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Shotgun proteomic cartography of Bacillus pumilus spores

ABSTRACT: The proteome of Bacillus pumilus spores was established by shotgun proteomics to better characterize this biological material used as indicator to assess the effectiveness of decontamination procedures.

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Bacillus Pumilus

TISSUE(S): Spore

SUBMITTER: Jean ARMENGAUD

LAB HEAD: Jean Armengaud

PROVIDER: PXD044078 | Pride | 2023-12-21

REPOSITORIES: Pride

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Dataset's files

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			Action	DRS
	Bacillus_pumilus_2021-03-24.fasta	Fasta
	F221223.dat	Other
	F221223_p0.05.mzid.gz	Mzid
	F221225.dat	Other
	F221225_p0.05.mzid.gz	Mzid

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Publications

Proteome of spores from biological indicators in sterilization processes: Bacillus pumilus and Bacillus atrophaeus.

Dorbani Imed I Armengaud Jean J Carlin Frédéric F Duport Catherine C

Proteomics 20231207 9

Bacillus atrophaeus and Bacillus pumilus spores are widely used as biological indicators to assess the effectiveness of decontamination procedures. Spores are intricate, multi-layered cellular structures primarily composed of proteins, which significantly contribute to their extreme resistance. Therefore, conducting a comprehensive proteome analysis of spores is crucial to identify the specific proteins conferring spore resistance. Here, we employed a high-throughput shotgun proteomic approach t ...[more]

PMID: 38059874

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Shotgun proteomic cartography of Bacillus atrophaeus spores

Project description:The proteome of Bacillus atrophaeus spores was established by shotgun proteomics to better characterize this biological material used as indicator to assess the effectiveness of decontamination procedures.

2023-12-21 | PXD044079 | Pride

Analysis of the messenger RNAs in Spores of Bacillus subtilis

Project description:Using RNA-seq, we cataloged messenger RNAs in highly purified dormant Bacillus subtilis spores prepared either on plates or in liquid. Almost all of the most abundant spore mRNAs are encoded by genes expressed only in the developing spore late in sporulation under control of the forespore-specific RNA polymerase sigma factor, sG. Given the levels of the ~40 most abundant mRNAs in dormant spores, we calculated the great majority of the low abundance mRNAs can be present in only a small fraction of the spore population.

2019-04-01 | GSE125530 | GEO

Transcription profiling of Bacillus subtilis germinating spores with altered FtsZ levels

Project description:Transcriptional effects of altered FtsZ-level in germinating spores of Bacillus subtilis.

2009-05-16 | E-MEXP-1929 | biostudies-arrayexpress

Membrane proteome of Bacillus spores

Project description:We carried out in-depth proteomic characterization of membrane proteins of Bacillus dormant and germinated spores. In addition, we relatively quantified the protein changes after spore germination. This project is aimed to identify common and species-specific germination related membrane proteins.

2019-02-12 | PXD002136 | Pride

Bacillus subtilis spores, PROTECT experiment, Space-exposed and Mars-exposed vs. Earth-control

Project description:Because of their ubiquity and resistance to spacecraft decontamination, bacterial spores are considered likely potential forward contaminants on robotic missions to Mars. Thus it is important to understand their global responses to long-term exposure to space or Mars environments. As part of the PROTECT experiment, spores of B. subtilis 168 were exposed to real space conditions and to simulated martian conditions for 559 days in low Earth orbit mounted on the EXPOSE-E exposure platform outside the European Columbus module on the International Space Station. Upon return, spores were germinated, total RNA extracted and fluorescently labeled, and used to probe a custom Bacillus subtilis microarray to identify genes preferentially activated or repressed relative to ground control spores. Increased transcript levels were detected for a number of stress-related regulons responding to DNA damage (SOS response, SPβ prophage induction), protein damage (CtsR/Clp system), oxidative stress (PerR regulon) and cell envelope stress (SigV regulon). Spores exposed to space demonstrated a much broader and more severe stress response than spores exposed to simulated Mars conditions. The results are discussed in the context of planetary protection for a hypothetical journey of potential forward contaminant spores from Earth to Mars and their subsequent residence on Mars.

