis, thereby explaining the reduced auxin oscillation. Jointly, these data support a model in which LRC-derived auxin contributes to the root clock amplitude.

| S-SCDT-10_15252-EMBR_202256271 | biostudies-other

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