Whole-genome analyses of extended-spectrum or AmpC β-lactamase-producing Escherichia coli isolates from companion dogs in Japan
Fig 1
Characteristics of ESBL-producing E. coli ST131 isolates.
(A) A maximum likelihood chromosomal phylogenetic tree based on core-genome wide SNPs depicts four ESBL-producing E. coli isolates of the ST131 lineage C1-M27 from companion dogs (underlined) along with those from the human-derived ST131 lineage C1-M27 (red), clade C1/H30R harboring blaCTX-M-14 (green), and clade C2/H30Rx harboring blaCTX-M-15 (blue), which were extracted from the NCBI database. E. coli JJ1886 was used as a reference strain. The chromosomal sequence of the ST998 isolate 128S in this study was used as the outgroup. (B) The blaCTX-M-27-coding plasmids isolated in this study were compared with a highly similar plasmid, pH105, from E. coli strain 105. Homologous regions are shaded gray. The orange bars are enlarged in Fig 1C. (C) An enlargement of partial sequences of the blaCTX-M-27-coding plasmid depicted in Fig 1B. Genetic elements are indicated by colors as follows: blaCTX-M-27, red; other antimicrobial resistance genes, orange; IS26 tnpA, blue; IS903D tnpA, green; other mobile genetic elements, black. Genes are indicated by numbers as follows: dfrA17, 1; aadA5, 2; sul1, 3; mph(A), 4; sul2, 5; aph(3′′)-Ib, 6; aph(6)-Id, 7; tetA, 8. (D) Details of the blaCTX-M-27 transposon elements of 026F2p2, 048Fp2, 056Sp3 (upper panel), and 082Sp2 (lower panel). IRL and IRR are inverted repeats of each insertion sequence. Nucleotide sequences of each IR are as follows: IS26-IRL, GGCACTGTTGCAAA; IS26-IRR, TTTGCAACAGTGCC; IS903D-IRL, GGTTTTGTTGAATAAATC; IS903D-IRR, GATTTATTCAACAAAGCC; ISEcp1-IRR, ACTGTTAATTTAGG. Accession numbers of human-derived ST131 isolates and plasmids are as follows: JJ1886, PRJNA218163; TO148, PRJEB27474; EC958, PRJNA283246; B36, PRJEB29930; AZ162, SAMN06187728; AR_0055, PRJNA292904; TO143, PRJEB27473; TO60, PRJEB27477; str81009, PRJNA383781; H105, PRJNA387731; BRG120, SAMD00044968; KUN3594, SAMD00044940; KSEC29, SAMD00044934; BRG274, SAMD00044971; KN94, SAMD00044963; KS46, SAMD00044955; ECpH105, CP021871.1.