Dataset Information

Analysis of proteome dynamics in early-stage sporulation-inhibited variants of Parageobacillus thermoglucosidasius

ABSTRACT: Parageobacillus thermoglucosidasius is a thermophilic Gram-positive that is currently on the rise as a potential platform for sustainable chemical production. One major issue with P. thermoglucosidasius as a host is its natural ability to sporulate in response to nutrient starvation, as endospore formation is generally undesired in industrial fermentations. It is therefore of interest to instead employ a sporulation-supressed variant of P. thermoglucosidasius. However, as a non-model species, the complex regulatory system that governs sporulation in P. thermoglucosidasius is currently poorly characterised. This study presents a characterisation and proteomic analysis of the P. thermoglucosidasius wildtype strain alongside four early-stage sporulation-inhibited variants. The genes targeted for sporulation-inhibition were Spo0A, Spo0B, Spo0F, and SigF, based on their regulatory roles in the sporulation pathway of Bacillus subtilis. Proteomics data was collected from four different growth stages and the resulting expression profiles were compared. This led to the identification of a co-expression module consisting of approximately 200 genes, which through enrichment was confirmed to be closely linked to the P. thermoglucosidasius sporulation pathway. The results of the analysis have been made publicly available.

INSTRUMENT(S):

ORGANISM(S): Parageobacillus Thermoglucosidasius Nbrc 107763

SUBMITTER: Oihane Irazoki

LAB HEAD: Alex Toftgaard Nielsen

PROVIDER: PXD069977 | Pride | 2025-12-22

REPOSITORIES: Pride

ACCESS DATA

Dataset's files

Source:

Items per page:

1 - 5 of 99

Publications

Analysis of Proteome Dynamics in Early-Stage Sporulation-Inhibited Variants of Parageobacillus thermoglucosidasius.

Millgaard Marie M Irazoki Oihane O Mol Viviënne V Pogrebnyakov Ivan I Nielsen Alex Toftgaard AT

International journal of molecular sciences 20251204 23

Parageobacillus thermoglucosidasius is a thermophilic Gram-positive that is emerging as a platform for bioproduction. However, one potential limitation of P. thermoglucosidasius is its natural tendency to sporulate. As a non-model organism, the complex regulatory system that governs sporulation in P. thermoglucosidasius remains poorly characterised. To advance current understanding, this study presents a comparative characterisation and proteomic analysis of the P. thermo ...[more]

PMID: 41373879

Similar Datasets

Project description:Clostridium acetobutylicum, the endospore-forming anaerobe best known for its ABE (acetone-butanol-ethanol) fermentation, has received renewed attention recently for the biological production of butanol, both for bulk chemical production and as a potential biofuel. With butanol production in mind, most of the recent research on C. acetobutylicum has focused on increasing butanol production, tolerance to butanol, and optimizing it for various substrates. However, an equally important trait, though less understood, is its sporulation program, which it coupled to solvent formation. The model organism for endospore formation is Bacillus subtilis, but significant physiological, metabolic, and genomic differences exist between the two organisms. Despite these differences, the major sporulation-related transcription/sigma factors are conserved between the two species. These transcription/sigma factors are activated in a cascade manner such that Spo0A becomes active first, followed by M-OM-^CF, then M-OM-^CE, then M-OM-^CG, and finally M-OM-^CK. The goal of this study is to determine the regulons of 4 of these transcription/sigma factors (Spo0A, M-OM-^CF, M-OM-^CE, and M-OM-^CG) and compare them to those in B. subtilis. To accomplish this goal, individual mutant strains were created for Spo0A, M-OM-^CF, M-OM-^CE, and M-OM-^CG, in which the transcription/sigma factor is silenced. These mutants were then compared transcriptionally using microarrays to determine the regulon of each transcription/sigma factor. To help avoid false positives, comparisons were made between strains in which the downstream transcription/sigma factor is silenced (e.g., for the Spo0A regulon, the Spo0A mutant was compared against the M-OM-^CF mutant and the M-OM-^CE mutant, since they are both upregulated by Spo0A) rather than just the WT. For each regulon, 4 timepoints were taken, since it is very difficult to synchronize sporulation in C. acetobutylicum cultures, and dye-swaps were prepared for each timepoint. Four transcription/sigma factor regulons were investigated: Spo0A, M-OM-^CF, M-OM-^CE, and M-OM-^CG. For Spo0A, two comparison were made: Spo0A mutant vs M-OM-^CF mutant and Spo0A mutant vs M-OM-^CE mutant. For M-OM-^CF, two comparison were also made: M-OM-^CF mutant vs M-OM-^CE mutant and M-OM-^CF mutant vs M-OM-^CG mutant. Finally for M-OM-^CE and M-OM-^CG, only one comparison for each was made: M-OM-^CE mutant vs M-OM-^CG mutant and M-OM-^CG mutant vs wild-type, respectively. For each comparison, 4 timepoints were analyzed, and dye-swaps were prepared for each timepoint comparison. Timepoints were chosen based on when each transcription/sigma factor was expected to be active, based on a previous study [Jones, SW, et al. Genome Biol. 2008;9(7):R114.].

			Action	DRS
	Experimental_design.xlsx	Xlsx
	PROT146_abundances_proteins_LFQ_PD2.4.xlsx	Xlsx
	Prot146.mzML	Mzml
	Prot146.mzTab	Mztab
	Prot146_1.raw	Raw

Dataset Information

Analysis of proteome dynamics in early-stage sporulation-inhibited variants of Parageobacillus thermoglucosidasius

Dataset's files

Publications

Analysis of Proteome Dynamics in Early-Stage Sporulation-Inhibited Variants of <i>Parageobacillus thermoglucosidasius</i>.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets

Dataset Information

Analysis of proteome dynamics in early-stage sporulation-inhibited variants of Parageobacillus thermoglucosidasius

Dataset's files

Publications

Analysis of Proteome Dynamics in Early-Stage Sporulation-Inhibited Variants of &lt;i&gt;Parageobacillus thermoglucosidasius&lt;/i&gt;.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets

Analysis of Proteome Dynamics in Early-Stage Sporulation-Inhibited Variants of <i>Parageobacillus thermoglucosidasius</i>.