Analysis of gene expression in the wild type and rel- strains of Synechococcus elongatus PCC7942 with RNA sequencing during constant light conditions
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ABSTRACT: 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.
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.
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.
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.
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.
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.
Project description: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: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.
Project description:To uncover the variation in protein abundances during 48 hours under light and dark cycles (12:12-hours), we used quantitative proteomics, with TMT 6-plex isobaric labeling. We queried the S. elongatus proteome at ten different time points spanning a single 24 hour period, leading to 20 time points over the full 48 hour period.
Project description:Analysis of gene expression in the rel- + relA+ and rel- + relAE335Q strains of Synechococcus elongatus PCC7942 with RNA sequencing during constant light conditions