Pathotypes and presence of antimicrobial resistance genes in E. coli isolates at different sampling locations during the spring and summer

PathotypeaNo. of isolates from indicated depth
Ankle depth6 mHarbor (24 m)
TotalWith antimicrobial resistanceTotalWith antimicrobial resistanceTotalWith antimicrobial resistance
        Incomplete ExPEC9093116
    Enteric E. coli
        Atypical EPEC000000
        Incomplete ExPEC1103141
    Enteric E. coli
        Atypical EPEC000010
  • a Pathotypes were attributed to E. coli samples based on their sets of virulence genes or markers, as follows: for EAEC, capU, shf, virK, and aggregative adherence fimbria-encoding genes; for ETEC, heat-stable and heat-labile toxin-encoding genes and F4 and F18 fimbria-encoding genes; for atypical EPEC, espA, espB, tir, eae and variants, and absence of bfpA; for UPEC, P pilus-encoding genes, hlyA, S fimbria-encoding genes, chuA, fepC, cnf1, irp1, irp2, fyuA, iroN, and usp; for MNEC, ibeA, neuA, and neuC; and for incomplete ExPEC, kpsM, iutA, iucD, traT, malX, irp1, irp2, fyuA, chuA, fepC, iss, and kfiB.