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Transciptomic changes in Mycobacterium tuberculosis (Mtb) infected hepatocytes at early and late time points of infection

ABSTRACT: Transciptomic changes in Mycobacterium tuberculosis (Mtb) infected hepatocytes at early and late time points of infection

PROVIDER: PRJNA1078382 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR28019357_1.fastq.gz	Fastqsanger.gz
	SRR28019357_2.fastq.gz	Fastqsanger.gz
	SRR28019358_1.fastq.gz	Fastqsanger.gz
	SRR28019358_2.fastq.gz	Fastqsanger.gz
	SRR28019359_1.fastq.gz	Fastqsanger.gz

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Transciptomic changes in Mycobacterium tuberculosis (Mtb) infected hepatocytes at early and late time points of infection

Project description:Mycobacterium tuberculosis (Mtb), although primarily a pulmonary pathogen, can disseminate to various other organs of the body causing extra pulmonary tuberculosis (EPTB). In the present study, we have shown that hepatocytes, the major parenchyma cells of the liver, get robustly infected by Mtb. Using a combination of in-vitro, ex-vivo and animal models; we demonstrate that Mtb utilizes hepatocytes as a replicative niche, modulates its various biological functions like lipid metabolism and shields itself against the common anti-TB drugs. Hepatocytes, being a key cell type having both immune and metabolic functions, controls and coordinates various aspects of the physiology in both health and disease. In case of a multifactorial chronic infection like TB, we are curious to know whether hepatocyte infection plays any major role in the systemic outcome of this age-old disease.

2024-05-17 | GSE256184 | GEO

Engraftment and Repopulation Potential of Late Gestation Fetal Rat Hepatocytes

Project description:Liver transplantation is the only therapeutic option for patients with end-stage liver disease. The shortage of donor organs has led to the search for alternative therapies to restore liver function and bridge patients to transplantation. Our previous work has shown that the proliferation of late gestation E19 fetal hepatocytes is mitogen-independent. This is manifested as differences in the control of ribosome biogenesis, global translation, cell cycle progression and gene expression. In the present study, we investigated whether E19 fetal hepatocytes would engraft and repopulate an injured adult liver. Methods: Fetal hepatocytes were isolated using a monoclonal antibody against a hepatic surface protein, leucine amino peptidase (LAP). LAP+ and LAP- fractions were analyzed by immunofluorescence and microarray. Immunopurified E19 liver cells from DPPIV+ F344 rats were transplanted via splenic injection into partial hepatectomized DPPIV- rats that had been pretreated with mitomycin C. Results: Phenotypic characterization of the LAP+ fetal hepatocytes revealed that more than a third of the isolated cells expressed ductal markers. Transcriptomic analysis revealed that these dual expressing cells represent a distinct subpopulation of less well differentiated hepatocytes. Transplanted immunopurified LAP+ late gestation fetal hepatocytes formed small hepatic, endothelial and occasional ductal colonies within one month. The average size of the colonies derived from the LAP+ cells increased so that by 10 months up to 35% of the liver was repopulated by donor-derived cells. Conclusions: Our studies show that late gestation fetal hepatocytes, despite their being far along in the differentiation process, possess the capacity for extensive liver repopulation. This is likely related to the unexpected presence of a significant proportion of hepatocyte marker-positive cells maintaining a less well differentiated phenotype.

2017-08-22 | GSE97897 | GEO

Aeromonas sp. MTB isolate:MTB

Project description:Aeromonas sp. MTB isolate:MTB Genome sequencing and assembly

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Timecourse of doxycycline induction in bitransgenic MTB/TAN, MTB/TOM, and MTB/TWNT1 mice or monotransgenic MTB control mice

Project description:Genome-wide expression data can provide important insights into normal and pathological cellular processes. However, the ability to use gene expression data to quantitatively assess the activation state of a given signaling pathway or transcriptional network in a sensitive and specific manner remains an important unmet goal. We now describe a computational algorithm, energy-paired scoring (EPS), that satisfies these criteria by predicting pathway activity using gene-gene interactions within a pathway signature in a manner analogous to the estimation of energy generated by two charged particles, as described by Coulomb’s law. We demonstrate the ability of EPS to: quantitatively assess pathway activation levels in vivo and in vitro; accurately estimate the extent of pathway inhibition achieved by gene knockdown; sensitively detect crosstalk between endogenous signaling pathways in vivo; and accurately identify compounds capable of inhibiting selected signaling pathways. Our findings indicate that EPS can accurately predict pathway activity over a wide dynamic range based upon gene expression data sets derived from multiple profiling platforms, as well as different species, tissues and cell types in both in vitro and in vivo contexts Four timepoints (0h, 24h, 48h and 96h) with 3 replicates per timepoint of doxycycline induction for MTB (Control), MTB/TAN, MTB/TOM and MTB/TWNT1

2013-09-18 | E-GEOD-50969 | biostudies-arrayexpress

CoMtb alters the immune landscape following Mtb infection [B6 scSCRNAseq]

Project description:To characterize the influence of CoMtb on immune responses during infection, we performed single-cell RNA sequencing (scRNAseq) and flow cytometry analysis of lungs from Mtb-infected C57Bl/6 mice with and without CoMtb immediately pre-infection and at 10, 17 and 34 days after conventional dose (50-100 CFU) Mtb infection. We found that CoMtb induces rapid recruitment and activation of T cells, macrophage, and diminished late neutrophil responses.

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RNA sequencing of mammary glands from 55-day old control, MTB-200ba429, MTB-IGFIR, MTB-IGFIRba429 mice.

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RNAseq of brain and muscle from Nadk2 and Pla2g6 mutant mice at early and late phenotypic time points

Project description:RNA sequencing for differential gene expression analysis was performed from brain and muscle of Nadk2 mutant mice and littermate controls at 5 and 11 weeks of age, and in Pla2g6 mutant mice and littermate controls at 6 and 13 weeks of age, representing early stage and late stage phenotypic time points.

2022-09-01 | GSE188592 | GEO

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