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PatE in transcriptional activation of acid-resistance pathways of enterohemorrhagic Escherichia coli strain EDL933

ABSTRACT: An experiment to identify the downstream targets of PatE, a prophage encoded AraC-like transcriptional regulator, in transcriptional activation of acid-resistance pathways of enterohemorrhagic Escherichia coli strain EDL933 using deletion and complementation strains (Delta3 and Delta3_1, respectively).

ORGANISM(S): Escherichia coli O157:H7 str. EDL933 Escherichia coli

PROVIDER: GSE36922 | GEO | 2012/03/30

SECONDARY ACCESSION(S): PRJNA157307

REPOSITORIES: GEO

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PatE in transcriptional activation of acid-resistance pathways of enterohemorrhagic Escherichia coli strain EDL933

Project description:An experiment to identify the downstream targets of PatE, a prophage encoded AraC-like transcriptional regulator, in transcriptional activation of acid-resistance pathways of enterohemorrhagic Escherichia coli strain EDL933 using deletion and complementation strains (Delta3 and Delta3_1, respectively). Incomplete 2 factor with dye swaps. Genotype: 3 levels (wt, detla3, delta3_1) Bicarbonate: 2 levels (pos, neg) on wt only. 4 biological replicates, 2 in each dye orientation. Microarrays processed at Australian Genome Research Facility.

2012-03-29 | E-GEOD-36922 | biostudies-arrayexpress

Comparison of strand-specific transcriptomes of enterohemorrhagic Escherichia coli O157:H7 EDL933 (EHEC) under eleven different environmental conditions

Project description:Multiple infection sources for enterohemorrhagic Escherichia coli O157:H7 are known, including food of animal origin and produce. The ecology of this pathogen outside its human host is largely unknown. One third of its annotated genes still are hypothetical. To identify genetic determinants expressed under environmental factors, we applied strand-specific RNA-sequencing of strain E. coli EDL933 under 11 different biotic and abiotic conditions: LB medium at pH4, pH7, pH9, or at 15°C; LB with nitrite or trimethoprim-sulfamethoxazole; LB-agar surface, M9 minimal medium, spinach leaf juice, surface of living radish sprouts, and cattle feces. Of 5379 annotated genes, only 144 are transcriptionally completely inactive under all conditions. Of 1,771 hypothetical genes, 1,672 exhibit significant transcriptional signals under at least one condition. The pathogenicity island LEE showed highest transcriptional activity in LB medium, minimal medium, and after treatment with antibiotics. Unique sets of genes, including many hypothetical genes, are highly up regulated on radish sprouts, cattle feces, or in the presence of antibiotics. For instance, azoR is biotechnologically important, but its environmental function has been elusive. This gene is highly active on radish sprouts. Further, we observed induction of the shiga-toxin carrying phages by antibiotics and confirmed active biofilm related genes on radish sprouts, in cattle feces, and on agar plates. Thus, environmental transcriptomics uncovers hitherto unknown gene functions and regulatory patterns of Escherichia coli O157:H7.

2014-07-20 | GSE48199 | GEO

Comparison of strand-specific transcriptomes of enterohemorrhagic Escherichia coli O157:H7 EDL933 (EHEC) under eleven different environmental conditions

2014-07-20 | E-GEOD-48199 | biostudies-arrayexpress

Escherichia coli strain:EDL933

Project description:Escherichia coli EDL933 genetic variation

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Escherichia coli strain:Enterohemorrhagic

Project description:Escherichia coli strain:Enterohemorrhagic Genome sequencing

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Transcriptome analysis of Escherichia coli O157:H7 EDL933 during anaerobic growth using microarrays

Project description:The transcriptome of Escherichia coli K-12 has been widely studied over a variety of conditions for the past decade while such studies involving E. coli O157:H7, its pathogenic cousin, are just now being conducted. To better understand the impact of an anaerobic environment on E. coli O157:H7, global transcript levels of strain EDL933 cells grown aerobically were compared to cells grown anaerobically using microarrays.

2010-12-01 | GSE13301 | GEO

Transcriptome analysis of Escherichia coli O157:H7 EDL933 inside Acanthamoeba using microarrays

Project description:The transcriptome of Escherichia coli K-12 has been widely studied over a variety of conditions for the past decade while such studies involving E. coli O157:H7, its pathogenic cousin, are just now being conducted. To better understand the impact of intracellular life within a ruminant and environmental protozoan on E. coli O157:H7, global transcript levels of strain EDL933 cells inside Acanthamoeba were compared to cell grown in the protozoan media (ATCC PYG712) by microarray.

2010-12-01 | GSE16762 | GEO

Escherichia coli O157:H7 str. EDL933

Project description:PatE in transcriptional activation of acid-resistance pathways of enterohemorrhagic Escherichia coli strain EDL933

| PRJNA157307 | ENA

Transcriptome analysis of Escherichia coli O157:H7 EDL933 during heat shock using microarrays

Project description:The transcriptome of Escherichia coli K-12 has been widely studied over a variety of conditions for the past decade while such studies involving E. coli O157:H7, its pathogenic cousin, are just now being conducted. To better understand the impact of heat shock on E. coli O157:H7, global transcript levels of strain EDL933 cells shifted from 37°C to 50°C for 15 min were compared to cells left at 37°C using microarrays. Keywords: Stress Response

2009-04-01 | GSE11463 | GEO

Transcriptome analysis of Escherichia coli O157:H7 EDL933 during rumen fluid exposure using microarrays

Project description:The transcriptome of Escherichia coli K-12 has been widely studied over a variety of conditions for the past decade while such studies involving E. coli O157:H7, its pathogenic cousin, are just now being conducted. To better understand the impact of rumen fluid on E. coli O157:H7, global transcript levels of strain EDL933 cells resuspended in heat clarified rumen fluid for 15 min were compared to cells resuspended in fresh LB using microarrays.

2010-12-01 | GSE16747 | GEO

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