Ian G. Charles

This paper uses ICA to analyze TraDIS-Xpress data from E. coli, identifying functional modules of antimicrobial resistance genes across multiple stress conditions.

This study identifies genes critical for Pseudomonas aeruginosa biofilm survival under ciprofloxacin exposure, revealing key pathways and potential therapeutic targets.

The paper investigates how tazobactam affects multidrug resistance in E. coli and Klebsiella pneumoniae using transposon mutagenesis, finding it selects for efflux pumps and membrane permeability changes.

This study identifies the target pathway of a novel antimicrobial compound and discovers synergies with existing antibiotics using genome-wide screening in Gram-negative bacteria.

LoRTIS-SS enables transposon insertion site mapping using long-read sequencing, improving accuracy in repeated genomic regions compared to short-read methods.

The paper identifies temporally essential genes for biofilm formation in E. coli using transposon mutagenesis and validates their roles at different stages of biofilm development.

AlbaTraDIS analyzes transposon mutagenesis data to identify genes involved in stress survival, demonstrating its utility in identifying Triclosan resistance genes in E. coli.

CoronaHiT is a method for high-throughput SARS-CoV-2 genome sequencing that improves coverage and throughput compared to existing protocols.

The paper examines how long-read sequencing captures full-length ribosomal RNA operons in bacteria, noting that intra-species variation may limit taxonomic resolution to the genus level for uncultured organisms.

The paper uses TraDIS to identify genes involved in twitching motility-mediated biofilm expansion in Pseudomonas aeruginosa, revealing both known and novel components.

The paper evaluates ddRADseq for reduced representation metagenome sequencing, finding it feasible with small taxonomic bias compared to DNA extraction bias.