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Abstract：
Escherichia coli is an indicator micro-organism in One Health antibiotic resistance surveillance programs. The purpose of the study was to describe and compare E. coli isolates obtained from pigs and human contacts from a commercial farm in South Africa using conventional methods and whole-genome sequencing (WGS). Porcine E. coli isolates were proportionally more resistant phenotypically and harbored a richer diversity of antibiotic resistance genes as compared to human E. coli isolates. Different pathovars, namely ExPEC (12.43%, 21/169), ETEC (4.14%, 7/169), EPEC (2.96%, 5/169), EAEC (2.96%, 5/169) and STEC (1.18%, 2/169), were detected at low frequencies. Sequence type complex (STc) 10 was the most prevalent (85.51%, 59/169) among human and porcine isolates. Six STcs (STc10, STc86, STc168, STc206, STc278 and STc469) were shared at the human-livestock interface according to multilocus sequence typing (MLST). Core-genome MLST and hierarchical clustering (HC) showed that human and porcine isolates were overall genetically diverse, but some clustering at HC2-HC200 was observed. In conclusion, even though the isolates shared a spatiotemporal relationship, there were still differences in the virulence potential, antibiotic resistance profiles and cgMLST and HC according to the source of isolation.
摘要：
大肠杆菌是OneHealth抗生素耐药性监测计划中的指示微生物。该研究的目的是描述和比较使用常规方法和全基因组测序（WGS）从南非商业农场的猪和人类接触物中获得的大肠杆菌分离株。与人大肠杆菌分离株相比,猪大肠杆菌分离株在表型上具有更大的抗性,并且具有更丰富的抗生素抗性基因多样性。不同的路径，即ExPEC（12.43%，21/169),ETEC（4.14%，7/169），EPEC（2.96%，5/169），EAEC（2.96%，5/169）和STEC（1.18%，2/169），在低频检测到。序列型复合体(STc)10是最普遍的(85.51%，59/169）在人和猪分离株中。根据多位点序列分型（MLST），在人畜界面共享六个STcs（STc10，STc86，STc168，STc206，STc278和STc469）。核心基因组MLST和分层聚类（HC）表明，人和猪分离株总体遗传多样性，但在HC2-HC200处观察到一些聚集。总之,即使这些分离株有时空关系，毒力潜力仍然存在差异，根据分离来源，抗生素耐药性谱和cgMLST和HC。
