PMC

Ribotyping profiles of some isolates (1-7) and standards (8-13) placed the library of riboprinter system (DuPont) 1) Pseudomonas species (S=0,96: RG= ECORI-S-1), 2) Aeromonas salmonicida (S=0,82: RG= ECORI-S-3), 3) Aeromonas hydrophila (S=0,83: RG= ECORI-S-4), 4) Aeromonas media (S=0,76: RG= ECORI-S-5), 5) Aeromonas salmonicida (S=0,84: RG= ECORI-S-3), 6) Pseudomonas maltophilia (S=0,80: RG= ECORI-S-7), 7) Aeromonas hydrophila (S=0,84: RG= ECORI-S-4), 8) Pseudomonas maltophila DUP 14785, 9) Pseudomonas species DUP 16385, 10) Aeromonas hydrophila DUP 18068, 11) Aeromonas salmonicida DUP 18264, 12) Aeromonas media DUP 18578, 13) E coli DUP 3039 (S: Similarity, RG: Ribogrup)

Identification of Aeromonas species through use of multilocus phylogenetic analysis. Aeromonas isolates were subjected to species identification based on the sequences of seven housekeeping genes, namely gyrB, rpoD, gyrA, recA, dnaJ, dnaX and atpD. Bootstrap values were generated from 1000 replicates. Bootstrap values between 0.7 and 1 are shown. Of the 48 Aeromonas isolates (blue) subjected to analysis, 25 isolates were Aeromonas veronii, 13 isolates were Aeromonas caviae, six isolates were Aeromonas hydrophila, two isolates were Aeromonas dhakensis and two isolates were Aeromonas rivipollensis.

Comparative genome analysis of Aeromonas veronii strain RL. a Phylogenetic relatedness of Aeromonas veronii strain RL based on the average nucleotide identity values. b Distribution of gene clusters (core and strain-specific content) in Aeromonas veronii strain RL and its other closely related strains. The diagram is based on presence and absence of genes using Euclidean distance and Ward linkage. The strains’ name are used to represent the genotypes for different strains of Aeromonas veronii, RL – Aeromonas veronii RL, sp. 159 – Aeromonas sp. 159, AER39 – Aeromonas veronii AER39, AER397 – Aeromonas veronii AER397, AMC34 – Aeromonas veronii AMC34, AMC35 – Aeromonas veronii AMC35, B565 – Aeromonas veronii B565, TH0426 – Aeromonas veronii TH0426

Genetic relatedness analysis of KPC-2-producing Aeromonas spp. isolates. Pan-genome analysis of A. taiwanensis isolates and other Aeromonas isolates by using Roary. The blue bars indicate the pan-genome of Aeromonas isolates, with 26,778 annotated genes detected in all the genomes analyzed. All the complete genome sequences of representative Aeromonas strains were downloaded from NCBI Genome database and used for phylogenetic analysis: Aeromonas aquatica strain MX16A (CP018201), A. hydrophila 4AK4 (CP006579), A. hydrophila strain AH10 (CP011100), A. hydrophila strain AHNIH1 (CP016380), A. hydrophila strain AL06-06 (CP010947), A. hydrophila AL09-71 (CP007566), A. hydrophila subsp. hydrophila ATCC 7966 (NC_008570), A. hydrophila strain D4 (CP013965), A. hydrophila strain GYK1 (CP016392), A. hydrophila J-1 (CP006883), A. hydrophila strain JBN2301 (CP013178), A. hydrophila ML09-119 (NC_021290), A. hydrophila NJ-35 (CP006870), A. hydrophila pc104A (CP007576), A. hydrophila YL17 (CP007518), Aeromonas media WS (CP007567), Aeromonas salmonicida subsp. salmonicida A449 (NC_009348), Aeromonas taiwanensis LMG 24683 (GCA_000820165), Aeromonas veronii strain AVNIH1 (CP014774), and Aeromonas veronii strain TH0426 (CP012504). A. taiwanensis isolates described in this study were colored as red.