2012-06-01 | GSE37124 | GEO

Levels and Characteristics of mRNAs in Dormant Spores of Firmicute Species

Project description:Spores of Bacillales and Clostridiales species contain 100s of different mRNAs, and their major function in Bacillus subtilis is to provide ribonucleotides for new RNA synthesis when spores germinate. In new work, RNA was isolated from spores of five Bacillales and one Clostridioides species and relative spore mRNA levels were determined by RNA-seq. Determination of RNA levels in single spores allowed calculation of RNA nt/spore, and assuming mRNA is 3% of spore RNA allowed calculation that only ~6% of spore mRNAs were present at ≥ 1/spore. Bacillus subtilis, Bacillus atrophaeus and Clostridioides difficile spores had 49, 42 and 51 mRNAs at >1/spore, respectively. Numbers of mRNAs at ≥1/spore were ~10 to 50% higher in Geobacillus stearothermophilus and Bacillus thuringiensis Al Hakam spores, respectively, and ~ 4-fold higher in Bacillus megaterium spores. Notably, in all species: i) many of the 60 most abundant spore mRNAs were transcribed by RNA polymerase with forespore-specific s factors; ii) some to many of the most abundant spore mRNAs encoded orthologs of those encoded by abundant B. subtilis spore mRNAs and proteins present in dormant spores ; and iii) some spore mRNAs were likely transcribed in the mother cell compartment of the sporulating cell. Indeed , analysis of the coverage of RNA-seq reads on mRNAs from all six species suggested that abundant spore mRNAs were at least somewhat fragmented. This observation was confirmed by RT-qPCR analysis of three abundant mRNAs each from B. subtilis and C. difficile spores. These data add to a growing body of evidence indicating that the great majority of mRNAs in spores of Firmicutes are degradation and function as a ribonucleotide depot for new RNA synthesis when spores germinate.

2021-05-05 | GSE173854 | GEO

Bacillus subtilis spores, PROTECT experiment, Space-exposed and Mars-exposed vs. Earth-control

2012-05-31 | E-GEOD-37124 | biostudies-arrayexpress

Differential Immunomodulatory Impact of Bacillus subtilis Spores and Vegetative Cells on a Human Colonic Epithelial Cell-Line Model

Project description:Bacillus subtilis strain R0179 is found in a number of commercially-available probiotic products. The mechanism(s) of action of B. subtilis in the host are poorly understood, but may involve the immune system response to switching between spore and vegetative forms. In order to help elucidate this mechanism, we challenged the immune response of a human colonic epithelial HT-29 cell model for 3 hours with the two forms of B. subtilis. The cellular response was evaluated using a custom-designed two-color expression microarray targeting 1354 genes of the human immune system. The data obtained in this study indicates that the vegetative cell form of the strain moderately induced TH1 pro-inflammatory response through IL-17C and TNF signaling pathway while down-regulating anti-inflammatory response genes IL-10 and TGFÎ²-2. The spore form had an opposite effect and acted primarily by down-regulating the Mitogen-Activated Protein Kinase pathway. The overall design consisted of 2 samples of HT-29 cells treated with Bacillus subtilis R0179 spores or vegetative states versus unchallenged HT-29 cells. A minimum of four dye-swap hybridizations (4 biological replicates) were performed for each of the 2 samples analyzed. Unchallenged HT-29 cells were controls and challenged HT-29 cells with Bacillus subtilis R0179 spores or vegetative were treated samples.

2014-08-14 | E-GEOD-60412 | biostudies-arrayexpress

Dynamics of Germinosome Formation Interactions between GerD and Germinant Receptor Subunits in Bacillus cereus Spores

Project description:Spores of the bacterium Bacillus cereus can cause disease in humans due to contamination of raw materials for food manufacturing. These dormant, resistant spores can survive for years in the environment, but can germinate and grow when their surroundings become suitable, and spore germination proteins play an important role in the decision to germinate. The dataset attached describes the quantification of the fluorophores of the expressed fusion proteins by label free mass spectrometry.

2022-01-24 | MSV000088726 | MassIVE

Identification of CdnL, a putative transcriptional regulator involved in repair and outgrowth of heat-damaged Bacillus cereus spores

Project description:Heat-treated spores show delayed and slower germination and outgrowth compared to untreated spores presumably due to spore damage repair. This study was performed to identify genes possibly involved in spore damage repair in B. cereus. In this study we compared the transcriptomic profiles of untreated and heat-treated spores during germination and outgrowth in BHI at 30C.

2016-02-02 | GSE73043 | GEO

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