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Comparison of the transcriptome, translatome and proteome response to diurnal oscillations in cyanobacteria

ABSTRACT: The aim of this study was to find the cause for the previously reported inconsistency between oscillating transcription and constant protein levels under day-night growth conditions in cyanobacteria. To determine whether translational regulation counteracts transcriptional changes, Synechocystis sp. PCC 6803 was cultivated in an artificial day-night setting and the level of transcription, translation and protein was measured across the genome at different time points using mRNA sequencing, ribosome profiling and quantitative proteomics. This proteomics data set represents one layer of a larger data set covering three 'omics' levels.

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Synechocystis Sp. Pcc 6803 Substr. Gt-i

TISSUE(S): Photosynthetic Cell

DISEASE(S): Disease Free

SUBMITTER: Michael Jahn

LAB HEAD: Paul Hudson

PROVIDER: PXD023812 | Pride | 2021-09-10

REPOSITORIES: Pride

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			Action	DRS
	20190103_A1_0.mzML	Mzml
	20190103_A1_0.mzid.gz	Mzid
	20190103_A1_0.raw	Raw
	20190103_A2_1.mzML	Mzml
	20190103_A2_1.mzid.gz	Mzid

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Publications

Slow Protein Turnover Explains Limited Protein-Level Response to Diurnal Transcriptional Oscillations in Cyanobacteria.

Karlsen Jan J Asplund-Samuelsson Johannes J Jahn Michael M Vitay Dóra D Hudson Elton P EP

Frontiers in microbiology 20210414

Metabolically engineered cyanobacteria have the potential to mitigate anthropogenic CO<sub>2</sub> emissions by converting CO<sub>2</sub> into renewable fuels and chemicals. Yet, better understanding of metabolic regulation in cyanobacteria is required to develop more productive strains that can make industrial scale-up economically feasible. The aim of this study was to find the cause for the previously reported inconsistency between oscillating transcription and constant protein levels under d ...[more]

PMID: 34194405

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Project description:The response of the model cyanobacterium Synechocystis sp. PCC6803 towards light and carbon limitation was systematically probed. To this end, Synechocystis sp. PCC6803 was cultivated in a photo-bioreactor driven in turbidostat-mode. The turbidostat is a continuous cultivation that enabled cells to adapt to a constant environment, leading to a stable and 'optimal' proteome for the respective condition. The major dataset in this project consisted of 5 different 'concentrations' for light and CO2. Changes in the proteome were determined using using liquid chromatography/mass spectrometry and it was found that carbon and light limitation induced gradual but broad responses in gene expression. With decreasing substrate concentration (increasing limitation) a decrease in growth rate and a gradually more severe response in the proteome was visible.

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