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ABSTRACT: RNA-Seq of Mycobacterium bovis AF2122/97 phoPR knockout mutants

PROVIDER: PRJNA1072690 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR27845578_1.fastq.gz	Fastqsanger.gz
	SRR27845578_2.fastq.gz	Fastqsanger.gz
	SRR27845579_1.fastq.gz	Fastqsanger.gz
	SRR27845579_2.fastq.gz	Fastqsanger.gz
	SRR27845580_1.fastq.gz	Fastqsanger.gz

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Project description:Mycobacterium bovis AF2122/97 phoPR knockout mutants

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Transcriptional response of bovine moncocyte-derived macrophages to infection with strains of Mycobacterium bovis and Mycobacterium avium subspecies paratuberculosis

Project description:Mycobacterium bovis (M. bovis) and Mycobacterium avium subspecies paratuberculosis (MAP) are important pathogens of cattle, causing bovine tuberculosis and Johne’s disease respectively. M. bovis and MAP infect residential macrophages in the lung and intestines respectively and subvert the macrophage biology to create a survival niche. To investigate this interaction we simultaneously studied the transcriptional response of bovine monocyte-derived macrophages to infection with two strains of M. bovis (AF2122/97 and G18) and two strains of MAP (C & L1).

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Project description: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

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Project description:RNA-seq analysis on M. bovis AF2122/97 WT, RD900 knockout and complemented strains

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Evolutionary conserved mutations in PhoPR attenuate the virulence of animal-adapted tuberculosis strains for humans

Project description:By genome comparison of 30 MTBC strains, we identified three SNPs affecting the phoPR genes of members of the animal and M. africanum lineages that were not seen in the M. tuberculosis sensu-stricto genomes. The genes phoPR encode a two component regulatory system that is known for its strong impact on virulence and immunogenicity of M. tuberculosis due to its key role in the regulation of genes involved in lipid synthesis and secretion of the 6 kDa secreted antigenic target ESAT-6. To explore whether these SNPs affect the expression of the PhoP regulon, we compared the transcriptome of M. tuberculosis mutants lacking the endogenous phoPR genes (M-NM-^TphoPR) and their complemented derivatives expressing either the M. bovis or M. tuberculosis allele of phoPR (phoPR-bovis and phoPR-TB respectively). These comparisons were performed in parallel in two M. tuberculosis strains from distinct genetic backgrounds, i.e. strain GC1237 from lineage 2 (also named East-Asia or Beijing cluster) and the H37Rv reference strain from lineage 4 (also named Euro-American cluster). To perform the transcriptomic comparison of the different M. tuberculosis variants (M-NM-^TphoPR, complemented and wt) from the two distinct genetic background, a customized micro-array has been designed then manufactured by Agilent (8 x 15k format). The design of oligonucleotides covering all protein coding sequences was done using OligoArray version 2.1 on the basis of the 3924 predicted coding sequences composing the entire M. tuberculosis H37Rv reference genome. The experimental data for each of the comparison consisted of 4 hybridizations (2 biological replicates with dye-swap); 16 in the end for each genetic background.

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small non-coding RNA expression profile of human lung tissue explants infected with bacteria/virus by RNAseq

Project description:small non-coding RNA-seq was performed to study the transcriptomic changes in human lung tissue post infection with either Influenza A virus (IAV), or Pseudomonas aeruginosa (PA) or Mycobacterium bovis (BCG)

2022-01-04 | GSE192864 | GEO

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