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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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

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. 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).

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Francesco Licausi

PROVIDER: E-GEOD-29187 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Oxygen sensing in plants is mediated by an N-end rule pathway for protein destabilization.

Licausi Francesco F Kosmacz Monika M Weits Daan A DA Giuntoli Beatrice B Giorgi Federico M FM Voesenek Laurentius A C J LA Perata Pierdomenico P van Dongen Joost T JT

Nature 20111023 7373

The majority of eukaryotic organisms rely on molecular oxygen for respiratory energy production. When the supply of oxygen is compromised, a variety of acclimation responses are activated to reduce the detrimental effects of energy depletion. Various oxygen-sensing mechanisms have been described that are thought to trigger these responses, but they each seem to be kingdom specific and no sensing mechanism has been identified in plants until now. Here we show that one branch of the ubiquitin-depe ...[more]

PMID: 22020282

Similar Datasets

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

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.

2011-10-14 | GSE29187 | 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 PCO1 overexpression [normoxia]

Project description:The effect of the overexpression of Plant Cysteine Oxidase (PCO1) on the transcriptome of Arabidopsis rosettes was investigated. For this purpose, 4-week old rosette of wild-type and 35S:FLAG:CDO1 plants were compared. Samples were composed of a pool of 5 plants. In total, 6 samples were analyzes, subdivided in 2 thesis with 3 replicates each. 35S:PCO1 plants were compared to wild-type plants.

2014-02-07 | E-GEOD-44342 | biostudies-arrayexpress

Effect of AtHRE1 and AtHRE2 overexpression in normoxia and hypoxia

2009-10-31 | GSE17099 | GEO

Arabidopsis diurnal LFQ proteome and labelled phosphoproteome

Project description:Plant growth and survival depends to a large extent on the diurnal regulation of cellular processes. Although extensively studied at the transcript level, notably less is known about diurnal fluctuations at the protein level. Here, we report a high-resolution quantitative time-course of the Arabidopsis rosette proteome and phosphoproteome over a 12 h light:12 h dark diel cycle. We monitored the proteome every 2 h and the phosphoproteome immediately before and after the light-to-dark and dark-to-light transitions. Notably, we quantified nearly 5000 proteins and 1800 phosphopeptides, of which 288 and 225, respectively, were found to fluctuate over the time-course. Diurnal proteome and phosphoproteome changes were related to diverse biological processes, including protein translation, light detection, photosynthesis, metabolism and transport. Together, these datasets represent the most comprehensive proteomic analysis of Arabidopsis rosettes to date, allowing us to make multi-level inferences about the diurnal regulation of key cellular plant processes plants.

2020-12-18 | PXD007600 | Pride

Effects of anoxia and sucrose on seedling growth

Project description:Arabidopsis thaliana ecotype Columbia glabra were grown for 4 days in the dark without added sucrose. Samples were subsequently kept for 6h either [1] under aerobic conditions, [2] under anoxia in absence of sucrose or [3] under anoxia in presence of sucrose. Keywords: other

2005-01-10 | GSE2133 | GEO

CT01 vs wild-type at 3% O2

Project description:Comparison of wild-type (2.4.1) and CT01 (contains an omega Spr/Smr insertion in RSP4157) gene expression; growth condition is (3% O2 + 96%N2 + 1%CO2) semi-aerobic growth in the dark. Manuscript in preparation. The below normalized data was generated using GeneSpring software with the following settings: A data: Data Transformation: set all values less than 0.01 to 0.01 Per Chip: normalize to 50th percentile, and then Per Gene: normalize to median B data: Data Transformation: set all values less than 0.01 to 0.01 Per Chip: normalize to 50th percentile Values from independent replicates were averaged Keywords = Rhodobacter sphaeroides Keywords = photosynthesis Keywords = semi-aerobic Keywords = purple bacteria Keywords: other

2005-04-01 | GSE2146 | GEO

CT01 vs wild-type at 3% O2

2010-06-10 | E-GEOD-2146 | biostudies-arrayexpress

Effect of PCO1 overexpression [hypoxia]

Project description:The effect of the overexpression of Plant Cysteine Oxidase (PDCO1) on the transcriptome of Arabidopsis resettes was investigated with plants subjected to a 4h hypoxia (5% O2 v/v in air). For this purpose, 4-week old rosette of wild-type and 35S:FLAG:CDO1 plants were compared. Samples were composed of pools of 5 plants. In total, 6 samples were analyzes, subdivided in 2 thesis with 3 replicates each. 35S:PCO1 plants (treated with hypoxia) were compared to wild-type plants (treated with hypoxia).

2014-02-07 | E-GEOD-44343 | biostudies-arrayexpress

Ambient O2 pressure induces NF-kB1/RelA related inflammatory response in human lung epithelial cells in vitro

Project description:Purpose: Oxygen (O2) levels in cell culture conditions is typically 2-5 fold higher than the physiological O2 levels that most tissues experience in vivo. The ambient atmospheric O2 (21%) is known to induce cell proliferation defects and cellular senescence in stem cell and primary cell cultures. Therefore, culturing these cells under lower O2 levels (2-9%) is currently a standard practice. However, the non-cancerous immortalized cells and cancer cells, which evade cellular senescence are normally cultured under 21% O2 levels and the effects of higher O2 levels on these cells are not fully understood. Methods: Gene expression (RNA seq transcriptomics) analysis of immortalized human bronchial epithelial (BEAS-2B) cells cultured at ambient 21% O2 and lower 10% O2 levels for 3 days and 3 weeks. Further the beneficial effects of cuturing cells under lower oxygen tension is evalulated Results: Our results show NF-κB/RelA mediated activation of pro-inflammatory cytokines as a major outcome of cells being cultured 21% O2. Moreover, we demonstrate increased RelA binding at the NF-κB1/RelA target gene promoters at 21% O2. Interestingly, contrary to cells cultutred at 21% O2, external stress induced by H2O2 exposure did not induce inflammatory response in cells grown at 10% O2, suggesting increased ability to handle external stress in cells cultured at lower O2 levels.

2016-01-26 | GSE68378 | GEO

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