GEO DataSets

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

Organism:

Mycolicibacterium smegmatis MC2 155; Mycobacterium tuberculosis H37Rv

Type:

Expression profiling by array

Platforms:

GPL14591 GPL14580

2 Samples

Download data: GPR

(Submitter supplied) Transcriptional profile of Mycobacterium tuberculosis in in vitro acid-nitrosative multistress, comparing untreated control cells and bacteria under multi-stress.

Organism:

Mycobacterium tuberculosis H37Rv

Type:

Expression profiling by array

Platform:

GPL14591

1 Sample

Download data: GPR

(Submitter supplied) Transcriptional profile of Mycobacterium smegmatis in in vitro acid-nitrosative multistress, comparing untreated control cells and bacteria under multi-stress.

Organism:

Mycolicibacterium smegmatis MC2 155; Mycobacterium tuberculosis H37Rv

Type:

Expression profiling by array

Platforms:

GPL14591 GPL14580

2 Samples

Download data: GPR

(Submitter supplied) In this study, we analyze the role of Lsr2 as a transcription factor in M. smegmatis, a saprophytic bacterium whose natural habitat (soil and water) substantially differs from that of the obligatory mycobacterial pathogens. In summary, the combined RNA-seq and ChIP-seq data revealed that Lsr2 controls gene expression either directly by binding their promoter regions or indirectly through DNA loop formation.

Organism:

Mycolicibacterium smegmatis

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL29596

4 Samples

Download data: NARROWPEAK

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

Organism:

Mycobacterium tuberculosis H37Rv; Mycobacterium avium subsp. paratuberculosis; Mycolicibacterium smegmatis MC2 155; Mycobacterium avium subsp. paratuberculosis K-10

Type:

Expression profiling by array

Platforms:

GPL14590 GPL14591 GPL14580

3 Samples

Download data: GPR

(Submitter supplied) Transcriptional profile of chemically generated Mycobacterium tuberculosis cell wall deficient forms, comparing untreated control cells (bacillary forms) and cell wall deficient cells.

Organism:

Mycobacterium tuberculosis H37Rv

Type:

Expression profiling by array

Platform:

GPL14591

1 Sample

Download data: GPR

(Submitter supplied) Transcriptional profile of chemically generated Mycobacterium avium subspecies paratuberculosis cell wall deficient forms, comparing untreated control cells (bacillary forms) and cell wall deficient cells.

Organism:

Mycobacterium avium subsp. paratuberculosis; Mycobacterium avium subsp. paratuberculosis K-10

Type:

Expression profiling by array

Platform:

GPL14590

1 Sample

Download data: GPR

(Submitter supplied) Transcriptional profile of chemically generated Mycobacterium smegmatis cell wall deficient forms, comparing untreated control cells (bacillary forms) and cell wall deficient cells.

Organism:

Mycolicibacterium smegmatis MC2 155

Type:

Expression profiling by array

Platform:

GPL14580

1 Sample

Download data: GPR

(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; Mycobacterium tuberculosis H37Rv

Type:

Expression profiling by array

Platform:

GPL19545

3 Samples

Download data: GPR

(Submitter supplied) Comparing transciptional profile of a M. smegmatis mc2155 ΔsigF strain and wild type (control) in in vitro culture at two time points (exponential phase and stationary phase) for identification of SigF-dependent genes.

Organism:

Mycolicibacterium smegmatis

Type:

Expression profiling by array

Platform:

GPL5862

8 Samples

Download data: TXT

(Submitter supplied) A handful of nucleoid-associated proteins (NAPs) regulate the vast majority of genes in a bacterial cell. H-NS, the Histone-like Nucleoid-Structuring protein, is one of these NAPs and protects Escherichia coli from foreign gene expression. Though lacking any sequence similarity with E. coli H-NS, Rv3852 was annotated as the H-NS ortholog in Mycobacterium tuberculosis, as it resembles human histone H1. more...

Organism:

Mycobacterium tuberculosis H37Rv

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17280

4 Samples

Download data: TXT

(Submitter supplied) Total transcriptome analyses were carried out to investigate changes in transcript patterns in the Mycobacterium smegmatis wild type strain SMR5 due to nitrogen starvation and to expand the knowledge about the role of the two transcriptional regulators of nitrogen metabolism, namely GlnR and AmtR, in these processes. A first experiment revealed enhanced transcript levels of 284 genes and reduced transcripts of 231 genes in the wild type under nitrogen starvation compared to nitrogen surplus. more...

