GEO DataSets

(Submitter supplied) Antibiotic resistance (AR) is one of the greatest threats to global health and is associated with higher treatment costs, longer hospital stays, and increased mortality. Current gold standard antibiotic susceptibility tests (AST) are dependent on organism growth rates resulting in prolonged diagnostic answers for slow growing organisms. Changes in the cellular transcriptome can be instantaneous in the presence of stressors such as antibiotic pressure. more...

Organism:

Bacillus anthracis; Yersinia pestis

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL33703 GPL29781

48 Samples

Download data: XLSX

(Submitter supplied) In preliminary experiments, the absence of anthrose in our genetic Sterne knockout was found to decrease pagA expression in BHI broth containing glucose (Fig 5A and B). This contrasted with the large spike in pagA expression when the Sterne antC mutant is grown in protein rich HIB media which does not contain sugars. When exogenous anthrose was added during growth in BHI broth, expression from PpagA increased in both WT (purple line in Fig 5A) and antC Sterne (purple line in Fig 5B). more...

Organism:

Bacillus anthracis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL31186

12 Samples

Download data: XLSX

(Submitter supplied) Bacillus anthracis causes anthrax infections in mammals. Large-scale mortality resulting from the intentional release of B. anthracis spores represents a potential bioterrorism threat. Inhalational anthrax almost invariably proceeds to fatal systemic infection, characterized by massive bacteremia. A better understanding of host-pathogen interactions is urgently needed for effective treatment of this lethal disease. more...

Organism:

Bacillus anthracis; Bacillus anthracis str. Sterne

Type:

Expression profiling by array

Platform:

GPL23273

4 Samples

Download data: MEV

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Bacillus anthracis

Type:

Expression profiling by high throughput sequencing; Other

Platform:

GPL31186

20 Samples

Download data

(Submitter supplied) Formaldehyde cross-linking RNA immunoprecipitation coupled with illumina sequencing (fRIP-seq) was performed to pinpoint the direct RNA targets of KrrA using a FLAG-tagged KrrA construct that is driven by a constitutive promoter Plgt (pOS1.PlgtkrrA-FLAG).

Organism:

Bacillus anthracis

Type:

Expression profiling by high throughput sequencing; Other

Platform:

GPL31186

8 Samples

Download data: XLSX

(Submitter supplied) To uncover the effects of KrrA regulation on gene transcription and define the bacterial response imposed by this regulation, a transcriptomic study was carried out in which Bacillus anthracis krrA was compared to WT in two growth conditions: LB in the presence or absence of ‘205.

Organism:

Bacillus anthracis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL31186

12 Samples

Download data: XLSX

(Submitter supplied) AtxA, the master virulence regulator of Bacillus anthracis, regulates the expression of three toxins that are required for the pathogenicity of Bacillus anthracis. Recent transcriptome analyses also showed that AtxA affects a large number of genes on both chromosome and plasmid, suggesting its role as a global regulator. Its mechanism of gene regulation nor binding target in vivo was, however, not well understood. more...

Organism:

Bacillus anthracis

Type:

Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platforms:

GPL29782 GPL29781

37 Samples

Download data: TXT

(Submitter supplied) Purpose: Small regulatory RNAs (sRNAs) are short transcripts that base-pair to mRNA targets or interact with regulatory proteins. sRNA function has been extensively studied in Gram-negative bacteria; comparatively less is known about sRNAs in Firmicutes. Here we investigate two sRNAs encoded by the virulence plasmid pXO1 of Bacillus anthracis, the causative agent of anthrax. We designated the sRNAs as as “XrrA” and “XrrB” (for pXO1-encoded regulatory RNA). more...

Organism:

Bacillus anthracis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28686

12 Samples

Download data: BIGWIG, TXT

(Submitter supplied) Purpose: Bacillus anthracis produces three regulators, AtxA, AcpA and AcpB, which control virulence gene transcription and belong to an emerging class of regulators termed ‘PCVRs’ (Phosphoenolpyruvate-dependent phosphotransferase regulation Domain-Containing Virulence Regulators). AtxA, named for its control of toxin gene expression, is the master virulence regulator and archetype PCVR. AcpA and AcpB are less well studied. more...

Organism:

Bacillus anthracis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28687

15 Samples

Download data: TDF, TXT

(Submitter supplied) Bacillus anthracis is a spore-forming bacterium that causes devastating infections and has been used as a bioterror agent. This pathogen can survive hostile environments through the signaling activity of two-component systems, which couple environmental sensing with transcriptional activation to initiate a coordinated response to stress. In this work, we describe the identification of a two-component system, EdsRS, which mediates the B. more...

Organism:

Bacillus anthracis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27932

12 Samples

Download data: XLSX

(Submitter supplied) Spx, a member of the ArsC (arsenate reductase) protein family, is highly conserved in Gram-positive bacteria, where it interacts with RNA polymerase to activate transcription in response to toxic oxidants.  In Bacillus anthracis, resistance to oxidative stress requires the activity of two paralogous forms of Spx, SpxA1 and SpxA2.   Suppressor mutations were identified in spxA1 mutant cells that conferred resistance to hydrogen peroxide. more...

Organism:

Bacillus anthracis

Type:

Expression profiling by array

Platform:

GPL10189

6 Samples

Download data: MEV

(Submitter supplied) The effect of factors that affect toxin production i.e. glucose, bicarbonate and growth temperature was investigated by transcriptional profilling using microarrays.

