GEO DataSets

(Submitter supplied) The purpose of this study was to examine how Mtb integrates acidic pH and available carbon sources as environmental cues to regulate its metabolism and growth rate. RNA-seq transcriptional profiling of M. tuberculosis growing at acidic or neutral pH, in pyruvate or glycerol, was examined. These studies identified carbon source-dependent and -independent pH-dependent adaptations.

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17879

8 Samples

Download data: XLS

(Submitter supplied) The purpose of this study was to determine (i) the interplay between Mycobacterium tuberculosis response to acidic pH and cholesterol, two signals experienced concurrently by the bacterium during host colonization, and (ii) the role of the transcription factor Mce3R in regulation of this response.

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17879

16 Samples

Download data: CSV

(Submitter supplied) The purpose of this study was to examine how ethoxzolamide modulates gene M. tuberculosis gene expression at acidic pH. We observed that ethoxzolamide downregulates genes of the PhoPR regulon.

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17879

8 Samples

Download data: TXT

(Submitter supplied) 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. more...

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by array

Platform:

GPL10667

12 Samples

Download data

(Submitter supplied) The purpose of this study was to characterize the mechanism of action of the small molecule AC2P36

Organism:

Mycobacterium tuberculosis CDC1551

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20114

8 Samples

Download data: XLSX

(Submitter supplied) In-vivo Gene Signatures of Mycobacterium tuberculosis In C3HeB/FeJ Mice

Organism:

Mycobacterium tuberculosis CDC1551; Mycobacterium tuberculosis H37Rv

Type:

Expression profiling by array

Platform:

GPL18320

12 Samples

Download data: GPR

(Submitter supplied) Mycobacterium tuberculosis has specialised its metabolism to reside extra- and intra-cellularly in the human host. Nutrient availability and their concentrations can vary dramatically in these niches. Lactate is abundant during infection and it is an important signalling molecule regulating the immune response. In addition, lactate is abundant in blood, epithelial mucosa and a number of  other relevant compartments in the host. more...

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25317

18 Samples

Download data: TXT

(Submitter supplied) In Mycobacterium tuberculosis, the PhoPR two-component regulatory system controls production and secretion of proteins and lipid virulence effectors. Several mutations, present in phoR of Mycobacterium canettii relative to M. tuberculosis, impact the expression of the PhoP regulon and the pathogenicity of the strains. Here, we analyse by RNA-seq the expression profile of PhoP-regulated genes between the two M. more...

Organism:

Mycobacterium tuberculosis; Mycobacterium canetti

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL33344 GPL33345

12 Samples

Download data: TXT

(Submitter supplied) Since WhiB3 expression was shown to be maximally upregulated at pH 4.5 and MtbΔwhiB3 was shown to be defective in survival in Ph 4.5, we did microarray at pH 4.5 so as to study comprehensive role of WhiB3 in regulating gene expression at acidic Ph

Organism:

Mycobacterium tuberculosis H37Rv

Type:

Expression profiling by array

Platform:

GPL16972

7 Samples

Download data: TXT

(Submitter supplied) The purpose of this study was to identify genes that are differentially expressed upon rv0500A deletion, to reveal the impact of Rv0500A on global transcription in different environmental conditions.

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17879

12 Samples

Download data: CSV

(Submitter supplied) The purpose of this study was to identify genes that are differentially expressed upon rv0500A over-expression, to reveal the impact of Rv0500A on global transcription in different environmental conditions.

Organism:

Mycobacterium tuberculosis str. Erdman = ATCC 35801

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30359

8 Samples

Download data: CSV

(Submitter supplied) Mycobacterium tuberculosis (Mtb), the cause of the human pulmonary disease tuberculosis (TB), contributes to approximately 1.5 million deaths every year. Prior work has established that lipids serve as the primary carbon and energy source for Mtb in vivo and fulfill major roles in Mtb physiology and pathogenesis. We conducted a high-throughput screen to identify novel inhibitors of Mtb survival in its host macrophage. more...

Organism:

Mycobacterium tuberculosis; Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL25317 GPL31944

21 Samples

Download data: TXT

(Submitter supplied) 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.

