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Table 1 Resistance-associated genes in Providencia rettgeri strains GMR-RA257 and GMR-RA1153

From: Genome-based characterization of two Colombian clinical Providencia rettgeri isolates co-harboring NDM-1, VIM-2, and other β-lactamases

Resistance category Resistance gene Groups/Classes Gene location (C) Chromosome or (P) Plasmid e GMR-RA257 a GMR-RA1153 a
Antibiotic degradation or modification blaNDM-1 β-lactams P 100.00 100.00
blaVIM-2 P 100.00 100.00
blaCTX-M-15 P 100.00 100.00
blaCMY-2 P 100.00 100.00
blaOXA-10 P 100.00 100.00
blaTEM-1 P 100.00 100.00
ant(2″)-Ia Aminoglycosides P 100.00 100.00
aph(3′)-VI P 100.00 100.00
aac(6′)-Il P 100.00 100.00
aadA1 P 100.00 100.00
sul1 Sulphonamides P 100.00 100.00
sul2 P 100.00 100.00
qnrD1 Fluoroquinolones P 100.00 100.00
cmlA1 Phenicol C 100.00 100.00
ARR-2 Rifampicin P 100.00 100.00
tet (59) Tetracyclines C 100.00 100.00
dfrA6 Trimethoprim P 100.00 100.00
Antibiotic target alteration arnA Peptide antibiotics C 100.00 100.00
PmrE C 100.00 100.00
PmrF C 100.00 100.00
LpxA C 100.00 100.00
LpxC C 100.00 100.00
gyrBb Fluoroquinolone antibiotics C 100.00 100.00
parCb
parEb
P
P
100.00
100.00
100.00
100.00
folP Sulphonamides C 100.00 100.00
murA Fosfomycin C 100.00 100.00
rpoB Rifamycin C 100.00 100.00
rpsL Aminoglycoside antibiotics C 100.00 100.00
tet34 tetracyclines C 100.00 100.00
Efflux pumps MdtABC-TolC RNDc mdtA Aminocoumarin antibiotics C 100.00 100.00
mdtB C 100.00 100.00
mdtC C 100.00 100.00
baeR C 100.00 100.00
baeS C 100.00 100.00
CpxA C 99.93 99.93
CpxR C 100.00 100.00
TolC C 100.00 100.00
EmrAB-TolC MFSd emrA Fluoroquinolones C 100.00 100.00
emrB C 100.00 100.00
emrR C 100.00 100.00
TolC C 100.00 100.00
AcrAB-TolC RNDb AcrA Tetracyclines, cephalosporins, phenicol, rifamycin, fluoroquinolones C 100.00 100.00
AcrB C 100.00 100.00
AcrR C 100.00 100.00
TolC C 100.00 100.00
RosAB MFSd rosA peptides C 100.00 100.00
rosB C 100.00 100.00
EmrD MFSd EmrD antibiotic efflux C 100.00 100.00
mdtH MFSd mdtH antibiotic efflux C 100.00 100.00
cmlA5 MFSd cmlA5 phenicol antibiotic P 100.00 100.00
  1. a % identity with GenBank RefSeq DNA sequences
  2. b Gene genetic variants described previously causing resistance to fluoroquinolones [37, 38]
  3. c RND: resistance-nodulation-cell division (RND) antibiotic efflux pump
  4. d MFS: major facilitator superfamily, antibiotic efflux pump
  5. e The gene plasmid location was confirmed by the high deep of coverage of their contigs in comparison with the mean coverage of the genome contigs, and the plasmid contig identification made using PlasmiSPAdes (SPAdes v3.8.0) [39] and PlasFlow 1.1 [40]