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Items: 1 to 20 of 372

1.

Transcriptional portrait of M. bovis BCGΔBCG1419c during in vitro planktonic culture

(Submitter supplied) We have developed the vaccine candidate BCGΔBCG1419c, by deletion of BCG1419c in BCG Pasteur ATCC 35734, which improved control of tuberculosis (TB) in preclinical models. Here, we compared the transcriptomes of BCG and BCGΔBCG1419c during planktonic growth.
Organism:
Mycobacterium tuberculosis variant bovis BCG
Type:
Expression profiling by high throughput sequencing
Platform:
GPL34031
6 Samples
Download data: TXT
Series
Accession:
GSE251760
ID:
200251760
2.

Spermine-induced DNA methylation change in human macrophages

(Submitter supplied) Polyamines, crucial molecules involved in cell proliferation and growth, play a pivotal role in cancer development and progression. Within the tumor microenvironment, macrophages, key components of the immune system, exhibit a complex relationship with polyamines. Evidence suggests that polyamines can modulate macrophage polarization, influencing their functional phenotypes. Here, we detected the gene DNA methylation changes in spermine-stimulated human macrophages isolated from PBMCs and TAMs.
Organism:
Yersinia enterocolitica; Toxoplasma gondii; Salmonella enterica subsp. enterica serovar Typhimurium; Mammarenavirus choriomeningitidis; Orthohantavirus puumalaense; Leptospira interrogans; Rickettsia typhi; Mycobacterium tuberculosis variant bovis; Mycobacterium tuberculosis; Mycobacterium tuberculosis variant microti; Mycobacterium canetti; Orthohantavirus seoulense; Campylobacter jejuni; Francisella tularensis subsp. novicida; Yersinia pestis; Staphylococcus aureus; Mycobacterium avium subsp. paratuberculosis; Cowpox virus; Escherichia coli O157:H7; Francisella tularensis subsp. mediasiatica; Paslahepevirus balayani; Yersinia pseudotuberculosis; Rickettsia prowazekii; Bartonella quintana; Mycobacterium avium; Homo sapiens; Streptobacillus moniliformis; Bartonella henselae; Francisella tularensis subsp. tularensis; Francisella tularensis subsp. holarctica
Type:
Methylation profiling by array
Platform:
GPL21445
4 Samples
Download data: IDAT, TXT
Series
Accession:
GSE267014
ID:
200267014
3.

Impact of the vitamin B12 on the transcriptional regulation of the Mycobacterium tuberculosis Complex

(Submitter supplied) The transcriptome in response to vitamin B12 was interrogated in three M. tuberculosis Complex species: M. tuberculosis H37Rv, M. tuberculosis GC1237, and M. bovis AF2122/97. Examination of the core B12 transcriptome resulted in a robust differential regulation of 7 genes in the three species analysed
Organism:
Mycobacterium tuberculosis variant bovis; Mycobacterium tuberculosis
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL26660 GPL17879
12 Samples
Download data: WIG
Series
Accession:
GSE232691
ID:
200232691
4.

Mycobacterial DNA binding protein 1 (MDP1) mediates gene regulation in Mycobacterium tuberculosis variant Bacillus Calmette-Guerin

(Submitter supplied) To investigate the role of MDP1 in global transcription regulation, we established MDP1 conditional knockdown BCG using CRISPR/dCas9 system. Transcriptome profiling was then performed using data obtained from RNA-seq of two BCG MDP1 mutants compared to the vector control at three growth time points.
Organism:
Mycobacterium tuberculosis variant bovis
Type:
Expression profiling by high throughput sequencing
Platform:
GPL33005
27 Samples
Download data: CSV
Series
Accession:
GSE222247
ID:
200222247
5.

The lack of the TetR-like repressor gene BCG_2177c (Rv2160A) may help mycobacteria overcome intracellular redox stress and survive longer inside macrophages when surrounded by a lipid environment

(Submitter supplied) We analyzed the genes expressed, or the transcriptome, of bacilli Mycobacterium bovis BCG Pasteur (wtBCG) and a mutant strain obtained by transposition of the gene BCG_ BCG_2177c (mtBCG), cultured in the presence of a lipid mixture (fatty acids/cholesterol) as main carbon source. Using RNAseq we identified a group of genes that provides novel insight regarding the metabolic pathways and transcriptional regulation, and pathogenic features that were influenced by BCG_2177c gene, a TetR-like repressor, during the lipid metabolism in slow-growing mycobacteria that could be extrapolated to other members of the MTBC.
Organism:
Mycobacterium tuberculosis variant bovis BCG
Type:
Expression profiling by high throughput sequencing
Platform:
GPL29423
8 Samples
Download data: TXT
Series
Accession:
GSE175579
ID:
200175579
6.

