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A specific protective mechanism against chloroplast photo-reactive oxygen species in phosphate-starved rice plants [RNA-seq]

ABSTRACT: A specific protective mechanism against chloroplast photo-reactive oxygen species in phosphate-starved rice plants [RNA-seq]

PROVIDER: PRJNA935766 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR23499600_1.fastq.gz	Fastqsanger.gz
	SRR23499600_2.fastq.gz	Fastqsanger.gz
	SRR23499593_1.fastq.gz	Fastqsanger.gz
	SRR23499593_2.fastq.gz	Fastqsanger.gz
	SRR23499594_1.fastq.gz	Fastqsanger.gz

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A specific protective mechanism against chloroplast photo-reactive oxygen species in phosphate-starved rice plants [ChIP-seq]

Project description:Phosphorus (Pi) starvation prevents a good match between light energy absorption and photosynthetic carbon metabolism. Photosynthetic electron-transport chain switches to use molecular oxygen as an electron carrier, generating photo-reactive oxygen species (photo-ROS) in chloroplast. In rice (Oryza sativa), DEEP GREEN PANICLE1 (DGP1) is robustly up-regulated in response to Pi-deficiency stress. DGP1 decreases the DNA-binding activities of the photosynthetic activators GLK1/2 on the genes involved in chlorophyll biosynthesis, light harvesting and electron transport. This Pi-starvation-induced mechanism dampens electron transport rates (ETRI and ETRII) and alleviates the electron-excessive stress in mesophyll cells. Meanwhile, DGP1 hijacks glycolytic enzymes GAPC1/2/3, redirecting glucose metabolism toward pentose phosphate pathway with superfluous NADPH production. Phenotypically, light irradiation induces O2– accumulation in Pi-starved WT leaves, but was observably accelerated in dgp1 mutant and impaired in GAPCsRNAi line and glk1glk2 double mutant. Interestingly, overexpression of DGP1 in rice caused hyposensitivity to the ROS-inducers (catechin and methyl viologen) and dgp1 mutant shows a similar inhibitory growth with the WT plants. We conclude that DGP1 gene serves as a specific antagonizer against Pi-starvation-induced photo-ROS, which integrates light-absorbing and anti-oxidative systems by orchestrating transcriptional and metabolic regulations, respectively.

2023-04-15 | GSE225476 | GEO

A specific protective mechanism against chloroplast photo-reactive oxygen species in phosphate-starved rice plants [RNA-seq]

2023-04-15 | GSE225472 | GEO

A specific protective mechanism against chloroplast photo-reactive oxygen species in phosphate-starved rice plants

Project description:A specific protective mechanism against chloroplast photo-reactive oxygen species in phosphate-starved rice plants

| PRJNA935764 | ENA

A specific protective mechanism against chloroplast photo-reactive oxygen species in phosphate-starved rice plants [ChIP-seq]

Project description:A specific protective mechanism against chloroplast photo-reactive oxygen species in phosphate-starved rice plants [ChIP-seq]

| PRJNA935767 | ENA

A specific protective mechanism against chloroplast photo-reactive oxygen species in phosphate-starved rice plants

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

2023-04-15 | GSE225478 | GEO

Starved HEK293 cells

Project description:Starved HEK293 cells

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High-depth spatial transcriptome analysis by photo-isolation chemistry

Project description:We established a transcriptome profiling method coupled with photo-isolation chemistry (PIC) that allows the determination of expression profiles specifically from photo-irradiated regions of interest.

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Protocol for high-yield production of photo-leucine-labeled proteins in Escherichia coli

Project description:Cross-linking mass spectrometry (XL-MS) is an emerging technique to obtain structural information of biomacromolecules and their complexes in cells and in vitro. In particular, certain photo-reactive amino acids (pA) such as photo-leucine (pLeu) and photo-methionine can provide unique short-distance information on structural core regions of proteins. Here, we present a protocol for high-yield incorporation of pLeu in proteins recombinantly expressed in Escherichia coli. The protein is expressed at high cell densities, which reduces the required amount of the photo-reactive amino acid by a factor of 10 compared to standard protocols, while maintaining high incorporation rates. For the two chaperones Trigger Factor and SecB, up to 3 mg of photo-leucine labeled protein were thus obtained from 100 ml of cell culture, with label incorporation rates of up to 34%. For Trigger factor, UV-induced cross-linking lead to the identification of 12 cross-links that are in agreement with published three-dimensional structures. The accessibility of milligram amounts of photo-leucine-labeled proteins at low costs will be highly useful to address structural biology questions.

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R. sphaeroides delta-cryB vs. R. sphaeroides 2.4.1 photo-oxidative stress, aerobic conditions

Project description:Transcriptional profiling of R. sphaeroides delta-cryB compared to control R. sphaeroides 2.4.1 under photo-oxidative stress, aerobic conditions. Two-strain experiment under 20' photo-oxidative stress (singlet oxygen generated by methylene blue under high light illumination) and aerobic (180 µM) conditions

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MerR and ChrR mediate blue light induced photo-oxidative stress response at the transcriptional level in Vibrio cholerae

Project description:Blue light (BL) is a major environmental factor that affects the physiology, behavior, and infectivity of bacteria as it contributes to the generation of reactive oxygen species (ROS) while increasing photo-oxidative stress in cells. However, precise photo-oxidative response mechanism in non-phototrophic bacteria is yet to be elucidated. In this study, we investigated the effect of BL in Vibrio cholerae by using genetics and transcriptome profiling. Genome-wide analysis revealed that transcription of 6.3% of V. cholerae genes were regulated by BL. We further showed that BL enhances ROS production, which is generated through the oxidative phosphorylation. To understand signaling mechanisms, we generated several knockouts and analyzed their transcriptome under BL exposure. Studies with a double-knockout confirm an anti-sigma factor (ChrR) and putative metalloregulatory-like protein (MerR) are responsible for the genome-wide regulation to BL response in V. cholerae. Collectively, these results demonstrate that MerR-like proteins, in addition to ChrR, are required for V. cholerae to mount an appropriate response against photo-oxidative stress induced by BL. Outside its natural host, V. cholerae can survive for extended periods in natural aquatic environments. Therefore, the regulation of light response for V. cholerae may be a critical cellular process for its survival in these environments.

2017-01-26 | GSE79911 | GEO

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