Ayorinde O. Afolayan

This study refines SPATE gene detection in EAEC genomes, revealing phylogeny-associated differences in SPATE distribution and identifying pic as a diarrhoea-associated gene.

This study characterizes antimicrobial resistance and virulence genes in E. coli isolated from household water in Ibadan, Nigeria, finding multidrug resistance and diarrheagenic genes more common in dry season isolates.

This paper introduces a decontamination method for long-read metagenomic datasets, identifying and mitigating microbial contaminants in neonatal samples.

Mykrobe k-mer panel genotypes Salmonella Typhi lineages, antimicrobial resistance (AMR) markers and plasmids from Illumina or nanopore reads, matching mapping-based lineage calls for 99.8% of genomes.

This study uses whole genome sequencing to identify Enterobacter hormaechei as the most common bloodstream pathogen in Nigerian hospitals, revealing its diversity and potential outbreaks.

This study identifies multidrug-resistant Escherichia coli in household water and demonstrates the transmissibility of antibiotic resistance genes through conjugation.

The paper introduces TyphiNET, a dashboard for exploring Typhi genomics data to support public health decisions on antimicrobial resistance and vaccine implementation.

This study evaluates three strain resolution tools on long-read metagenomes, finding TRACS excels in haplotype completeness and efficiency, while Strainy shows high haplotype accuracy.

hAMRonization standardizes AMR gene detection outputs from multiple tools into a unified format for easier analysis and integration.

The paper introduces Pathogenwatch, a web tool for genomic surveillance of Klebsiella, showing it identifies drug-resistant clones and vaccine candidate O-types in genomes from low- and middle-income countries.

This study uses whole genome sequencing to analyze antimicrobial-resistant Klebsiella isolates from Nigeria, identifying known and novel lineages, including multidrug-resistant ESBL producers.

This study analyzes CRKP isolates in Colombia using WGS, identifying high-risk clones and carbapenemase genes, emphasizing the need for WGS-based surveillance.

Whole genome sequencing identified three previously unrecognized Klebsiella pneumoniae outbreaks in neonatal intensive care units in the Philippines, revealing an epidemic plasmid associated with carbapenem resistance.

This study characterizes the genomic diversity of carbapenem-resistant Klebsiella pneumoniae isolates from India, identifying high-risk clones and resistance mechanisms.