Brian M. Forde

Ciprofloxacin resistance in Klebsiella pneumoniae: phenotype prediction from genotype and global distribution of resistance determinants

The paper develops a rules-based classifier to predict ciprofloxacin resistance in Klebsiella pneumoniae from genotype data and demonstrates its global distribution association with quinolone consumption.

Disruption of cAMP Signalling and RNA Regulation Confers Cefiderocol Resistance in Acinetobacter baumannii

This study identifies two mechanisms of cefiderocol resistance in Acinetobacter baumannii: cAMP signalling disruption and Hfq RNA-binding domain truncation, both linked to iron homeostasis and reduced drug activity.

Cross-species convergence of surface polysaccharides shapes the virulence of an atypical carbapenem resistant uropathogenic Escherichia coli clone

The paper identifies a new carbapenem-resistant E. coli clone, ST361, associated with UTI and shows its virulence is linked to surface polysaccharides and mobile genetic elements.

OXA-181 transmission confounded by a stable IncX3 plasmid

This study analyzes the spread of blaOXA-181-producing bacteria in Australia, finding that the IncX3 plasmid is highly stable with minimal genetic variation, suggesting that genomic similarity does not necessarily indicate recent transmission.

SeaB is a conserved Salmonella enterica extracellular matrix binding protein involved in biofilm formation and infection

This study characterizes SeaB, a Type 5a secretion system protein in Salmonella enterica, showing its role in biofilm formation, virulence, and protective immunity in a mouse model.

Genome scale identification of new genes using saturated reporter transposon mutagenesis

The paper identifies new protein-coding sequences in E. coli using transposon mutagenesis and translation reporters, revealing previously unannotated genes.

Interactive data analysis and reporting with SCIFR: A Single-File SPA Approach

SCIFR is a single-file interactive reporting framework that improves efficiency and usability compared to existing tools in genomics analysis.

Misregulation of mitochondrial 6mA promotes the propagation of mutant mtDNA and causes aging in C. elegans

This study shows that misregulation of mitochondrial 6mA in C. elegans reduces mtDNA copy number, impairs OXPHOS, increases oxidative stress, and shortens lifespan.

Systematic benchmarking of all-in-one microbial SNP calling pipelines

This paper benchmarks six microbial SNP calling pipelines using multiple datasets, highlighting the variability in performance and the need for standardized benchmarking.

MicroPIPE: An end-to-end solution for high-quality complete bacterial genome construction

MicroPIPE constructs high-quality bacterial genomes using ONT and Illumina sequencing with an automated pipeline.

Strain and lineage-level methylome heterogeneity in the multi-drug resistant pathogenic Escherichia coli ST101 clone

The paper analyzes DNA methylation patterns in seven Escherichia coli ST101 strains to identify methylome diversity linked to mobile genetic elements and their impact on functional differences between nearly identical isolates.

Genomic characterisation and context of the blaNDM-1 carbapenemase in Escherichia coli ST101.

This study characterizes the genomic context of blaNDM-1 in E. coli ST101 isolates using long-read sequencing, revealing two clades with distinct resistance profiles and plasmid-mediated blaNDM-1 carriage mechanisms.

The evolution of nitroimidazole antibiotic resistance in Mycobacterium tuberculosis

This study identifies mutations in Mycobacterium tuberculosis that confer resistance to nitroimidazole antibiotics, highlighting the need for monitoring these mutations to manage antibiotic use.

Integrating multiple genomic technologies to investigate an outbreak of carbapenemase-producing Enterobacter hormaechei

The paper uses three whole genome sequencing technologies to analyze a carbapenemase-producing Enterobacter hormaechei outbreak, identifying transmission dynamics and plasmid context.

SMRT sequencing reveals differential patterns of methylation in two O111:H- Shiga toxigenic Escherichia coli isolates from a historic hemolytic uremic syndrome outbreak in Australia

This study uses SMRT sequencing to compare the methylome of two STEC isolates, identifying differential methylation patterns linked to regulatory differences.