GEO DataSets

(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 str. Erdman = ATCC 35801; Mycobacterium tuberculosis H37Rv

Type:

Expression profiling by array

Platform:

GPL21002

16 Samples

Download data: TXT, XLSX

(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) 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) In previously published work, we identified three Mycobacterium tuberculosis sigma (s) factor genes responding to heat shock (sigB, sigE and sigH ). Two of them (sigB and sigE ) also responded to SDS exposure. As these responses to stress suggested that the s factors encoded by these genes could be involved in pathogenicity, we are studying their role in physiology and virulence. In this work, we characterize a sigE mutant of M. more...

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by array

Platform:

GPL2787

15 Samples

Download data: TXT

(Submitter supplied) Increasing experimental evidence supports that Mycobacterium tuberculosis (Mtb) has evolved strategies to survive within the lysosomes from activated macrophages, which may represent a reservoir for persistent mycobacteria. To further our knowledge in Mtb response to the lysosomal environment, we profiled the global transcriptional activity of Mtb in a lysosomal in vitro exposure (LivE) model. At inhibitory conditions of lysosomal SF (iLivE), which did not kill but arrested mycobacterial replication thereby mimicking persistence, Mtb expresses a unique transcriptome, where genes involved in general stress response, metabolic reprogramming, cell wall remodeling, respiration, oxidative stress and dormancy response were found to be significantly modulated. more...

Organism:

Mycobacterium tuberculosis CDC1551

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20114

15 Samples

Download data: TXT

(Submitter supplied) A central feature of Mycobacterium tuberculosis (Mtb) pathogenesis is the ability of Mtb to survive within macrophages (MØ). Despite its critical importance our appreciation of the interplay between these two cells remains superficial. In this study we employed microarrays to conduct a stepwise dissection of Mtb-MØ interaction during the invasion of resting bone-marrow MØ. Contrary to many bacterial pathogens, engagement by MØ receptors without internalization did not alter Mtb gene expression. more...

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by array

Platform:

GPL5754

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) Transcriptional profiling of J7774A.1 cells treated with ManLAM ( 5ug/ml) for 6 h in the absence or presence of GW9662

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL13381

8 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling of Mycobacterium tuberculosis H37Ra::pTetR-yidC (Test) compared with Mycobacterium tuberculosis H37Ra::pTetR (Control) bacteria after 4 days of treatment with 50ng/ml ATc with shaking at 200rpm at 37°C.

Organism:

Mycobacterium tuberculosis H37Rv; Mycobacterium tuberculosis

Type:

Expression profiling by array

Platform:

GPL19545

3 Samples

Download data: GPR

(Submitter supplied) We have shown that elevated levels of wild-type M. tuberculosis PknK (PknK Mtb), but not phosphorylation-defective PknKMtb, in Mycobacterium smegmatis cause significant retardation of growth rate and altered colony morphology (Malhotra et al., 2012). LIX79 (WT PknK) and LIX80 (PknK K55M mutant) M. smegmatis strains will be grown in LB and induced with 0.2% acetamide for the induction of wild type or phosphorylation defective pknK gene. more...

Organism:

Mycolicibacterium smegmatis

Type:

Expression profiling by array

Platform:

GPL30399

8 Samples

Download data: TXT

(Submitter supplied) Like other bacterial species, Mycobacterium tuberculosis has multiple sigma (s) factors encoded in its genome. In previously published work, we and others have shown that mutations in some of these transcriptional activators render M. tuberculosis sensitive to various environmental stresses and, in some cases, cause attenuated virulence phenotypes. In this paper, we characterize a M. tuberculosis mutant lacking the ECF s factor sigma-H. more...

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by array

Platform:

GPL2787

15 Samples

Download data: TXT

(Submitter supplied) We have performred RNA-seq analysis of WT, ∆phoP and ∆sigH Mtb H37Rv under normal and redox (Diamide) stress, to investigate the role of PhoP and SigH in maintaning the redox homoeostasis of bacterium. RNA was extracted from exponentially growing mycobacterial cells in Middlebrook 7H9 media. Briefly, 25 ml of bacterial culture was grown to mid-log phase (OD600= 0.4 to 0.6) and combined with 40 ml of 5 M guanidinium thiocyanate solution containing 1% β-mercaptoethanol and 0.5% Tween 80. more...

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27661

12 Samples

Download data: TXT

(Submitter supplied) To survive a dynamic host environment, Mycobacterium tuberculosis must endure a series of challenges from reactive oxygen and nitrogen stress, to drastic shifts in oxygen availability. The mycobacterial Lsr2 protein has been implicated in reactive oxygen defense via direct protection of DNA. To examine the role of Lsr2 in pathogenesis and physiology of M. tuberculosis, we generated a strain deleted for lsr2. more...

Organism:

Mycobacterium tuberculosis H37Rv; Mycobacterium tuberculosis; Mycobacterium tuberculosis CDC1551

Type:

Expression profiling by array

Platform:

GPL15398

16 Samples

Download data: GPR

(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) We determine gene expression profile for the knockout of Rv3263 (DNA Methyltransferase) and compared to wildtype M. tuberculosis.

Organism:

Mycobacterium tuberculosis H37Rv

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17967

2 Samples

Download data: TXT, WIG

(Submitter supplied) DNA methylation affects gene expression in many organisms. To determine to effects of DNA methylation on gene expression in M. tuberculosis, we genetically deleted a predicted DNA methyltransferase encoded by Rv3263 and subjected wildtype, mutant, and complemented strains to global expression analysis.

Organism:

Mycobacterium tuberculosis H37Rv

Type:

Expression profiling by array

Platform:

GPL17082

9 Samples

Download data: CEL

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

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by array

Platform:

GPL4057

33 Samples

Download data: GPR

(Submitter supplied) During lung infection Mycobacterium tuberculosis (Mtb) resides in macrophages and subverts the bactericidal mechanisms of these professional phagocytes. In this work we have analyzed by DNA microarray technique the global transcription profile of Mtb infecting primary human macrophages in order to identify putative bacterial pathogenic factors that can be relevant for the intracellular survival of Mtb. more...

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by array

Platform:

GPL4057

11 Samples

Download data: GPR