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RNA-seq analysis of isogenic dnaN+ and dnaN-E202K E. coli strains derived from MG1655.

ABSTRACT: RNA-seq analysis of isogenic dnaN+ and dnaN-E202K E. coli strains derived from MG1655.

PROVIDER: PRJNA734325 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR14702948.fastq.gz	Fastqsanger.gz
	SRR14702949.fastq.gz	Fastqsanger.gz
	SRR14702950.fastq.gz	Fastqsanger.gz
	SRR14702951.fastq.gz	Fastqsanger.gz
	SRR14702952.fastq.gz	Fastqsanger.gz

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RNA-seq analysis of isogenic dnaN+ and dnaN-E202K E. coli strains derived from MG1655.

Project description:RNA-seq was performed using 2 isogenic strains of E coli bearing either the wild type dnaN allele (strain VB001), or a dnaN allele with a glutamic acid-202 to lysine substitution (dnaN-E202K; strain VB019).

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Chip-chip from Escherichia coli MG1655 K-12, WT and ∆fnr strains

Project description:Mapping the occupancy of FNR, HNS, and IHF throughout the genome of Escherchia coli MG1655 K-12 using an affinity purified antibody under anerobic growth conditions. We also mapped the binding of the ß subunit of RNA Polymerase under both aerobic and anaerobic growth conditions. As a control, we also performed ChIP-chip on FNR in a ∆fnr mutant strain of Escherchia coli MG1655 K-12. We also examined FNR immunoprecipitation at various FNR concentrations using IPTG and Ptac::fnr (PK8263). The ∆hns/∆stpA strains were also used. Descirbed in the manuscript Genome-scale Analysis of E. coli FNR Reveals the Complexity of Bacterial Regulon Structure

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Project description:Mapping the occupancy of ArcA throughout the genome of Escherchia coli MG1655 K-12 using an affinity purified antibody under anaerobic and aerobic growth conditions. As a control, we also performed ChIP-chip onArcA in a ∆arcA mutant strain of Escherchia coli MG1655 K-12. Described in the manuscript The response regulator ArcA uses a diverse binding site architechture to globally regulate carbon oxidation in E. coli

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Project description:Mapping the occupancy of FNR, HNS, and IHF throughout the genome of Escherchia coli MG1655 K-12 using an affinity purified antibody under anerobic growth conditions. We also mapped the binding of the M-CM-^_ subunit of RNA Polymerase under both aerobic and anaerobic growth conditions. As a control, we also performed ChIP-chip on FNR in a M-bM-^HM-^Ffnr mutant strain of Escherchia coli MG1655 K-12. We also examined FNR immunoprecipitation at various FNR concentrations using IPTG and Ptac::fnr (PK8263). The M-bM-^HM-^Fhns/M-bM-^HM-^FstpA strains were also used. Descirbed in the manuscript Genome-scale Analysis of E. coli FNR Reveals the Complexity of Bacterial Regulon Structure Mapping of occupancy of FNR, NNS, IHF and M-CM-^_ of RNAP in the genome of Escherchia coli MG1655 K-12 under aerobic or anaerobic growth conditions. Immunoprecipitated DNA compared to INPUT for each sample.

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