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Genome-wide association study of RegX3 in M. tuberculosis (Mtb) grown under phosphate limited conditions

ABSTRACT: Genome-wide association study of RegX3 in M. tuberculosis (Mtb) grown under phosphate limited conditions

PROVIDER: PRJNA757399 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR15597901.fastq.gz	Fastqsanger.gz
	SRR15597902.fastq.gz	Fastqsanger.gz
	SRR15597903.fastq.gz	Fastqsanger.gz
	SRR15597904.fastq.gz	Fastqsanger.gz
	SRR15597905.fastq.gz	Fastqsanger.gz

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Genome-wide association study of RegX3 in M. tuberculosis (Mtb) grown under phosphate limited conditions

Project description:In order to understand the role of the transcriptional regulator RegX3 in regulating gene expression under phosphate limitation, we performed chromatin immunoprecipitation with RegX3 antibody followed by next generation sequencing using the immunoprecipitate. We observed RegX3 binding at a number of loci including genes which were observed to be differentially regulated during growth in phosphate limited vs. phosphate enriched media, suggesting a global role of RegX3 in regulating gene expression under phosphate starvation.

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Project description:We used the previously designed oligonucleotide microarrays (Bürgmann et al., 2007, Environmental Microbiology, 9: 2742-2755) to detect the mRNA transcripts of R. pomeroyi DSS-3 when the cells were cultured under steady-state conditions limited with ammonium (NH4Cl, 0.26 mM) but with an excess of D-ribose-5-phosphate (C5H9Na2O8P*2H2O, 0.5 mM), methylphosphonic acid (CH5PO3, 0.5 mM), or potassium phosphate (KH2PO4, 0.5 mM), or during ammonium excess (NH4Cl, 2.8 mM) but were limited with potassium phosphate (KH2PO4, 9.2 μM).

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Project description:We used the previously designed oligonucleotide microarrays (BM-CM-<rgmann et al., 2007, Environmental Microbiology, 9: 2742-2755) to detect the mRNA transcripts of R. pomeroyi DSS-3 when the cells were cultured under steady-state conditions limited with ammonium (NH4Cl, 0.26 mM) but with an excess of D-ribose-5-phosphate (C5H9Na2O8P*2H2O, 0.5 mM), methylphosphonic acid (CH5PO3, 0.5 mM), or potassium phosphate (KH2PO4, 0.5 mM), or during ammonium excess (NH4Cl, 2.8 mM) but were limited with potassium phosphate (KH2PO4, 9.2 M-NM-<M). A total of 13 microarray hybridizations were performed: three biological replicates each from ribose phosphate, methylphosphonate, or potassium phosphate excess growth regimes, three biological replicates from potassium phosphate limited growth regime, and one technical replicate for the potassium phosphate excess growth regime. Data for the technical replicates were averaged and combined, resulted in a total of 12 samples.

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