Institute of Biotechnology, Addis Ababa University, Addis Ababa, Ethiopia.
Department of Biology, College of Natural and Computational Sciences, Arba Minch University, Arba Minch, Ethiopia.
PLoS One. 2024 Aug 19;19(8):e0305581. doi: 10.1371/journal.pone.0305581. eCollection 2024.
Campylobacteriosis outbreaks have previously been linked to dairy foods. While the genetic diversity of Campylobacter is well understood in high-income countries, it is largely unknown in low-income countries, such as Ethiopia. This study therefore aimed to conduct the first genomic characterization of Campylobacter isolates from the Ethiopian dairy supply chain to aid in future epidemiological studies. Fourteen C. jejuni and four C. coli isolates were whole genome sequenced using an Illumina platform. Sequences were analyzed using the bioinformatics tools in the GalaxyTrakr platform to identify MLST types, and single nucleotide polymorphisms, and infer phylogenetic relationships among the studied isolates. Assembled genomes were further screened to detect antimicrobial resistance and virulence gene sequences. Among 14 C. jejuni, ST 2084 and ST 51, which belong to the clonal complexes ST-353 and ST-443, respectively, were identified. Among the 4 sequenced C. coli isolates, two isolates belonged to ST 1628 and two to ST 830 from the clonal complex ST-828. The isolates of C. jejuni ST 2084 and ST 51 carried β-lactam resistance gene blaOXA-605, a fluoroquinolone resistance-associated mutation T86I in the gryA gene, and a macrolide resistance-associated mutation A103V in 50S L22. Only ST 2084 isolates carried the tetracycline resistance gene tetO. Conversely, all four C. coli ST 830 and ST 1628 isolates carried tetO, but only ST 1628 isolates also carried blaOXA-605. Lastly, C. jejuni ST 2084 isolates carried a total of 89 virulence genes, and ST 51 isolates carried up to 88 virulence genes. Among C. coli, ST 830 isolates carried 71 genes involved in virulence, whereas two ST 1628 isolates carried up to 82 genes involved in virulence. Isolates from all identified STs have previously been isolated from human clinical cases, demonstrating a potential food safety concern. This finding warrants further monitoring of Campylobacter in dairy foods in Ethiopia to better understand and manage the risks associated with Campylobacter contamination and transmission.
弯曲菌病爆发以前与奶制品有关。虽然在高收入国家弯曲菌的遗传多样性已得到充分了解，但在埃塞俄比亚等低收入国家，这方面的情况还知之甚少。因此，本研究旨在对埃塞俄比亚奶制品供应链中的弯曲菌分离株进行首次基因组特征分析，以帮助开展未来的流行病学研究。14 株空肠弯曲菌和 4 株大肠弯曲菌使用 Illumina 平台进行全基因组测序。使用 GalaxyTrakr 平台中的生物信息学工具对序列进行分析，以鉴定 MLST 型、单核苷酸多态性，并推断研究分离株之间的系统发育关系。组装的基因组进一步进行筛选，以检测抗生素耐药性和毒力基因序列。在 14 株空肠弯曲菌中，分别属于克隆复合体 ST-353 和 ST-443 的 ST-2084 和 ST-51 被鉴定出来。在 4 株测序的大肠弯曲菌中，2 株属于克隆复合体 ST-828 的 ST-1628，2 株属于 ST-830。空肠弯曲菌 ST-2084 和 ST-51 携带β-内酰胺耐药基因 blaOXA-605、在 gryA 基因中与氟喹诺酮耐药相关的突变 T86I，以及在 50S L22 中与大环内酯耐药相关的突变 A103V。只有 ST-2084 分离株携带四环素耐药基因 tetO。相反，所有 4 株大肠弯曲菌 ST-830 和 ST-1628 分离株都携带 tetO，但只有 ST-1628 分离株也携带 blaOXA-605。最后，空肠弯曲菌 ST-2084 分离株总共携带 89 个毒力基因，ST-51 分离株携带多达 88 个毒力基因。在大肠弯曲菌中，ST-830 分离株携带 71 个与毒力相关的基因，而 2 株 ST-1628 分离株携带多达 82 个与毒力相关的基因。所有鉴定的 ST 分离株以前都从人类临床病例中分离出来，这表明存在食品安全隐患。这一发现需要进一步监测埃塞俄比亚奶制品中的弯曲菌，以更好地了解和管理与弯曲菌污染和传播相关的风险。