Organism:

Mycobacterium tuberculosis H37Rv; Mycobacterium tuberculosis str. Erdman = ATCC 35801

Type:

Expression profiling by array

Platform:

GPL21002

16 Samples

Download data: TXT, XLSX

(Submitter supplied) By genome comparison of 30 MTBC strains, we identified three SNPs affecting the phoPR genes of members of the animal and M. africanum lineages that were not seen in the M. tuberculosis sensu-stricto genomes. The genes phoPR encode a two component regulatory system that is known for its strong impact on virulence and immunogenicity of M. tuberculosis due to its key role in the regulation of genes involved in lipid synthesis and secretion of the 6 kDa secreted antigenic target ESAT-6. more...

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by array

Platform:

GPL18222

8 Samples

Download data: GPR, TXT

(Submitter supplied) In this study, AC2P20 was prioritized for continued study to test the hypothesis that it was targeting Mtb pathways associated with pH-driven adaptation. RNAseq transcriptional profiling studies showed AC2P20 modulates expression of genes associated with redox-homeostasis. Gene enrichment analysis revealed that the AC2P20 transcriptional profile had significant overlap with a previously characterized pH-selective inhibitor, AC2P36. more...

Organism:

Mycobacterium tuberculosis CDC1551

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20114

4 Samples

Download data: XLSX

(Submitter supplied) The capacity of Mycobacterium tuberculosis (Mtb) to sense, respond and adapt to variable and hostile environment within the host, has made it one of the most successful human pathogens. During different stages of infection, the bacillus is surrounding by a plethora of lipid rich molecules and current evidence points out the relevance of fatty acids during the Mtb infectious process. In this study, we have compared the transcriptional response of Mtb to hypoxia in cultures grown in both, a mix of even long-chain fatty acids and dextrose as carbon sources. more...

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18768

4 Samples

Download data: TXT

(Submitter supplied) Transcriptional response of Mycobacterium tuberculosis ΔlucA::hyg mutant and complemented strains vs. WT in resting murine bone marrow-derived macrophages was analyzed in this study. This data demonstrates that deletion of lucA leads to perturbed expression of the genes linked to fatty acid and cholesterol metabolism of the pathogen during macrophage infection. It supports an overall conclusion of the publication that LucA serves an important role in function of fatty acid and choletserol transporters.

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by array

Platform:

GPL19382

16 Samples

Download data: TXT

(Submitter supplied) The Mycobacterium tuberculosis genome encodes two complete high-affinity Pst phosphate-specific transporters. We previously demonstrated that a membrane-spanning component of one Pst system, PstA1, was essential both for M. tuberculosis virulence and for regulation of gene expression in response to external phosphate availability. To determine if the alternative Pst system is similarly required for virulence or gene regulation, we constructed a deletion of pstA2. more...

Organism:

Mycobacterium tuberculosis H37Rv; Mycobacterium tuberculosis CDC1551; Mycobacterium tuberculosis str. Erdman = ATCC 35801

Type:

Expression profiling by array

Platform:

GPL15398

6 Samples

Download data: GPR

(Submitter supplied) Mycobacterium tuberculosis persists in the lungs of mammalian hosts despite inducing an immune response dominated by the macrophage-activating cytokine interferon-gamma (IFN-gamma). We identified the M. tuberculosis phosphate uptake system component PstA1 as a factor required to resist IFN-gamma dependent immunity. A ∆pstA1 mutant was fully virulent in IFN-gamma-/- mice but was attenuated in mice lacking the IFN-gamma-inducible nitric oxide synthase (NOS2). more...

Organism:

Mycobacterium tuberculosis CDC1551; Mycobacterium tuberculosis H37Rv; Mycobacterium tuberculosis str. Erdman = ATCC 35801

Type:

Expression profiling by array

Platform:

GPL15398

11 Samples

Download data: GPR

(Submitter supplied) The human pathogen, Mycobacterium tuberculosis, develops a dormant infection, in which organisms survive within the body. We established a unique in vitro dormancy model based on the characterization of drug-resistance to INH and rifampin. M. tuberculosis cells were maintained in controlled and defined multiple stress conditions with low oxygen (5% dissolved oxygen tension), acid (pH 5.) along with glycerol-deprived medium conditions. more...

Organism:

Mycobacterium tuberculosis; Mycobacterium tuberculosis H37Rv

Type:

Expression profiling by array

Platforms:

GPL4388 GPL4369

75 Samples

Download data: TXT