Construction of lux-based promoter-reporter platforms in Mycobacterium bovis BCG for screening of drug repurposing small-molecule compounds as new anti-tuberculosis drugs

(Submitter supplied) This study aimed to construct a rapid screening system to identify novel anti-TB agents from a library of small-molecule compounds.
Organism:
Mycobacterium tuberculosis variant bovis BCG
Type:
Expression profiling by high throughput sequencing
Platform:
GPL31041
17 Samples
Download data: TXT
Series
Accession:
GSE190433
ID:
200190433
7.

Oxidative damage and delayed replication allow viable Mycobacterium tuberculosis to go undetected II

(Submitter supplied) “Viable but non-culturable” (VBNC) states pose challenges for environmental and clinical microbiology, but their biological mechanisms remain obscure. Mycobacterium tuberculosis (Mtb), the leading cause of death from infection until COVID-19, affords a striking example. Mtb can enter into a “differentially detectable” (DD) state associated with phenotypic antimicrobial resistance in which Mtb cells are viable but undetectable as colony-forming units. more...
Organism:
Mycobacterium tuberculosis variant bovis
Type:
Expression profiling by high throughput sequencing
Platform:
GPL26660
13 Samples
Download data: TXT
Series
Accession:
GSE180658
ID:
200180658
8.

Mycobacterium tuberculosis hijacks host primary transcripts

(Submitter supplied) Intracellular pathogens requires efficient mechanism adapting the environment inside of host cells. Here we show that the transcriptomes of the cellular mycobacterium tuberculosis and of those released from the infected macrophage cells contain a large fraction of human transcripts by RNA polymerase II. Uptake of host pre-mRNAs is coincident with the co-localization of M. tuberculosis with nuclear membrane. more...
Organism:
Mycobacterium tuberculosis variant bovis BCG str. Tokyo 172; Homo sapiens; Mycobacterium tuberculosis M1458
Type:
Expression profiling by high throughput sequencing
4 related Platforms
22 Samples
Download data: XLSX
Series
Accession:
GSE100897
ID:
200100897
9.

Genome-wide maps of gene transcription level of hypoxic Mycobacterium bovis BCG with different c-di-GMP levels

(Submitter supplied) Objective of the study is to find out how c-di-GMP regulate bacteria under hypoxic conditions and new c-di-GMP receptors.
Organism:
Mycobacterium tuberculosis variant bovis BCG
Type:
Expression profiling by high throughput sequencing
Platform:
GPL29423
6 Samples
Download data: XLSX
Series
Accession:
GSE185900
ID:
200185900
10.

Next Generation Sequencing Facilitates Quantitative Analysis of Zinc treated Wild-Type or CmtR-deleted strains of Mycobacterium bovis BCG Transcriptomes

(Submitter supplied) The goal of this study aims to quantitatively compare the gene expression difference in wild-type or cmtR-deleted strains of Mycobacterium bovis BCG with and without excess zinc treatment at the transcriptome level and find the underlying mechanism how could excess zinc inhibit mycobacterial growth and its relation with transcription factor CmtR.
Organism:
Mycobacterium tuberculosis variant bovis BCG
Type:
Expression profiling by high throughput sequencing
Platform:
GPL30387
12 Samples
Download data: TXT
Series
Accession:
GSE179966
ID:
200179966
11.

RNA-Seq to investigate gene expression in M. bovis BCG subjected to darG depletion or DNA damage induction with mitomycin D

(Submitter supplied) M. bovis BCG bacilli were subjected to silencing of the darG antitoxin gene by CRISPRI, leading to unregulated activity of the toxin DarT. This results in ADP-ribosylation of specific motifs in genomic DNA, and induction of the DNA damage response. The goal of this study is to compare gene expression of M. bovis BCG in untreated, DarG-depleted, and mitomycin treated samples.
Organism:
Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
Type:
Expression profiling by high throughput sequencing
Platform:
GPL30131
9 Samples
Download data: TXT
Series
Accession:
GSE174526
ID:
200174526
12.

The involvement of Mycobacterium type III-A CRISPR-Cas system in oxidative stress and intracellular fitness

(Submitter supplied) Previous studies suggest that type I and type II CRISPR-Cas systems were employed to evade host immunity by targeting interference of bacteria’s own genes. Although Mycobacterium bovis (M. bovis) and Mycobacterium tuberculosis (M. tuberculosis) possess integrated type III-A CRISPR-Cas system, its role in mycobacteria remains obscure. Here, we observed that seven cas genes (csm2~6, cas10, cas6) were significantly upregulated under oxidative stress treatment. more...
Organism:
Mycobacterium tuberculosis variant bovis
Type:
Expression profiling by high throughput sequencing
Platform:
GPL29695
6 Samples
Download data: CSV
Series
Accession:
GSE166137
ID:
200166137
13.

Transcriptional portrait of M. bovis BCG during in vitro biofilm production shows genes differentially expressed during intercellular aggregation and substrate attachment.

