Genomic analysis of Escherichia coli isolates from a chicken hatchery

Kód výsledku v IS VaVaI

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Nalezeny alternativní kódy

RIV/62157124:16810/22:43880357

Výsledek na webu

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DOI - Digital Object Identifier

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Jazyk výsledku

angličtina

Název v původním jazyce

Genomic analysis of Escherichia coli isolates from a chicken hatchery

Popis výsledku v původním jazyce

E. coli is one of the most important bacterial pathogens in commercial poultry. Recent research shows that pathogenic poultry strains (APEC) form a dynamic variable population in which &quot;risk&quot; genotypes and clonal lines play an important role. These can also spread vertically from parent farms to offspring, potentially from poultry products to consumers. Hatcheries appear to be a key site of cross-contamination and primary colonization of newly hatched chickens. Samples of shells and dust were taken from hatchery boxes in a commercial hatchery in the years 2020-21. Based onpreliminary characterization, 74 E. coli isolates were selected for whole genome sequencing by Illumina. The acquired data were analyzed by available tools to obtain a complex genetic characterization (VirulenceFinder, ResFinder, SeroTypeFinder, PlasmidFinder) and phylogeneticanalysis (MLST, pMLST). In contrast to previously analyzed clinical isolates, the B1 phylogenetic group dominated among the hatchery population, with a high prevalence of ST155 and ST162. Typical APEC genotypes, especially ST23 and ST117, were detected sporadically, which provestheir occurrence in the hatchery environment, where they readily colonize day-old chicks. Repeated detection could indicate their persistence in parent flocks or their spread between farms, presumably through hatcheries. Whole genome sequencing makes a fundamental tool for monitoring the occurrence of risk lines in the production chain of commercial poultry. Only long-term sampling at different levels of the pyramid with detailed genetic analysis will provide sufficient data to assess the significance of E. coli risk clonal lines in poultry.

Název v anglickém jazyce

Genomic analysis of Escherichia coli isolates from a chicken hatchery

Popis výsledku anglicky

E. coli is one of the most important bacterial pathogens in commercial poultry. Recent research shows that pathogenic poultry strains (APEC) form a dynamic variable population in which &quot;risk&quot; genotypes and clonal lines play an important role. These can also spread vertically from parent farms to offspring, potentially from poultry products to consumers. Hatcheries appear to be a key site of cross-contamination and primary colonization of newly hatched chickens. Samples of shells and dust were taken from hatchery boxes in a commercial hatchery in the years 2020-21. Based onpreliminary characterization, 74 E. coli isolates were selected for whole genome sequencing by Illumina. The acquired data were analyzed by available tools to obtain a complex genetic characterization (VirulenceFinder, ResFinder, SeroTypeFinder, PlasmidFinder) and phylogeneticanalysis (MLST, pMLST). In contrast to previously analyzed clinical isolates, the B1 phylogenetic group dominated among the hatchery population, with a high prevalence of ST155 and ST162. Typical APEC genotypes, especially ST23 and ST117, were detected sporadically, which provestheir occurrence in the hatchery environment, where they readily colonize day-old chicks. Repeated detection could indicate their persistence in parent flocks or their spread between farms, presumably through hatcheries. Whole genome sequencing makes a fundamental tool for monitoring the occurrence of risk lines in the production chain of commercial poultry. Only long-term sampling at different levels of the pyramid with detailed genetic analysis will provide sufficient data to assess the significance of E. coli risk clonal lines in poultry.

Druh

O - Ostatní výsledky

CEP obor

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OECD FORD obor

40301 - Veterinary science

Projekt

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Návaznosti

I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace

Rok uplatnění

2022

Kód důvěrnosti údajů

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů