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Whole genome "TraDIS-Xpress" assay to determine gene roles during growth of E. coli in different concentrations of the antibiotics trimethoprim and sulfamethoxazole

ABSTRACT: Whole genome "TraDIS-Xpress" assay to determine gene roles during growth of E. coli in different concentrations of the antibiotics trimethoprim and sulfamethoxazole

PROVIDER: PRJEB39237 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR4318900.fastq.gz	Fastqsanger.gz
	ERR4318910.fastq.gz	Fastqsanger.gz
	ERR4318920.fastq.gz	Fastqsanger.gz
	ERR4318930.fastq.gz	Fastqsanger.gz
	ERR4318940.fastq.gz	Fastqsanger.gz

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Whole genome \"TraDIS-Xpress\" assay to determine gene roles during growth of E. coli in different concentrations of the antibiotics trimethoprim and sulfamethoxazole

Project description:To assay every gene in the E. coli genome to identify those that contribute to increased or decreased susceptibility to the antibiotics trimethoprim and sulfamethoxazole. This will help to define more accurately those bacterial cell mechanisms that contribute to these phenomena and provide information that will contribute to the development of new antibiotics, or compounds or known antibiotics that synergise with those already in clinical use. Thus, this set of experiments confirmed that AZT, widely known for its antiviral activity, acts synergistically with trimehoprim.

2020-10-19 | E-MTAB-9305 | biostudies-arrayexpress

TraDIS-Xpress to determine E. coli response to Piperacillin and Tazobactam separately and in combination

Project description:Found how E. coli responds to the commonly prescribed antibiotic-inhibitor combination piperacillin and tazobactam, separately and in combination. TraDIS-Xpress was performed following the protocol outlined by Yasir et al 2020 Genome Research. The results suggest tazobactam triggers the activity of multidrug efflux systems that have been previously seen to confer clinical resistance to multiple classes of antibiotics.

2023-08-31 | E-MTAB-13226 | biostudies-arrayexpress

TraDIS-Xpress analysis of colistin stress responses in Escherichia coli

Project description:In past, resistance mechanisms have been identified by analysis of resistant isolates or defined mutants. Recently, high-throughput transposon mutagenesis coupled with sequencing (TraDIS-Xpress) is another approach proving useful for elucidating the roles of genes involved in the overall cellular response to a particular stress. In this study, we used TraDIS-Xpress to determine the role played by genes following exposure to colistin stress. Approximately 10^7 cells from the mutant library were inoculated into LB broth at a range of doubling concentrations of colistin ( 0.25 x MIC, 0.5 x MIC, 1 x MIC, 2 X MIC). Experiments were performed with no induction, or with induction using 0.2 or 1 mM of Isopropyl β-D-1-thiogalactopyranoside (IPTG). All experiments were performed in duplicate.

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TraDIS-Xpress finds mechanisms of action and synergies of a novel lipid IVA biosynthesis inhibitor

Project description:We used TraDIS-Xpress to determine the mechanism of action of a novel antimicrobial compound. We found that it inhibits lipid IVA biosynthesis in both Escherichia coli and Salmonella enterica serovar Typhimurium. We also were able to determine mechanisms of synergy with colistin, through ATP biosynthesis and the BasSR signalling system.

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TraDIS-Xpress analysis of gene functions in Escherichia coli

Project description:TraDIS-Xpress analysis of gene functions in Escherichia coli

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TraDIS-Xpress analysis of colistin stress responses in Escherichia coli

Project description:TraDIS-Xpress analysis of colistin stress responses in Escherichia coli

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Expression profiling of E. coli in three media treated with antibiotics

Project description:RNA sequencing was performed on E. coli K12 MG1655 on three media (M9, CA-MHB, R10LB) treated with four antibiotics (Ciprofloxacin, Trimethoprim-sulfamethoxazole, Ceftriaxone, Meropenem) at their media-specific MIC90s

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Whole genome TraDIS-Xpress assay to determine gene roles during growth of E. coli in different concentrations of the beta-lactam antibiotic meropenem

Project description:Whole genome TraDIS-Xpress assay to determine gene roles during growth of E. coli in different concentrations of the beta-lactam antibiotic meropenem

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