(Submitter supplied) By RNA-seq analysis, we monitored the early steps of biofilm production in BCG, to distinguish intercellular aggregation from attachment to a surface, and found a number of genes being differentially expressed at these stages.
Organism:
Mycobacterium tuberculosis variant bovis BCG
Type:
Expression profiling by high throughput sequencing
Platform:
GPL28494
6 Samples
Download data: TXT
Series
Accession:
GSE150030
ID:
200150030
14.

Amino acid metabolism regulated by DNA Methylation in Mycobacterium bovis BCG str. Tokyo 172 induced by vitamins

(Submitter supplied) Vitamins are organic compounds and essential nutrients required by host organism. Recent studies have shown that vitamin B1(VB1) and vitamin C (Vc) could inhibit Mycobacterium tuberculosis growth. However, the precise role of VB1 and Vc in M.tuberculosis are still not well understand. Therefore, in this study, the transcriptional, metabolic and methylation profiles of VB1 and VC treated Mycobacterium. more...
Organism:
Mycobacterium tuberculosis variant bovis
Type:
Expression profiling by high throughput sequencing
Platform:
GPL27865
6 Samples
Download data: TXT
Series
Accession:
GSE141513
ID:
200141513
15.

The prominent transcriptional and metabolites changes of Mycobacterium bovis BCG str. Tokyo 172 induced by vitamin B1

(Submitter supplied) Vitamin B1 (VB1) is a key dietary nutrient and crucial cofactor, which exhibits a series of regulatory functions on cellular processes and the activation of the immune system. To date, the precise effect of VB1 on Mycobacterium tuberculosis has not been fully described. In the present study, the direct influence of VB1 treatment on M. bovis BCG was determined using RNA-sequencing and LC/MS. The selection of this strain was used due to its common physiological features with M.tuberculosis. more...
Organism:
Mycobacterium tuberculosis variant bovis
Type:
Expression profiling by high throughput sequencing
Platform:
GPL25040
6 Samples
Download data: TXT
Series
Accession:
GSE114949
ID:
200114949
16.

Mycofactocin is associated with ethanol metabolism in Mycobacteria

(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:
Mycolicibacterium smegmatis; Mycobacterium tuberculosis variant bovis; Mycobacterium tuberculosis H37Rv
Type:
Expression profiling by array
Platforms:
GPL25686 GPL25708
30 Samples
Download data: TXT
Series
Accession:
GSE121398
ID:
200121398
17.

The BCG Delta BCG1419c vaccine candidate reduces lung pathology, IL-6, TNFa, and IL-10 during chronic TB infection

(Submitter supplied) Comparison of transcriptional differences (RNA-seq) between BCG delta1419c and wild-type BCG that might explain the pathological differences in vaccination studies.
Organism:
Mycobacterium tuberculosis variant bovis BCG
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24951
8 Samples
Download data: TXT
Series
Accession:
GSE113888
ID:
200113888
18.

Comparison of the responses of Mycobacterium tuberculosis and Mycobacterium bovis to nutrient starvation

(Submitter supplied) Transcriptional profiling of Mycobacterium tuberculosis H37Rv and Mycobacterium bovis Ravenel before (i.e., log-phase control) and at 24h and 96h after nutrient starvation. The transcriptional profile of the two strains were compared at log phase, and after 24h and 96h of starvation. In addition, the response of each strain to starvation was examined after 24h and 96h of starvation.
Organism:
Mycobacterium tuberculosis variant bovis; Mycobacterium tuberculosis
Type:
Expression profiling by array
Platform:
GPL4057
42 Samples
Download data: GPR
Series
Accession:
GSE17835
ID:
200017835
19.

Genomic binding for cAMP responsive transcription factors, CRP (Rv3676) and Cmr (Rv1675c) in TB complex mycobacteria

(Submitter supplied) We identified the genome-wide binding sites of CRP/FNR family transcription factors CRP and Cmr in M. bovis BCG using ChIP-seq, and cross-referenced these binding sites to orthologous regions in M. tuberculosis. Selected binding sites for each transcription factor were further characterized for their importance to gene regulation.
Organism:
Mycobacterium tuberculosis variant bovis BCG str. Pasteur 1173P2
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL24180
10 Samples
Download data: TXT
Series
Accession:
GSE106135
ID:
200106135
20.

The prominent transcriptional changes of Mycobacterium bovis BCG str. Tokyo 172 following induction by vitamin B1

(Submitter supplied) Vitamin B1 (VB1) is a key dietary nutrient and crucial cofactor, which exhibits a series of regulatory functions on cellular processes and the activation of the immune system. To date, the precise effect of VB1 on Mycobacterium tuberculosis has not been fully described. In the present study, the direct influence of VB1 treatment on M. bovis BCG was determined using RNA-sequencing. The selection of this strain was used due to its common physiological features with M.tuberculosis. more...
Organism:
Mycobacterium tuberculosis variant bovis
Type:
Expression profiling by high throughput sequencing
Platform:
GPL23838
2 Samples
Download data: XLS
Series
Accession:
GSE101963
ID:
200101963
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