Iruka N. Okeke

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.

The paper identifies non-coli Escherichia species, including clade I ST485, that carry EAEC virulence genes and are often misidentified as E. coli, highlighting their potential role in diarrheal disease.

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 identifies a mobile resistance island driving carbapenem resistance in Enterobacter hormaechei and Klebsiella pneumoniae in a Nigerian ICU, highlighting the role of horizontal gene transfer in AMR spread.

This study screens a compound library to identify anti-biofilm agents against Salmonella enterica, finding several compounds that inhibit biofilm formation without significantly affecting growth.

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.

The paper reports the first detection of a colistin-resistant ESBL-producing E. kobei strain isolated from a child in Cameroon, highlighting antimicrobial resistance concerns.

amr.watch provides an interactive platform to analyze and visualize AMR trends from global WGS data, enabling ongoing situational awareness for research and policy.

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 slow-growing Salmonella Typhi misidentified as S. Gallinarum in Nigeria, showing the need for extended motility testing and molecular confirmation.

This study analyzes Salmonella enterica isolates from cattle, beef, and humans in Ghana, identifying novel sequence types and antimicrobial resistance genes, and showing close genetic relatedness between human and bovine isolates.

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 characterizes the genetic diversity and virulence factors of EPEC in southwestern Nigeria using whole-genome sequencing, identifying prevalent serotypes and potential outbreaks.

This study characterizes Salmonella and E. coli isolates from Ghana using whole-genome sequencing, identifying novel serovars and antimicrobial resistance genes.

This paper demonstrates that CRISPR-Cas9 enrichment combined with Oxford Nanopore sequencing improves detection of AMR genes and MLST in patient samples compared to unenriched sequencing.

This paper reclassifies SHV β-lactamase alleles in K. pneumoniae genomes based on mutations, improving genotype-phenotype understanding and updating the Kleborate tool.

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

This study characterizes the genetic diversity and carbapenem resistance mechanisms in Acinetobacter baumannii isolates from Nigerian hospitals using whole-genome sequencing, revealing high prevalence of blaNDM-1 and transposon-mediated dissemination of resistance genes.

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.