A. McNally

pQEB1: a hospital outbreak plasmid lineage carrying blaKPC-2

The paper identifies a plasmid lineage pQEB1 carrying blaKPC-2 in a hospital outbreak, showing its multi-drug resistance and inter-patient transmission.

Multidrug resistance plasmids commonly reprogramme expression of metabolic genes in Escherichia coli

This study introduces eight MDR plasmids into E. coli and shows varying transcriptional impacts and fitness costs, with metabolic genes frequently affected.

Non-antibiotic pharmaceuticals exhibit toxicity against Escherichia coli at environmentallyrelevant concentrations with no evolution of cross-resistance to antibiotics

This study shows non-antibiotic pharmaceuticals inhibit E. coli growth at environmental concentrations without promoting cross-resistance to antibiotics.

Loss of type VI secretion systems in multi-drug resistant Escherichia coli clones

This study investigates the loss of type VI secretion systems (T6SS) in multi-drug resistant (MDR) Escherichia coli clones and finds that essential T6SS genes are lost in multiple MDR clades through recombination and insertion events.

Foraging on host synthesized metabolites enables the bacterial symbiont Snodgrassella alvi to colonize the honey bee gut

This study shows that Snodgrassella alvi, a honey bee gut symbiont, relies on host-derived organic acids and modulates tryptophan metabolism to colonize the gut.

Extended-spectrum beta-lactamase genes traverse the Escherichia coli populations of ICU patients, staff and environment.

This study tracks the spread of ESBL-EC in an ICU, finding distinct patient and environmental isolates but shared plasmid lineages carrying blaCTX-M genes.

Multi-drug resistant E. coli displace commensal E. coli from the intestinal tract, a trait associated with elevated levels of genetic diversity in carbohydrate metabolism genes.

This study shows that multi-drug resistant E. coli outcompetes non-MDR E. coli in the gut, linked to higher genetic diversity in carbohydrate metabolism genes.

RND pumps across the Acinetobacter genus; AdeIJK is the ancestral efflux system.

This paper identifies AdeIJK as the ancestral RND efflux system in Acinetobacter by analyzing RND pump distribution across 63 species and developing a method to predict RND proteins.

The highly diverse and complex plasmid population found in Escherichia coli colonising travellers to Laos and their role in antimicrobial resistance gene carriage

This study characterizes the diverse plasmid population in ESBL-producing E. coli from travellers to Laos, revealing AMR gene carriage and potential for global AMR spread.

Evolutionary responses to acquiring a multidrug resistance plasmid are dominated by metabolic functions across diverse Escherichia coli lineages

The study shows that acquiring a multidrug resistance plasmid in Escherichia coli leads to evolutionary responses dominated by metabolic and regulatory mutations across multiple lineages.

Strong pathogen competition in neonatal gut colonisation

This study quantifies strain-level colonisation dynamics of gut pathogens in neonates, finding strong competition and some synergies, and reveals pathogenic potential differences among ExPEC clones.

Pangenome evolution in Escherichia coli is sequence type, not phylogroup, specific

The paper compares pangenomes of different Escherichia coli sequence types to show that pangenome evolution is influenced by sequence type-specific factors rather than phylogroup relationships.

GR13-type plasmids in Acinetobacter potentiate the accumulation and horizontal transfer of diverse accessory genes

This study characterizes GR13 plasmids in Acinetobacter, showing their capacity to accumulate and horizontally transfer diverse accessory genes through dif modules and insertion sequences.

Gene-gene relationships in an Escherichia coli accessory genome are linked to function and mobility

This study identifies gene-gene relationships in an Escherichia coli accessory genome, showing that co-occurrence is driven by function and mobility.

Limited and strain-specific transcriptional and growth responses to acquisition of a multidrug resistance plasmid in genetically diverse Escherichia coli lineages

The paper examines how diverse E. coli strains respond transcriptionally and in growth to acquiring a multidrug resistance plasmid, finding limited and strain-specific effects.

Allelic polymorphism shapes community function in evolving Pseudomonas aeruginosa populations

This study shows that allelic polymorphism in Pseudomonas aeruginosa affects community function and antibiotic tolerance during evolution in biofilms.

Real-time sampling of travelers shows intestinal colonization by multidrug-resistant bacteria to be a dynamic process with multiple transient acquisitions

The paper tracks MDR-GN colonization in travelers in real time, finding frequent transient acquisitions and strain replacement.

Klebsiella pneumoniae type VI secretion system-mediated microbial competition is PhoPQ controlled and reactive oxygen species dependent

This study identifies PhoPQ as a regulator of Klebsiella pneumoniae T6SS activity, which mediates microbial competition and is dependent on reactive oxygen species.

Signatures of negative frequency dependent selection in colonisation factors and the evolution of a multi-drug resistant lineage of Escherichia coli

This study identifies negative frequency-dependent selection in Escherichia coli ST131 as a key driver of its evolutionary success and adaptation to different ecological niches.

Complete genomic characterisation of two Escherichia coli lineages responsible for a cluster of carbapenem resistant infections in a Chinese hospital

The paper characterizes two E. coli lineages, ST167 and ST617, responsible for carbapenem-resistant infections, revealing their genomic evolution and resistance mechanisms.

Phylogeographic separation and formation of sexually discrete lineages in a global population of Yersinia pseudotuberculosis

The paper analyzes global Yersinia pseudotuberculosis genomes to show phylogeographic splits and lineage formation driven by CRISPR clusters, with limited genetic exchange between lineages.