Michael Payne

COSMOS integrates vector-pathogen metagenomics to monitor mosquito-borne diseases, detecting pathogens and mosquito communities in field samples with high accuracy.

This study evaluates how k-mer based tools affect abundance estimation in metagenomic data with closely related references, showing differential performance based on sample-reference distance and reference similarity.

This paper develops a multilevel HierCC typing scheme for global C. jejuni AMR surveillance and epidemiology, identifying resistant clusters and host-specific patterns.

The paper identifies a prophage-encoded sRNA, HnrS, that counteracts xenogenic silencing by repressing Hha, enabling virulence gene expression in E. coli.

This study develops a multilevel genome typing (MGT) scheme for Staphylococcus aureus to characterize genomic epidemiology at various scales using 50,481 genomes.

This study uses multilevel genome typing to analyze Australian Salmonella Enteritidis isolates, finding strong epidemiological links to Asian strains and a local outbreak linked to European isolates.

MGTdb provides a web service for assigning and analyzing multilevel genome types of bacterial isolates, supporting epidemiological studies of Salmonella and Vibrio species.

This paper analyzes the genomic diversity and evolution of Escherichia albertii from Chinese and international isolates, revealing population structure, virulence gene distribution, and high multidrug resistance prevalence.

This study develops a multilevel genome typing method for Salmonella Enteritidis and analyzes 26,670 genomes to reveal global and local genomic epidemiology, including multidrug resistance and outbreak patterns.