Silvia Argimón

AMRgen is an R package that links antimicrobial resistance genotypes to phenotypes through data harmonization, analysis, and visualization, using surveillance data from priority pathogens.

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

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.

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 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 uses WGS to analyze 508 S. aureus isolates from India, identifying three major clones and two novel MRSA sub-lineages of CC22, with evidence of global transmission.

This study uses whole genome sequencing to characterize Salmonella isolates from the Philippines, revealing AMR patterns and population structure compared to traditional methods.

The paper reports the persistent circulation of third-generation cephalosporin-resistant Salmonella Typhi in Mumbai, India, linked to an IncX3 plasmid carrying resistance genes.

This study uses whole-genome sequencing to analyze carbapenem-resistant Acinetobacter baumannii isolates in the Philippines, identifying resistance mechanisms and transmission patterns.

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.

The paper uses whole genome sequencing to analyze carbapenem-resistant Acinetobacter baumannii isolates from Indian hospitals, identifying novel sequence types and clonal complexes associated with carbapenemase resistance.

The paper introduces Pathogenwatch, a tool for genomic surveillance of Salmonella Typhi, enabling AMR prediction and population-level risk assessment through global data sharing.

The paper sequenced N. gonorrhoeae isolates from the Philippines to assess antimicrobial resistance and genetic diversity, finding high resistance to penicillin, ciprofloxacin, and tetracycline and genetic diversity within global lineage A.

The paper sequenced S. aureus isolates from the Philippines to analyze MRSA clones and resistance patterns, finding a limited number of genetic clones and high concordance between phenotypic and genotypic resistance.

This paper introduces a community-driven genomic resource for Neisseria gonorrhoeae that predicts antimicrobial resistance and supports public health surveillance.

The paper integrates whole-genome sequencing into the Philippines' antimicrobial resistance surveillance program to better understand and track carbapenem resistance in key bacterial species.

This study sequenced 176 Pseudomonas aeruginosa isolates from the Philippines to characterize their genomic diversity, antimicrobial resistance mechanisms, and clonal spread.