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Communication Dans Un Congrès Année : 2022

Salmonella kedougou, from feed to poultry farms using wgs

Résumé

Salmonella spp. is one of the most frequent cause of bacterial foodborne diseases in Europe. Many food (eggs, poultry raw meat, dried sausage, etc.) are often implicated as sources of infection. However, the causality link between animal feed and both animal and human salmonellosis was not always confirmed. The National Reference Laboratory (NRL) for Salmonella and the National Surveillance Platform of the food chain have been notified by poultry producers of an increase in the contamination cases of Salmonella Kedougou in 2019. An investigation was conducted in close collaboration between partners involved in poultry production (from animal feed factories to animal farms) and laboratories networking. Collecting and genotyping all the detected S. Kedougou isolates, was traced in order to explain this increasing trend of S. Kedougou and a possible common source, in the poultry production. Seventy-eight strains originated from raw materials (oats), animal feed factories, and poultry farms have been collected by the NRL for Salmonella, serotyped and genotyped by whole genome sequencing (WGS) with the Illumina technology. Comparisons of S. Kedougou genomes have been carried out based on both core genome Multi-Locus Sequence Typing (cgMLST) and Single Locus Polymorphism (SNPs) analyses, using EnteroBase (http://enterobase.warwick.ac.uk). Among the 78 strains of S. Kedougou compared in this study, 70 strains from oats, feed factories and farms, showed a high genomic proximity harboring the same HC5|cluster (HC5|233926) and less than 40 SNPs of variability. This result highlighted raw material as a possible common source of contamination. Moreover, to study phylogenetic relationship among S. Kedougou genotypes, more than 300 genomes, available in EnteroBase have been integrated to the study panel. The cg-MLST analysis showed no similarity between the strains, except for four S. Kedougou isolated from humans in France, which shared the same HC5|cluster, supporting a possible link between feed, poultry and humans. However, these results require to be complemented with epidemiological data to confirm the path of contamination. In conclusion, the genotyping of S. Kedougou strains underlined a contamination of feed material, which could have spread in the poultry farms across the feed. This study highlights the importance of collecting quality epidemiological data and the very valuable contribution of genomes available on EnteroBase. The WGS method appears like an innovative, high performance method with a strong discriminating power, which can sometimes reveal discrepancies with the results obtained from the agglutination serotyping method.

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Dates et versions

hal-03845328 , version 1 (09-11-2022)

Identifiants

  • HAL Id : hal-03845328 , version 1

Citer

Laetitia Bonifait, Amandine Thépault, Louise Baugé, Markwitz Blandine, Bris Valérie, et al.. Salmonella kedougou, from feed to poultry farms using wgs. International Symposium Salmonella and Salmonellosis, Jun 2022, Saint-Malo, France. pp.40. ⟨hal-03845328⟩

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