Organism:

Mycolicibacterium smegmatis; Mycolicibacterium smegmatis MC2 155

Type:

Expression profiling by array

Platform:

GPL13735

23 Samples

Download data: TXT

(Submitter supplied) In this approach, total transcript of the Mycobacterium smegmatis wild type was compared to a amtR deletion strain under nitrogen surplus. With this experiment, putative target genes of AmtR, a regulator protein of nitrogen metabolism, were identified. Two biological replicates were analyzed.

Organism:

Mycolicibacterium smegmatis; Mycolicibacterium smegmatis MC2 155

Type:

Expression profiling by array

Platform:

GPL13735

4 Samples

Download data: TXT

(Submitter supplied) In this approach, total transcript of the Mycobacterium smegmatis wild type SMR5 and a glnR deletion strain was compared under nitrogen starvation. Transcript levels of 6 genes were enhanced, 125 genes reduced in the mutant strain. This experiment confirmed GlnR as the global regulator of nitrogen metabolism in M. smegmatis. Two biological replicates were analyzed.

Organism:

Mycolicibacterium smegmatis MC2 155; Mycolicibacterium smegmatis

Type:

Expression profiling by array

Platform:

GPL13735

4 Samples

Download data: TXT

(Submitter supplied) In this approach, total transcript of the Mycobacterium smegmatis wild type SMR5 was compared under nitrogen surplus and starvation. This resulted in the change of transcript patterns of more than 500 genes due to nitrogen or general starvation response. Genes involved in uptake and assimilation of ammonium and alternative nitrogen sources showed enhanced transcript levels, genes involved in cell growth, protein biosynthesis etc showed reduced transcript levels. more...

Organism:

Mycolicibacterium smegmatis MC2 155; Mycolicibacterium smegmatis

Type:

Expression profiling by array

Platform:

GPL13735

4 Samples

Download data: TXT

(Submitter supplied) In this approach, total transcript of a Mycobacterium smegmatis amtR deletion strain was compared under nitrogen surplus and starvation. This is a control experiment to the comparison of wild type and amtR deletion strain, resulting nitrogen-related genes which are not AmtR-controlled. Two biological replicates were analyzed.

Organism:

Mycolicibacterium smegmatis MC2 155; Mycolicibacterium smegmatis

Type:

Expression profiling by array

Platform:

GPL13735

3 Samples

Download data: TXT

(Submitter supplied) In this approach, total transcript of the Mycobacterium smegmatis wild type was compared to a amtR deletion strain under nitrogen starvation. With this experiment, putative target genes of AmtR, a regulator protein of nitrogen metabolism, were identified. Two biological replicates were analyzed.

Organism:

Mycolicibacterium smegmatis MC2 155; Mycolicibacterium smegmatis

Type:

Expression profiling by array

Platform:

GPL13735

4 Samples

Download data: TXT

(Submitter supplied) In this approach, changes in total transcript of a glnR deletion strain of Mycobacterium smegmatis due to nitrogen starvation were monitored. This is a control experiment for the comparison of wild type and glnR deletion strain resulting in putative nitrogen-related genes which are not controlled by GlnR.

Organism:

Mycolicibacterium smegmatis MC2 155; Mycolicibacterium smegmatis

Type:

Expression profiling by array

Platform:

GPL13735

4 Samples

Download data: TXT

(Submitter supplied) Mycobacterium tuberculosis (Mtb) assimilates cholesterol during chronic infection, and its in vitro growth in presence of cholesterol requires Mycofactocin (MFT) biosynthesis genes, although the basis of this requirement is unclear. MFT belongs to the class of ribosomally synthesized and post-translationally modified peptides conserved in many Actinobacteria, and its biological function and structure requires further confirmation. more...

Organism:

Mycobacterium tuberculosis variant bovis; Mycobacterium tuberculosis H37Rv; Mycolicibacterium smegmatis

Type:

Expression profiling by array

Platforms:

GPL25686 GPL25708

30 Samples

Download data: TXT

(Submitter supplied) Mycobacterium tuberculosis has the ability to persist within the host in a clinically latent stage. One important condition believed to contribute to latency is reduced access to oxygen but the response of M. tuberculosis to hypoxia is partially characterized. Virtually all dormant models against tuberculosis the vaccine tested in animals used laboratory strains H37Rv or Erdman strains. But major outbreaks of TB occur with the strains that have widely different genotypes and phenotypes compare to H37Rv. more...

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by array

Platform:

GPL18388

9 Samples

Download data: TXT