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Expression data from Arabidopsis wild-type (Col-0) and KO-nudx19 plants, which lacks nudix hydrolase 19, a NADPH hydrolase

ABSTRACT: The NADPH status, which is regulated by AtNUDX19, a NADPH pyrophosphohydrolase, is involved in the regulation of stress and hormonal responses. To clarify how the status is involved in the regulation, we performed a microarray analysis using 3-week-old wild-type and KO-nudx19 leaves grown under normal light conditions.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE64968 | GEO | 2015/01/15

SECONDARY ACCESSION(S): PRJNA272608

REPOSITORIES: GEO

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Expression data from Arabidopsis wild-type (Col-0) and KO-nudx19 plants, which lacks nudix hydrolase 19, a NADPH hydrolase

Project description:The NADPH status, which is regulated by AtNUDX19, a NADPH pyrophosphohydrolase, is involved in the regulation of stress and hormonal responses. To clarify how the status is involved in the regulation, we performed a microarray analysis using 3-week-old wild-type and KO-nudx19 leaves grown under normal light conditions. Wild-type and KO-nudx19 plants were grown on MS medium containing 3% sucrose in a growth chamber kept at 25Â°C during 16 h of light (100 Âµmol/m2/s) and at 22Â°C during 8 h of darkness for 1 week, and then transferred to and further grown on soil for 2 weeks in the same chamber. At 3 weeks, leaves were collected as samples for microarray analysis.

2015-01-15 | E-GEOD-64968 | biostudies-arrayexpress

The reducing equivalent NADPH dictates histone acetylation via direct inactivation of HDAC3

Project description:NADPH has been long well-recognized as a key cofactor for antioxidant defense and reductive biosynthesis. Here we report a metabolism-independent function of NADPH in modulating epigenetic status and transcription. We found that reduction of cellular NADPH levels by silencing malic enzyme (ME) or G6PD impairs global histone acetylation and transcription in both adipocytes and tumor cells. These effects can be reversed by supplementation of exogenous NADPH or inhibition of histone deacetylase 3 (HDAC3). Mechanistically, NADPH or inhibition of histone deacetylase 3 (HDAC3). Mechanistically,NADPH directly interacts with HDAC3 and interrupts the association between HDAC3 and its co-activator Ncor2 (SMRT) or Ncor1, thereby impairs HDAC3 activation. Interestingly, it appears that NADPH and Ins(1,4,5,6)P4 bind to the same domains on HDAC3, and NADPH has relatively higher affinity towards HDAC3. Thus, while Ins(1,4,5,6)P4 acts as an ‘intermolecular glue’, NADPH may function as a HDAC3-Ncor assembly inhibitor. Collectively, our findings uncovered a previous unidentified and metabolism-independent role of NADPH in controlling epigenetic change and gene expression by acting as an endogenous inhibitor of HDAC3.

2020-11-27 | GSE137694 | GEO

A transcriptomic analysis of the response of Saccharomyces cerevisiae to increases in NADPH oxidation [2010]

Project description:Experience 2: 59A vs. 59A NADH Bdh200 mM, 59A NADPH Bdh200mM and 59A NADPH Bdh300 mM

2012-04-01 | GSE34809 | GEO

MethlyC-Seq of Col-0 background wild-type (WT)

Project description:Using MethylC-Seq to provide single-base resolution of DNA methylation status in Col-0 WT

2015-02-05 | GSE53033 | GEO

A transcriptomic analysis of the response of Saccharomyces cerevisiae to increases in NADPH oxidation

Project description:This SuperSeries is composed of the following subset Series: GSE34808: A transcriptomic analysis of the response of Saccharomyces cerevisiae to increases in NADPH oxidation [2009] GSE34809: A transcriptomic analysis of the response of Saccharomyces cerevisiae to increases in NADPH oxidation [2010] Refer to individual Series

2012-03-31 | E-GEOD-34810 | biostudies-arrayexpress

A transcriptomic analysis of the response of Saccharomyces cerevisiae to increases in NADPH oxidation [2010]

Project description:Experience 2: 59A vs. 59A NADH Bdh200 mM, 59A NADPH Bdh200mM and 59A NADPH Bdh300 mM Analysis used RNA samples of three replicates by strain extracted from cells harvested at mid-exponential phase of wine fermentation

2012-03-31 | E-GEOD-34809 | biostudies-arrayexpress

A transcriptomic analysis of the response of Saccharomyces cerevisiae to increases in NADPH oxidation [2009]

Project description:Experience 1: 59A vs. 59A NADPH Bdh100mM

2012-04-01 | GSE34808 | GEO

The receptor-like cytosolic kinase RIPK activates NADP-malic enzyme 2 to generate NADPH for fueling the ROS production

Project description:Reactive oxygen species (ROS) production is a conserved immune response, primarily mediated in Arabidopsis by the respiratory burst oxidase homolog D (RBOHD), a nicotinamide adenine dinucleotide phosphate (NADPH) oxidase associated with the plasma membrane. A rapid increase in NADPH is necessary to fuel RBOHD proteins and hence maintain ROS production. However, the molecular mechanism underlying the NADPH generation for fueling RBOHD remains unclear. In this study, we isolated a new mutant allele of flagellin-insensitive 4 (FIN4), encoding the first enzyme in de novo NAD biosynthesis. fin4 mutants show reduced NADPH levels and impaired ROS production. However, FIN4 and other genes involved in the NAD- and NADPH-generating pathways are not highly upregulated upon elicitor treatment. Therefore, we hypothesized that a cytosolic NADP-linked dehydrogenase might be post-transcriptionally activated to keep the NADPH supply close to RBOHD. RPM1-INDUCED PROTEIN KINASE (RIPK), a receptor-like cytoplasmic kinase, regulates broad-spectrum ROS signaling in plant immunity. We then isolated the proteins associated with RIPK and identified NADP-malic enzyme 2 (NADP-ME2), an NADPH-generating enzyme. Compared with wild-type plants, nadp-me2 mutants display decreased NADP-ME activity, lower NADPH levels, as well as reduced ROS production in response to immune elicitors. Furthermore, we found that RIPK can directly phosphorylate NADP-ME2 and enhance its activity in vitro. The phosphorylation of NADP-ME2 S371 residue contributes to ROS production upon immune elicitor treatment and the susceptibility to the necrotrophic bacterium, Pectobacterium carotovorum. Overall, our study suggests that RIPK activates NADP-ME2 to rapidly increase cytosolic NADPH, hence fueling RBOHD to sustain ROS production in plant immunity.

2022-03-10 | GSE198017 | GEO

MethylC-Seq of Ws background wild-type (WT), ape1l-1 (Ws background), arp-1 (Col-0 background) and zdp-1 (Col-0 background) mutants

Project description:Using MethylC-Seq to provide single-base resolution of DNA methylation status in Ws background wild-type (WT), ape1l-1 (Ws background), arp-1 (Col-0 background) and zdp-1 (Col-0 background) mutants

2014-11-21 | GSE52983 | GEO

Transcription profiling of Salmonella typhimurium isolated from mice bone marrow derived macrophages with and without NADPH oxidase

Project description:NADPH dependent phagocytic oxidase, by producing hydroxyradicals such as hydrogen peroxide, is essential for host defense against Salmonella infection. We used gene array analysis to identify Salmonella enterica serovar Typhimurium genes regulated by NADPH dependent phagocytic oxidase intracellularly in comparison to those expressed in vitro by hydrogen peroxide.

2007-05-02 | E-MEXP-1089 | biostudies-arrayexpress

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