Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Unravelling osmotololerance in Escherichia coli using a pseudosexual model system

ABSTRACT: Transcriptional analysis of mutants evolved for tolerance to excess sodium chloride (up to 0.75 M)

ORGANISM(S): Escherichia coli BW25113 Escherichia coli O157:H7 str. EDL933 Escherichia coli Escherichia coli O157:H7 str. Sakai Escherichia coli CFT073 Escherichia coli str. K-12 substr. MG1655

PROVIDER: GSE51611 | GEO | 2014/04/16

SECONDARY ACCESSION(S): PRJNA224098

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Unravelling osmotololerance in Escherichia coli using a pseudosexual model system

Project description:Transcriptional analysis of mutants evolved for tolerance to excess sodium chloride (up to 0.75 M) Mutant compared to parental reference during sustained exponential growth in 0.55 M NaCl, two biological replicates per sample, reference is unevolved parent strain for each mutant

2014-04-16 | E-GEOD-51611 | biostudies-arrayexpress

Insights on Osmotic Tolerance Mechanisms in Escherichia coli Gained from an rpoC Mutation

Project description:Transcriptional analysis of rpoC K370_A396dup mutants for tolerance to sodium chloride

2017-08-31 | GSE94342 | GEO

Enterohemorrhagic Escherichia coli: impact of short chain fatty acid treatment on virulence gene expression

2016-03-23 | GSE79509 | GEO

Escherichia coli

Project description:Adapted tolerance to Benzalkonium chloride in E. coli K12

| PRJNA99035 | ENA

Enterohemorrhagic Escherichia coli: impact of short chain fatty acid treatment on virulence gene expression

Project description:transcriptome analysis of enterohemorrhagic E. coli treated with either one of two different concentrations of short chain fatty acid mixes or the corresponding sodium chloride osmolarity control four conditions: 30mM SCFA mix; 30mM NaCl control; 172mM SCFA mix: 172 mM NaCl control. Biological replicates: 4 per group

2016-03-23 | E-GEOD-79509 | biostudies-arrayexpress

Unravelling adaptive mechanisms to H2O2 in Candida glabrata using laboratory adaptive evolution

Project description:Transcriptome analysis of C. glabrata mutants evolved for improved tolerance to H2O2.

2018-08-31 | GSE102502 | GEO

Overlapping and unique responses of E. coli to adverse conditions

Project description:In the present study we have determined the global gene expression and biomolecular composition in an Escherichia coli model strain exposed to ten adverse conditions (sodium chloride, ethanol, glycerol, two acids (hydrochloric acid and acetic acid), sodium hydroxide, heat (46°C) and cold (15°C) as well as ethidium bromide and the disinfectant benzalkonium chloride). The large variation in responses and few common genes illustrates the adaptation potential of E. coli and its ability to survive and colonize a wide range of environments. Keywords: gene expression study, stress response

2009-06-03 | GSE11041 | GEO

Escherichia coli CFT073

Project description:Transcriptional responses of uropathogenic E. coli to stresses caused by sodium chloride or urea.

| PRJNA139195 | ENA

Proteomics Analysis of Evolved Escherichia coli Populations from Cyclic Antibiotic Treatment

Project description:When the survivors of antibiotic treatment (persisters) are repeatedly regrown and retreated with the same antibiotic for several cycles, the new population will soon adapt to the treatment condition and become tolerant to the drug. Here, we did evolution experiments on Escherichia coli populations by treating it with daily high concentration of different antibiotics (ampicillin, ciprofloxacin and apramycin) approximating clinical dosage, during the rapid growth-exponential phase. After a few cycles, we observed that the evolved populations exhibit extremely high tolerance to the drug, which are achieved by single point mutations in one of several genes. Interestingly, treatment with different antibiotics led to the selection of different mutants despite the shared persistence phenotype. Here, we applied spectral counting-based quantitative proteomics to study the proteome profile of the evolved E. coli populations from different cyclic antibiotic treatments.

2020-01-10 | PXD013326 | Pride

Evolution combined with genomic study elucidates genetic bases of isobutanol tolerance in Escherichia coli

Project description:BACKGROUND:Isobutanol is a promising next generation biofuel with demonstrated high yield microbial production, but the toxicity of this molecule reduces fermentation volumetric productivity and final titers. Organic solvent tolerance is a complex, multigenic phenotype that has been recalcitrant to rational engineering approaches. We apply experimental evolution followed by genome resequencing and a gene expression study to elucidate genetic bases on adaptation to exogenous isobutanol stress. RESULTS:The adaptations acquired in our evolved lineages exhibit antagonistic pleiotropy between minimal and rich medium, and appear to be specific to the effects of longer chain alcohols. By examining genotypic adaptation in multiple independent lineages, we find evidence of parallel evolution in hfq, mdh, acrAB, gatYZABCD, and rph genes. Many isobutanol tolerant lineages show reduced rpoS activity, perhaps related to mutations in hfq or acrAB. Consistent with the complex, multigenic nature of solvent tolerance, we observe adaptations in a diversity of cellular processes. Many adaptations appear to involve epistasis between different mutations, implying a rugged fitness landscape for isobutanol tolerance. We observe a trend of evolution targeting post-transcriptional regulation and high centrality nodes of biochemical networks. Collectively, the genotypic adaptations we observe suggest mechanisms of adaptation to isobutanol stress based on remodelling the cell envelope and surprisingly, stress response attenuation. CONCLUSIONS:We have discovered a set of genotypic adaptations that confer increased tolerance to exogenous isobutanol stress. Our results are immediately useful to efforts to engineer more isobutanol tolerant host strains of E. coli for isobutanol production. We suggest that rpoS and post-transcriptional regulators, such as hfq, RNA helicases, and sRNAs may be interesting mutagenesis targets for futurue global phenotype engineering.

2010-08-10 | GSE23526 | 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