Microbes and Food Safety, Quadram Institute Bioscience, Norwich, UK.
Core Science Resources, Quadram Institute Bioscience, Norwich, UK.
Epidemiol Infect. 2024 Aug 22;152:e101. doi: 10.1017/S0950268824000906.
spp. are leading bacterial gastroenteritis pathogens. Infections are largely underreported, and the burden of outbreaks may be underestimated. Current strategies of testing as few as one isolate per sample can affect attribution of cases to epidemiologically important sources with high diversity, such as chicken meat. Multiple culture method combinations were utilized to recover and sequence from 45 retail chicken samples purchased across Norwich, UK, selecting up to 48 isolates per sample. Simulations based on resampling were used to assess the impact of sequence type (ST) diversity on outbreak detection. was recovered from 39 samples (87%), although only one sample was positive through all broth, temperature, and plate combinations. Three species were identified (, , and ), and 33% of samples contained two species. Positive samples contained 1-8 STs. Simulation revealed that up to 87 isolates per sample would be required to detect 95% of the observed ST diversity, and 26 isolates would be required for the average probability of detecting a random theoretical outbreak ST to reach 95%. An optimized culture approach and selecting multiple isolates per sample are essential for more complete recovery to support outbreak investigation and source attribution.
spp. 是主要的细菌性肠胃炎病原体。感染的报告数量很大程度上被低估了，爆发的负担可能也被低估了。目前的检测策略是每个样本检测一个分离株，这可能会影响对具有高多样性的重要流行病学来源的病例的归因，例如鸡肉。利用多种培养方法组合从英国诺维奇购买的 45 个零售鸡肉样本中进行回收和测序，每个样本最多可选择 48 个分离株。基于重采样的模拟用于评估序列型 (ST) 多样性对爆发检测的影响。从 39 个样本中（87%）回收了 ，尽管只有一个样本通过所有肉汤、温度和板组合呈阳性。鉴定出了 3 个种（ 、 和 ），33%的样本含有 2 个种。阳性样本中含有 1-8 个 ST。模拟表明，每个样本需要多达 87 个分离株才能检测到观察到的 ST 多样性的 95%，而需要 26 个分离株才能使检测到随机理论爆发 ST 的平均概率达到 95%。优化的培养方法和每个样本选择多个分离株对于更完整的 回收以支持爆发调查和来源归因至关重要。
