Transcriptomics

Dataset Information

30

Gene expression timecourse in clock rescue strains


ABSTRACT: The goal of this experiment was to determine whether global circadian gene expression oscillation depends strictly on the presence of rpaA, even when the KaiABC post-translational oscillator is oscillating with a circadian period. Strains deleted for rpaA lack functional KaiABC post-translational oscillators because their reduced kaiBC expression level leads to a non-permissive Kai protein stoichiometry. We restored KaiABC post-translational oscillator function in a ΔrpaA ΔkaiBC strain by ectopic expression of kaiBC from the Ptrc promoter and used microarrays to measure the timecourse of gene expression globally. As a control, we used microarrays to measure the gene expression timecourse in a ΔkaiBC Ptrc::kaiBC strain, in which gene expression was expected to be rhythmic (Y Murayama et al, J. Bac. 198, 2008), as it is in the pure wild-type strain. Cultures were grown in a flasks bubbled with 1% CO2 in air, initially in the absence of IPTG. Cultures were treated with two consecutive light/dark cycles and released into continuous light at time T = 0, at which time IPTG was added to a final concentration of 6 µM. Cultures were samples every 4 hours for 44 h between T = 24 h and T = 68 h, inclusive. Gene expression at each timepoint was compared to the time-averaged gene expression (determined using a pool of equal mass quantities of RNA from all timepoints) using a two-color Agilent microarray.

ORGANISM(S): Synechococcus elongatus PCC 7942  

SUBMITTER: Anna M Puszynska  Joseph S Markson   Joseph Scott Markson   Erin K O'Shea   Joseph R Piechura    

PROVIDER: E-GEOD-50920 | ArrayExpress| 2014-06-03

SECONDARY ACCESSION(S): GSE50920PRJNA219376

REPOSITORIES: GEO, ArrayExpress

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