TABLE 2.

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
Spring
    ExPEC
        UPEC4071112
        MNEC302111
        Incomplete ExPEC9093116
        Subtotal160185239
    Enteric E. coli
        EAEC003221
        ETEC000011
        Atypical EPEC000000
        Subtotal003232
    Nonpathogenic493384347
    Total65359116018
Summer
    ExPEC
        UPEC201130
        MNEC000000
        Incomplete ExPEC1103141
        Subtotal1304271
    Enteric E. coli
        EAEC000000
        ETEC000000
        Atypical EPEC000010
        Subtotal000010
    Nonpathogenic321362315
    Total451404396
  • 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.