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Time-dependent global gene expression profile of RAW264.7 cells infected with Mycobacterium tuberculosis H37Rv (Mtb)

ABSTRACT: Transcriptional profiling of RAW264.7 cells infected with M. tuberculosis H37Rv at an MOI of 10 performed 4 and 24 hours post-infection.

ORGANISM(S): Mus musculus

PROVIDER: GSE64427 | GEO | 2014/12/23

SECONDARY ACCESSION(S): PRJNA271000

REPOSITORIES: GEO

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Time-dependent global gene expression profile of RAW264.7 cells infected with Mycobacterium tuberculosis H37Rv (Mtb)

Project description:Transcriptional profiling of RAW264.7 cells infected with M. tuberculosis H37Rv at an MOI of 10 performed 4 and 24 hours post-infection. RAW264.7 cells were infected with Mtb for 4 hours at an MOI of 10. Cells were washed and treated with gentamycin for 2 hours in order to remove adhered bacteria. Incubation was continued further for 4 and 24 hours followed by total RNA isolation. Total RNA was labelled with Agilent’s quick-Amp labelling kit (p/n: 5190-0444) to generate fluorescent complementary RNA by using T7 promoter based linear amplification. The control sample was labelled with Cy3 while the infected samples were labelled with Cy5 and hybridized to an Agilent oligo microarray kit.

2014-12-23 | E-GEOD-64427 | biostudies-arrayexpress

Mycobacterium tuberculosis H37Rv strains: Control vs. Lupulone

2011-08-30 | GSE31732 | GEO

Mycobacterium tuberculosis H37Rv strains: Control vs. Linezolid.

2011-10-11 | GSE32718 | GEO

Mycobacterium tuberculosis H37Rv strains: Control vs. Lupulone

Project description:Transcriptional profiling of Mycobacterium tuberculosis H37Rv strains comparing control DMSO treated strains with Lupulone treated strains. Goal was to determine the effects of Lupulone against Mycobacterium tuberculosis H37Rv strains. Two-condition experiment,control DMSO treated strains vs. Lupulone treated strains. Biological replicates: 2 control replicates, 2 Lupulone replicates.

2011-08-29 | E-GEOD-31732 | biostudies-arrayexpress

Mycobacterium tuberculosis H37Rv strains: Control vs. Linezolid.

Project description:Transcriptional profiling of Mycobacterium tuberculosis H37Rv strains comparing control DMSO treated strains with Linezolid treated strains. Goal was to determine the effects of Linezolid against Mycobacterium tuberculosis H37Rv strains. Two-condition experiment,control DMSO treated strains vs. Linezolid treated strains. Biological replicates: 2 control replicates, 2 Linezolid replicates.

2011-10-10 | E-GEOD-32718 | biostudies-arrayexpress

Transcriptional adaptation during starvation of Mycobacterium tuberculosis H37Rv ∆thrA

Project description:Time-course transcriptional profiling of the methionine auxotroph M. tuberculosis H37Rv ΔthrA during methionine starvation

2018-08-29 | GSE119105 | GEO

Arginine starvation response of Mycobacterium tuberculosis H37Rv ΔargB and ΔargF

Project description:Time -course transcriptional profiling of arginine starved Mycobacterium tuberculosis H37Rv ΔargB or ΔargF realtive to day 0 of starvation

2018-08-31 | GSE98821 | GEO

N-terminomic Analysis of Mycobacterium tuberculosis H37Rv

Project description:Mycobacterium tuberculosis (MTB) is a species of pathogenic bacteria and the causative agent of tuberculosis. The type strain H37Rv has been sequenced in 1998, while many previous studies found its predicted genes exhibit frequent errors, particularly in start codons. Here, we applied a TMPP [(N-Succinimidyloxycarbonylmethyl) tris (2,4,6-trimethoxyphenyl) phosphonium bromide] labeling combined with StageTip separating strategy to characterize the N-terminal peptides. We identified 2,598 annotated proteins, which 1,078 proteins were labeled by TMPP.

2021-06-18 | PXD026846 | iProX

Negative N-terminal enrichment strategy for Mycobacterium tuberculosis H37Rv

Project description:Tuberculosis (TB) is an infectious disease caused by Mycobacterium tuberculosis (MTB), which resulted millions of deaths worldwide every year. Although the type strain M. tuberculosis H37Rv was sequenced in 1998, annotation errors of encoding genes have emerged in an endless stream. The annotation errors are particularly severe in the N-terminal and start sites of the genes. In this study, we applied a dimethylation labeling combined with negative enrichment strategy on M. tuberculosis H37Rv to characterize the N-terminal start sites of its annotated encoding genes. Totally, 18,285 peptides and 1,641 N-terminal peptides were identified from all the 2,728 database annotated proteins. The negative N-terminal enrichment strategy allowed the re-annotation of 12 genes’ N-terminal and identification of 6 novel genes in H37Rv. The comparative genomics approach could provide possible help for the re-annotation of 403 mis-annotated genes from Mycobacteriaceae. In addition, we verified the novel gene Rv3409, which was identified with 3 high-confident peptides, with the synthetic peptides and the expression of recombinant protein Rv3409. Altogether, our study and findings contributed to a better understanding of the N-terminal annotation of H37Rv, which will contribute to further biological studies of other species of Mycobacteriaceae in the future.

2022-08-24 | PXD036249 | iProX

Mycobacterium tuberculosis H37Rv (WT) versus Mut1 and Comp1

Project description:Transcriptional profiling of H37Rv (WT), Mut1 and Comp1 bacteria under aerobic (Aer/0 day, i.e 0 D) and hypoxic conditions (Hyp/5 days standing culture, i.e 5 D). Mut1: H37Rv carrying devR gene disruption by in frame insertion of kanamycin resistance cassette and expressing DevRN-Kan fusion protein. Comp1: Mut1 complemented with low copy number plasmid carrying devR gene expressed from its native constitutive upstream promoter. (Reference: Majumdar et al., 2010, PLoS One 5:e9448). Goal is to compare transcriptional patterns of WT, Mut1 and Comp1 strains under aerobic (0 D) and hypoxic (5 D) conditions in vitro. Two color and One-color experiments,Organism: Mycobacterium tuberculosis, Genotypic Technology designed Custom Mycobacterium tuberculosis H37Rv Whole Genome 8x15k GE Microarray (AMADID-020181)

2011-09-30 | E-GEOD-30264 | biostudies-arrayexpress

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