Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Production, composition, and proteomes of Helicobacter pylori outer membrane vesicles

ABSTRACT: OMVs were isolated from H. pylori grown during pH 5.3 conditions with the addition of urea to supplement bacterial growth, or during pH 7.2 conditions with or without the addition of urea. Growth of H. pylori during acidic conditions reduced the quantity and size of OMVs produced. Additionally, acidic growth conditions resulted in the production of OMVs with increased packaging of protein, DNA, and RNA compared to OMVs produced during neutral growth conditions. A global data-independent acquisition proteomic analysis comparing the proteomes of OMVs to their parent bacteria demonstrated significant differences in the enrichment of proteins within bacteria and OMVs, supporting that differing conditions of growth impacts OMV composition. We also identified select and marginal differences in the enrichment of proteins within OMVs produced during different pH growth conditions. Overall, our findings reveal that growth of H. pylori during altered pH growth conditions is a factor that determines OMV proteomes, which may affect their subsequent functions in the host.

INSTRUMENT(S): Q Exactive HF-X

ORGANISM(S): Helicobacter Pylori (ncbitaxon:210)

SUBMITTER: David Greening

PROVIDER: MSV000092295 | MassIVE | Wed Jun 28 02:02:00 BST 2023

REPOSITORIES: MassIVE

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Effects of acid stress on gene transcription of L.lactis strain G423

Project description:Bacteria that live in the acidic environment face number of growth-related challenges from the intracellular pH changes. In order to survive under acidic environment, Lactic acid bacteria must employ multiple genes and proteins to regulate the relative pathways.

2018-11-20 | GSE107136 | GEO

Effects of acid stress on gene transcription of L.lactis strain F44

2018-11-20 | GSE107135 | GEO

The proteome of Fibrobacter succinogenes S85 outer membrane vesicles

Project description:Here, we illustrate the proteomic composition and hydrolytic capacity of outer membrane vesicles (OMVs) produced by F. succinogenes during growth on Avicel cellulose and show that the OMVs are equipped with a highly versatile polysaccharide-degrading machinery. Proteomic assessment identified an enrichment of acidic proteins as well as carbohydrate-active enzymes of varying putative functions. Further, we show that the OMVs contain a membrane-bound multiprotein complex containing four proteins.

2017-06-30 | PXD005442 | Pride

Transcriptomic analysis of Mtb Erdman, MtbΔvirS and MtbΔvirSComplement upon acidic stress of pH4.5

Project description:Since VirS was shown to be upregulated in acidic conditions and MtbΔvirS displayed defect in growth at pH4.5, we performed microarray at pH 6.6 and pH 4.5 to study the role of VirS in regulating gene expression at acidic pH.

2019-05-23 | GSE118508 | GEO

Transcriptional profiling of M. tuberculosis CDC1551 wild type vs aprABC null, aprBC null, aprC null and phoP transposon mutants.

Project description:Following phagocytosis by macrophages, Mycobacterium tuberculosis (Mtb) senses the intracellular environment and remodels its gene expression for growth in the phagosome. Abramovitch et.al. in this current study identified an Acid and Phagosome Regulated (aprABC) locus that is unique to the Mtb complex and whose gene expression is induced during growth in acidic environments in vitro and in macrophages. The authors propose a model where phoP senses the acidic pH of the phagosome and induces aprABC expression to fine-tune processes unique for intracellular adaptation of Mtb complex bacteria. This study uses microarray analyses to compare transcriptional responses of wild type Mycobacterium tuberculosis (CDC1551) to aprABC locus deletion mutants and the phoP transposon mutant. The bacteria were grown to early log phase in vented T-75 standing flasks containing 12 mL of pH 7.0 7H9 OADC medium. Transcript levels of the wild type bacteria were compared to the following mutants: aprABC null, aprBC null, aprC null, phoP::Tn mutant.

2011-07-09 | E-GEOD-22854 | biostudies-arrayexpress

Transcriptional profiling of M. tuberculosis CDC1551 wild type vs aprABC null, aprBC null, aprC null and phoP transposon mutants.

2011-07-09 | GSE22854 | GEO

Identification of HP0244 regulon at different pH conditions

Project description:Transcriptional profiling of Helicobacter pylori comparing 26695 wild-type strain and a HP0244-deficient mutant 26695/âHP0244::km treated at three different pH conditions (pH 7.4, pH 4.5 without urea, or pH 2.5 with 30 mM urea) for 30 min to define the HP0244 acid-responsive regulon Keywords: Genetic modification and stress response Wild type vs HP0244-deficient mutant at three different pH conditions (pH7.4, pH4.5 without urea, and pH2.5 with 30 mM urea). Three biological replicates for each pH condition: 3 wild type and 3 mutant, independently grown, pH treated, and harvested.

2010-05-05 | E-GEOD-12900 | biostudies-arrayexpress

Identification of HP0244 regulon at different pH conditions

Project description:Transcriptional profiling of Helicobacter pylori comparing 26695 wild-type strain and a HP0244-deficient mutant 26695/∆HP0244::km treated at three different pH conditions (pH 7.4, pH 4.5 without urea, or pH 2.5 with 30 mM urea) for 30 min to define the HP0244 acid-responsive regulon Keywords: Genetic modification and stress response

2009-09-14 | GSE12900 | GEO

Effect of pH on Cadmium Toxicity in Escherichia coli

Project description:Metals at high concentrations can exert toxic effects on microorganisms. It has been widely reported that lowering environmental pH reduces effects of cadmium toxicity in bacteria. Understanding the effects of pH-mediated cadmium toxicity on bacteria would be useful for minimizing cadmium toxicity in the environment and gaining insight into the interactions between organic and inorganic components of life. Growth curve analysis confirmed that cadmium was less toxic to Escherichia coli at pH 5 than at pH 7 in M9 minimal salts medium. To better understand the cellular mechanisms by which lowering pH decreases cadmium toxicity, we used DNA microarrays to characterize global gene expression patterns in E. coli in response to cadmium exposure at moderately acidic (5) and neutral (7) values of pH. Higher expression of several stress response genes including hdeA, otsA, and yjbJ at pH 5 after only 5 minutes was observed and may suggest that acidic pH more rapidly induces genes that confer cadmium resistance. Genes involved in transport were more highly expressed at pH 7 than at pH 5 in the presence of cadmium. Of the genes that showed an interaction between pH and cadmium effects, 46% encoded hypothetical proteins, which may have novel functions involved in mitigating cadmium toxicity.

2008-08-21 | GSE12373 | GEO

microarray analysis in SREBP2-knockdown cells under low pH (pH 6,8) culture conditions

Project description:The conditions of the tumor microenvironment, such as hypoxia and nutrient starvation, play critical roles in cancer progression. However, the role of acidic extracellular pH in cancer progression is not studied as extensively as that of hypoxia. Here, we show that extracellular acidic pH (pH 6.8) triggered activation of sterol regulatory element-binding protein 2 (SREBP2) by stimulating nuclear translocation and promoter binding to its targets along with intracellular acidification. Interestingly, inhibition of SREBP2, but not SREBP1, suppressed the upregulation of low pH-induced cholesterol biosynthesis-related genes. Moreover, acyl-CoA synthetase short-chain family member 2 (ACSS2), a direct SREBP2 target, provided a growth advantage to cancer cells under acidic pH. Furthermore, acidic pH-responsive SREBP2 target genes were associated with reduced overall survival of cancer patients. Thus, our findings show that SREBP2 is a key transcriptional regulator of metabolic genes and progression of cancer cells, partly in response to extracellular acidification.

2017-01-25 | GSE93980 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data