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Impact of RAP2.12 alterations on gene expression in hypoxic and aerobic conditions

ABSTRACT: In this study we analyzed the effect of overexpression of an HA-tagged version of the ERF RAP2.12 on the transcriptome levels in aerobic and hypoxic-treated (O2 21% and 1%, respectively) Arabidopsis thaliana rosettes. We also analyzed the effect of a RAP2.12 and RAP2.2 simultaneous silencing in aerobic and hypoxic-treated (O2 21% and 1%, respectively) Arabidopsis thaliana rosettes.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE29187 | GEO | 2011/10/14

SECONDARY ACCESSION(S): PRJNA139995

REPOSITORIES: GEO

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Impact of RAP2.12 alterations on gene expression in hypoxic and aerobic conditions in Arabidopsis thaliana

Project description:In this study we analyzed the effect of overexpression of an HA-tagged version of the ERF RAP2.12 on the transcriptome levels in aerobic and hypoxic-treated (O2 21% and 1%, respectively) Arabidopsis thaliana rosettes. We also analyzed the effect of a RAP2.12 and RAP2.2 simultaneous silencing in aerobic and hypoxic-treated (O2 21% and 1%, respectively) Arabidopsis thaliana rosettes. We treated Arabidopsis Col-0 (wt) rosettes and transgenic HA::RAP2.12 and amiRAP2.2-12 , 5-week old, grown in 8/16 light/dark photoperiod with: -Control (22°C, dark, 21% O2, 1.5h). -Hypoxia (22°C, dark, 1% O2, 1.5h).

2011-10-13 | E-GEOD-29187 | biostudies-arrayexpress

Bulk RNA-sequencing of hypocotyl explants and hypocotyl explant-derived calli of Arabidopsis

Project description:Plants are aerobic organisms that rely on molecular oxygen for respiratory energy production. Hypoxic conditions, with oxygen levels ranging between 1% and 5%, usually limit aerobic respiration and affect plant growth and development. Here, we demonstrate that hypoxic microenvironment induced by active cell proliferation during the two-step plant regeneration process intrinsically represses the regeneration competence of callus in Arabidopsis thaliana. Hypoxia-repressed plant regeneration was mediated by the RELATED TO APETALA 2.12 (RAP2.12) protein, a member of the Ethylene Response Factor VII (ERF-VII) family. The hypoxia-activated RAP2.12 protein promoted salicylic acid (SA) biosynthesis and defense responses, inhibiting pluripotency acquisition and de novo shoot regeneration in calli. RAP2.12 could bind directly to the SALICYLIC ACID INDUCTION DEFICIENT 2 (SID2) gene promoter and activate SA biosynthesis, repressing plant regeneration via a PLETHORA (PLT)-dependent pathway. The rap2.12 mutant calli exhibited enhanced shoot regeneration, which was impaired by SA treatment. Taken together, our findings demonstrate that cell proliferation-dependent hypoxic microenvironment reduces cellular pluripotency and plant regeneration through the RAP2.12–SID2 module.

2024-02-16 | GSE249446 | GEO

Bulk RNA-sequencing of hypocotyl explant-derived calli of Arabidopsis WT and rap2.12-2

2024-02-16 | GSE249447 | GEO

Transcription profiling of Arabidopsis - effect of AtHRE1 and AtHRE2 overexpression in normoxia and hypoxia

Project description:HRE1 and HRE2 are two ERF transcription factors induced by low oxygen. In this work we analyzed the effect of ectopic expression of HRE1 and HRE2 on the arabidopsis transcriptome in aerobic and hypoxic (1% O2) conditions. While HRE1 has a moderate effect on the expression of anaerobic genes under hypoxia, HRE2 does not affect them either under aerobic or hypoxic conditions. Experiment Overall Design: We treated Arabidopsis seedling Col-0 (wt) and transgenic 35S::HRE1 and 35S::HRE2 , 7-day old, germinated in 12/12 light/dark photoperiod with: Experiment Overall Design: -Control (23Â°C, dark, 21% O2, 4h). Experiment Overall Design: -Hypoxia (23Â°C, dark, 1% O2, 4h). Experiment Overall Design: Two biological replicates for each condition.

2009-11-10 | E-GEOD-17099 | biostudies-arrayexpress

Effect of AtHRE1 and AtHRE2 overexpression in normoxia and hypoxia

2009-10-31 | GSE17099 | GEO

Effect of ∆13RAP2.12 overexpression

Project description:The effect of the overexpression of a stabilized version of the transcription factor RELATED TO APETALA2.12 (RAP2.12) on the transcriptome of Arabidopsis rosettes was investigated. To this purpose, 4-week old rosette of wild-type and 35S:∆13RAP2.12 plants were compared. Samples were composed of pools of 3 plants.

2017-07-24 | GSE83861 | GEO

Hypoxic gene expression in med25-1

Project description:Plants as obligate aerobic organisms are severely affected by flooding-induced oxygen restriction. As a consequence, they suffer from energy deficits which are counterbalanced by activation of anaerobic metabolism genes through subgroup VII ETHYLENE-RESPONSE FACTOR (ERFVII) transcription factors. Despite the crucial role of ERFVIIs in regulating transcript responses to hypoxia in multiple plant species, it is not understood how these factors mechanistically initiate hypoxic gene expression. Here, we show that the Arabidopsis ERFVIIs RELATED TO APETALA 2.12 (RAP2.12) and RAP2.2 recruit the Mediator complex, present in all higher eukaryotes, in order to convey stress signals to RNA polymerase II. This is achieved by specific interaction with Mediator subunit 25 (AtMED25). Both RAP2.12 and RAP2.2 require AtMED25 for full activity and subsequent induction of target hypoxia core genes. Our findings support an interplay of multiple coactivators under hypoxia and underline the flexible nature of the Mediator complex composition, which both help to meet specific cellular demands under (hypoxic) stress conditions.

2019-12-31 | GSE130962 | GEO

Arabidopsis thaliana responses to LCO and Th17 under drought stress

Project description:Arabidopsis thaliana rosettes respond to LCO and Th17 treatments under drought stress by regulating phytohormones and proteome.

2023-03-07 | MSV000091432 | MassIVE

Arabidopsis thaliana

Project description:Impact of RAP2.12 alterations on gene expression in hypoxic and aerobic conditions

| PRJNA139995 | ENA

Gene expression levels in colon cancer cells with mutant K-ras under hypoxic conditions

Project description:The goal of this study was to identify those genes that were differentially expressed in colon cancer cells with mutant K-ras under hypoxic conditions DKS-5 (K-ras mutant) and DKO-3 (K-ras wild-type) were cultured in normoxic (21% O2) and 12-hour hypoxic (1% O2) conditions. This was repeated for a total of 2 samples per condition.

2012-02-21 | E-GEOD-35973 | biostudies-arrayexpress

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