Draft genome sequences of 25 Salmonella enterica serovar Agona strains isolated from poultry and associated food products harbouring multiple antibiotic resistance genes.

OBJECTIVES: Antimicrobial-resistant livestock-associated Salmonella enterica serovar Agona infection poses a significant public health threat worldwide. The present study aimed to identify antibiotic resistance genes in livestock-associated S. Agona strains isolated from chickens and associated food products (meat and eggs) in Pakistan via whole-genome sequencing. METHODS: The genomic DNAs of S. Agona strains (n=25) were sequenced using an Illumina MiSeq platform. The generated reads were trimmed and de novo assembled using CLC Genomics Workbench v.7. The draft genomes were annotated using the National Centre for Biotechnology Information (NCBI) Prokaryotic Genome Annotation Pipeline and were characterised by multilocus sequence typing (MLST). The antimicrobial-resistance genes (acquired and chromosomal mutations), extrachromosomal plasmids and Salmonella pathogenicity islands were predicted using ResFinder and CARD, PlasmidFinder and SPIFinder, respectively. RESULTS: The genome size of S. Agona ranges from 4.9 to 5.1 Mb with 52.1% GC contents. The strains belong to ST13 and harbour several antibiotic-resistance genes, including aac (6')-Iaa, aadA1, aadA2, bla OXA-10, qnrS1, cmlA, floR, tet(A), dfrA12 and point mutations in gyrB, gyrA, ParC conferring antibiotic resistance to fluoroquinolones. The strains also contain several plasmids and Salmonella pathogenicity islands. CONCLUSION: This study reports draft genomes of multidrug-resistant S. Agona from Pakistan isolated from chickens and associated food products. The data may help with understanding the antimicrobial resistance mechanisms and transmission dynamics of this serovar in poultry and associated food products and their possible transmission to humans.

Reinvestigating the Coughing Rat Model of Pertussis To Understand Bordetella pertussis Pathogenesis.

Bordetella pertussis is a highly contagious bacterium that is the causative agent of whooping cough (pertussis). Currently, acellular pertussis vaccines (aP, DTaP, and Tdap) are used to prevent pertussis disease. However, it is clear that the aP vaccine efficacy quickly wanes, resulting in the reemergence of pertussis. Furthermore, recent work performed by the CDC suggest that current circulating strains are genetically distinct from strains of the past. The emergence of genetically diverging strains, combined with waning aP vaccine efficacy, calls for reevaluation of current animal models of pertussis. In this study, we used the rat model of pertussis to compare two genetically divergent strains Tohama 1 and D420. We intranasally challenged 7-week-old Sprague-Dawley rats with 108 viable Tohama 1 and D420 and measured the hallmark signs/symptoms of B. pertussis infection such as neutrophilia, pulmonary inflammation, and paroxysmal cough using whole-body plethysmography. Onset of cough occurred between 2 and 4 days after B. pertussis challenge, averaging five coughs per 15 min, with peak coughing occurring at day 8 postinfection, averaging upward of 13 coughs per 15 min. However, we observed an increase of coughs in rats infected with clinical isolate D420 through 12 days postchallenge. The rats exhibited increased bronchial restriction following B. pertussis infection. Histology of the lung and flow cytometry confirm both cellular infiltration and pulmonary inflammation. D420 infection induced higher production of anti-B. pertussis IgM antibodies compared to Tohama 1 infection. The coughing rat model provides a way of characterizing disease manifestation differences between B. pertussis strains.