Alison E. Mather

This study compares vibriosis incidence and causative species between equatorial Singapore and temperate United States, finding higher incidence in Singapore with stable rates, while US rates are rising, suggesting ecological impacts of warming oceans.

MetaPointFinder detects antimicrobial resistance-conferring point mutations from metagenomic reads, outperforming existing methods in simulated data.

This study investigates how Pseudomonas species spoil meat and leafy greens, finding that biofilm formation correlates with tissue destruction and spoilage capabilities.

The paper identifies megaplasmids in Enterobacteriaceae species, showing they are self-transmissible, encode drug resistance, and may enhance bacterial competitiveness.

This study identifies Pseudomonas isolates that inhibit Salmonella growth in vitro and in planta, showing environment-specific metabolic changes and multifactorial biocontrol mechanisms.

Lapidary identifies and reports amino acid sequences in metagenomes using DNA-protein alignments, outperforming assembly methods in fragmented data but underperforming in complete assemblies.

uvaia improves phylogenetic analysis of SARS-CoV-2 genomes by efficiently finding similar sequences using partial and exact similarity measures.

This study investigates the genomic structure and evolution of Salmonella ST34 in Southeast Asia, showing that multidrug resistance plasmids drive its clonal expansion and international spread.

tatajuba identifies homopolymer tracts in bacterial genomes and highlights polymorphic variants across samples, confirming and expanding on previous findings.

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.

ARIBA rapidly identifies antimicrobial resistance genes and SNPs from sequencing reads, outperforming existing tools on bacterial datasets.