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Transcriptome analysis of a model cyanobacterium Synechococcus elongatus PCC7942 under salt stress and protein synthesis-inhibiting stress conditions

ABSTRACT: Transcriptome analysis of a model cyanobacterium Synechococcus elongatus PCC7942 under salt stress and protein synthesis-inhibiting stress conditions

PROVIDER: PRJNA935948 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR23498686.fastq.gz	Fastqsanger.gz
	SRR23498687.fastq.gz	Fastqsanger.gz
	SRR23498688.fastq.gz	Fastqsanger.gz
	SRR23498689.fastq.gz	Fastqsanger.gz
	SRR23498690.fastq.gz	Fastqsanger.gz

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Transcriptome analysis of a model cyanobacterium Synechococcus elongatus PCC7942 under salt stress and protein synthesis-inhibiting stress conditions

Project description:Here, we treated the model cyanobacterium Synechococcus elongatus PCC7942 with streptomycin, which selectively binds to bacterial ribosomes, at a concentration of 50 µg/mL and performed transcriptome analysis using RNA sequencing. In addition to antibiotic stress, we treated salt stress (0.4 M NaCl) and performed RNA sequencing analysis.

2023-05-17 | GSE225426 | GEO

Analysis of gene expression in the rel- + relA+ and rel- + relAE335Q strains of Synechococcus elongatus PCC7942 with RNA sequencing during constant light conditions

Project description:We investigated the role of the basal levels of ppGpp in Synechococcus elongatus PCC7942 in constant light. We performed RNA-seq experiments using the rel- + relA+ and rel- + relAE335Q strains and show that basal levels of ppGpp are required for regulation of global transcription in light.

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Analysis of gene expression in wild type and the rel- strain of Synechococcus elongatus PCC7942 - RNA sequencing during exposure to darkness (cells grown in light/dark conditions)

Project description:We investigated the role of ppGpp in Synechococcus elongatus PCC7942 in light/dark conditions. We performed RNA-seq experiments using wild type and the rel- strain at dusk and during exposure to 12 h of darkness. We show that ppGpp is required for correct response to darkness.

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Analysis of gene expression in the wild type and rel- strains of Synechococcus elongatus PCC7942 with RNA sequencing during constant light conditions

Project description:Rel is an enzyme involved in the metabolism of ppGpp. We investigated the role of ppGpp in Synechococcus elongatus PCC7942 in constant light and after exposure to darkness. We performed RNA-seq experiments using the rel- strain and wild type and show that ppGpp is required for regulation of global transcription in light and in darkness.

2017-12-12 | GSE103462 | GEO

Gene expression in the wild type + relA+ and wild type + relAE335Q strains of Synechococcus elongatus PCC7942 after induction of expression of RelA+ or RelAE335Q with theophylline at subjective dusk - RNA sequencing during constant light conditions

Project description:We investigated the role of ppGpp in Synechococcus elongatus PCC7942 in constant light. We performed RNA-seq experiments using wild type + relA+ and wild type + relAE335Q strains after induction with theophylline starting at subjective dusk. We show that ppGpp induction inhibits global transcription in light.

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Analysis of gene expression in the rel- relA+ and the rel- relAE335Q strain of Synechococcus elongatus PCC7942 - RNA sequencing during exposure to darkness (cells grown in light/dark conditions)

Project description:We investigated the role of basal ppGpp levels in Synechococcus elongatus PCC7942 in adaptation to darkness. We performed RNA-seq experiments using the rel- relA+ and the rel- relAE335Q strain at dusk and during exposure to 12 h of darkness. We show that basal ppGpp levels is not sufficient for restoration of appropriate transcriptional shutdown in response to darkness.

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Analysis of RNA polymerase stalling index in wild type and the rel- strain of Synechococcus elongatus PCC7942 - chromatin immunoprecipitation followed by sequencing during exposure to darkness (cells grown in light/dark conditions)

Project description:We investigated the role of ppGpp in Synechococcus elongatus PCC7942 in light/dark conditions. We performed ChIP-seq experiments using wild type and the rel- strain at dusk, during exposure to 12 h of darkness and at dawn. We show that the RNA polymerase pausing index is globally lower in the rel- strain.

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Transcriptomic and phenomic investigations reveal elements in biofilm repression and formation in the cyanobacterium Synechococcus elongatus PCC 7942 [RNA-seq]

Project description:Biofilm formation by photosynthetic organisms is a complex behavior that serves multiple functions in the environment. Biofilm formation in the unicellular cyanobacterium Synechococcus elongatus PCC 7942 is regulated in part by a set of small secreted proteins that promotes biofilm formation and a self-suppression mechanism that prevents their expression. Little is known about the regulatory and structural components of the biofilms in PCC 7942, or response to the suppressor signal(s). We performed transcriptomics (RNA-Seq) and phenomics (RB-TnSeq) screens that identified four genes involved in biofilm formation and regulation, more than 25 additional candidates that may impact biofilm formation, and revealed the transcriptomic adaptation to the biofilm state. In so doing, we compared the effectiveness of these two approaches for gene discovery.

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Project description:Synechococcus elongatus PCC7942 wild type, the IdiB-free S.elongatus mutant K10 (Michel et al. 1999; Microbiology, 145: page 1473-1484) and the IdiC-merodiploid mutant MuD (Pietsch et al. 2007, Photosynth. Res. 94: page 91-108) were cultivated in BG11 medium, continuously bubbled with 2%CO2-enriched air and illuminated with fluorescent bulbs with a light intensity of 100 ﾵmol photons m-s s-1. After an inoculation of a cell density of OD750nm 0.3 the cells were cultivated with iron-sufficient or iron-deficient BG11 medium. The growth time for wild type was 24h and 72h. The two mutants were cultivated for 72h only. Possible differences in the RNA amount after the cultivation with or without iron were examined using the microarray technique. .

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