Long-read Nanopore-based WGS characterization of antimicrobial resistant Campylobacter jejuni and Campylobacter coli isolates from humans, animals and food products in Northern Spain within a One Health approach

In response to the growing threat posed by the spread of antimicrobial resistance in zoonotic Campylobacter, a study adopting a One-Health approach was performed to examine the genomic diversity, phylogenomic relationships and the distribution of genetic determinants of resistance (GDR) in C. jejuni and C. coli. Resistant isolates (most of them to ciprofloxacin and/or erythromycin) were collected from humans, animals (ruminants, pigs, chickens), and poultry food products during a regionally and temporally restricted sampling (Basque Country, Spain; mostly 2021-2022). For this, whole-genome sequencing (WGS) with long-read Oxford Nanopore Technologies (ONT) was performed with the following objectives: (i) examine genomic diversity; (ii) investigate the phylogenomic relationships among strains; and, (iii) determine the distribution of genetic determinants of resistance (GDR).