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Mycobacterium tuberculosis H37Ra

ABSTRACT: Adaptive Gene Profiling of Mycobacterium Tuberculosis during Sub-lethal Kanamycin Exposure

PROVIDER: PRJNA393426 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR5811300_1.fastq.gz	Fastqsanger.gz
	SRR5811300_2.fastq.gz	Fastqsanger.gz
	SRR5811301_1.fastq.gz	Fastqsanger.gz
	SRR5811301_2.fastq.gz	Fastqsanger.gz
	SRR5811302_1.fastq.gz	Fastqsanger.gz

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Adaptive Gene Profiling of Mycobacterium Tuberculosis during Sub-lethal Kanamycin Exposure

Project description:Objectives: Mtb adaptation is the major threat to affective disease control.The objective of this study was to identify major contributors participating in Mtb adaptation process during sub-lethal drug exposure through next generation sequencing Methods: The sequence reads that passed quality filters were analyzed through Tophat-2 and HT-Seq after being unified with housekeeping genes expression level.Adaptation analysis was performed through classifying genes expression in count table by K-Means clustering algorithm and find interested genes pattern Results: Genes responsible for lipid metabolism strongly repressed while involved in virulence and information pathways up regulated under sub-lethal kanamycin stress.Moreover an adaptive network comprise of Ra1750,Ra3160,Ra3161,Ra2492 and Ra3893 identified in kanamycin treated Mtb Conclusions: Mtb has a complex regulatory inter-connected gene network supporting its survival under diverse environmental conditions.

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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)

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