Organism:

Bacillus anthracis; Bacillus anthracis str. 'Ames Ancestor'

Type:

Expression profiling by array

Platform:

GPL16701

12 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling of E. faecalis E99 WT and an isogenic ΔperA strain grown in THB + 1% glucose. Pathogenic E. faecalis are enriched for a pathogenicity island (PAI). This 150-kb island harbors a number of well characterized virulence genes plus a number of determinants of unknown function including one encoding a transcriptional regulator, designated PerA. In this work, we show that PerA coordinately regulates both metabolic and virulence genes, and influences the platelet binding ability of E. more...

Organism:

Escherichia coli O157:H7 str. EDL933; Bacteroides thetaiotaomicron VPI-5482; Escherichia coli CFT073; Enterococcus faecalis V583; Escherichia coli O157:H7 str. Sakai; Salmonella enterica subsp. enterica serovar Typhimurium str. LT2; Enterococcus faecalis; Bacillus anthracis; Escherichia coli str. K-12 substr. MG1655

Type:

Expression profiling by array

Platform:

GPL6702

12 Samples

Download data: CEL, TXT

(Submitter supplied) Although genome-wide transcriptional analysis has been used for many years to study bacterial gene expression, many aspects of the bacterial transcriptome remain undefined. A prominent example is antisense transcription, which has been observed in a number of bacteria, though the function of antisense transcripts, and their distribution across the bacterial genome, is still unclear. Single-stranded RNA-seq results revealed a widespread and non-random pattern of antisense transcription covering more than two-thirds of the B. more...

Organism:

Bacillus anthracis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15353

4 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling of E. faecalis V583 during intracellular survival compared to V583 grown to mid-log phase (OD 600 = 0.05) in THB + 1% glucose. In this study we report the complete intracellular E. faecalis V583 transcriptome following infection of RAW264.7 macrophages. During intracellular survival, approximately 45% of the V583 genome was differentially regulated including numerous genes involved in the oxidative stress, heat shock and SOS responses. more...

Organism:

Escherichia coli O157:H7 str. Sakai; Bacillus anthracis; Bacteroides thetaiotaomicron VPI-5482; Escherichia coli O157:H7 str. EDL933; Enterococcus faecalis V583; Escherichia coli str. K-12 substr. MG1655; Salmonella enterica subsp. enterica serovar Typhimurium str. LT2; Escherichia coli CFT073

Type:

Expression profiling by array

Platform:

GPL6702

8 Samples

Download data: CEL, TXT

(Submitter supplied) Transcription profiling of wild type E. coli MG1655, intestine-adapted E. coli MG1655star, and E. coli MG1655 flhD mutant grown on glucose, mannose, and mucus. We previously isolated a spontaneous mutant of E. coli K-12, strain MG1655, following passage through the streptomycin-treated mouse intestine, which has colonization traits superior to the wild-type parent strain (Leatham, et. al., 2005, Infect Immun 73:8039-49) The intestine-adapted strain (E. more...

Organism:

Bacillus anthracis; Bacteroides thetaiotaomicron VPI-5482; Salmonella enterica subsp. enterica serovar Typhimurium str. LT2; Escherichia coli O157:H7 str. Sakai; Escherichia coli CFT073; Escherichia coli O157:H7 str. EDL933; Enterococcus faecalis V583; Escherichia coli str. K-12 substr. MG1655

Type:

Expression profiling by array

Platform:

GPL6702

13 Samples

Download data: CEL, TXT

(Submitter supplied) To establish the SinR regulon in B. anthracis, gene expression of the fully virulent Ames strain and the isogenic sinR-null strains were compared using expression microarray analysis.

Organism:

Bacillus anthracis

Type:

Expression profiling by array

Platform:

GPL10581

12 Samples

Download data: CEL

(Submitter supplied) The goal of this study is the discovery of (a) meaningful phylogenomic relationships among members of this B. cereus/B. anthracis group, and (b) reliable gene-phenotype associations, e.g. recognition of links between genomic traits and the ability of certain strains to cause various forms of disease. We also tried to elucidate genome evolution aspects that may lead to the emergence of variants that are capable (or have the potential) of causing anthrax-like disease. more...

Organism:

Bacillus anthracis str. Sterne; Bacillus cereus; Bacillus anthracis; Bacillus cereus G9842

Type:

Genome variation profiling by array

Platforms:

GPL9098 GPL9095

315 Samples

Download data: MEV

(Submitter supplied) The goal of this project was to screen soil samples for bacteria that may harbor B. anthracis virulence-associated genes (VAGs). There is currently no information about the prevalence of these types of organisms in the environment. Due to increased environmental monitoring of select agents by programs such as BioWatch and biodetection systems in place at the United States Post Offices and Department of State locations, it has become critical that we not only better understand the natural range of B. more...

Organism:

Bacillus anthracis; Bacillus cereus; Bacillus anthracis str. Sterne

Type:

Genome variation profiling by array

Platforms:

GPL9098 GPL9095

202 Samples

Download data: MEV

(Submitter supplied) The aim of the study was to carry out a CGH study utilizing a set of 39 diverse Bacillus isolates. Thirty four B. cereus and five B. anthracis strains and isolates were chosen so as to represent different lineages based on previous characterizations, including MLEE and MLST (Helgason, Okstad et al. 2000; Helgason, Tourasse et al. 2004). They represent the spectrum of B. cereus phenotypic diversity by including soil, dairy and periodontal isolates in addition to virulent B. more...

Organism:

Bacillus cereus; Bacillus anthracis

Type:

Genome variation profiling by array

Platform:

GPL9206

78 Samples

Download data: MEV