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Table 1 Typing results and gene detections of the E. coli strains 803-18 and 844-18

From: Genome sequences of two clinical Escherichia coli isolates harboring the novel colistin-resistance gene variants mcr-1.26 and mcr-1.27

Strain no.

Genotyping/phylogeny

Resistance gene detection

Antibiotic susceptibility testing

Plasmid content analyses

Virulence gene detection

E. coli phylogenetic groupa

Multilocus sequence type (ST)b

complex type (CT)b

Resistance genes PCR

Resistance genes ResFinderc

Resistance to antibioticsd

Replicon prediction with PlasmidFinderc

Plasmid sizes S1-PFGEe

Virulence gene {protein function} VirulenceFinderc

803-18

B1

ST155

CT7500

blaTEM, mcr-1-like

blaTEM-1B, mcr-1-like, aadA17-like, strA-like,strB-like, tetA, sul2, dfrA14-like, lnuF

AMP, PIP, CST, STRf, NALf, MOX, CIP, TETf, SXT

IncFIC(FII), IncFIB(AP001918), IncI1,

IncX4, ColRNAI, Col(MG828)

33 kb, 90 kb, 100 kb

gad{glutamate decarboxylase}, iroN{enterobactin siderophore receptor protein}, iss{increased serum survival}, lpfA{long polar fimbriae}

844-18

D

ST69

CT7508

blaTEM, mcr-1-like

blaTEM-1B, mcr-1-like, aadA1, mph(B), dfrA1, tetA, sul1, catA1-like

AMP, PIP, CST, NALf, MOX, CIP, TETf, CMP, SXT

IncFII, IncFIB(AP001918), IncX4, Col(BS512), ColRNAI, Col156, Col(MG828)

33 kb, 80 kb, 160 kb

air{enteroaggregative immunoglobulin repeat protein}, cma{colicin M}, eilA{Salmonella HilA homolog}, gad{glutamate decarboxylase}, iroN{enterobactin siderophore receptor protein}, iss{increased serum survival}, lpfA{long polar fimbriae}

  1. aPCR according to Clermont et al. [8]; binformation extracted from whole-genome sequence (WGS) data (Illumina, HiSeq), using the SeqSphere+ software suite (v 6.0.0) with integrated MLST and cgMLST schemes (https://enterobase.warwick.ac.uk/species/index/ecoli; http://www.ridom.de/seqsphere/u/Task_Template_Sphere.html); cinformation extracted from WGS data, ResFinder (v 3.2)/PlasmidFinder (v 2.1)/VirulenceFinder (v 2.0) (http://www.genomicepidemiology.org/); dBroth microdilution and automated testing (VITEK 2, card AST N248) according to EUCAST (v 10.0); abbreviations of antibiotics: ampicillin (AMP), piperacillin (PIP), colistin (COL), sulfamethoxaole-trimethoprim (SXT), nalidixic acid (NAL), moxifloxacin (MOX), ciprofloxacin (CIP), oxytetracycline (OTE), streptomycin (STR); eS1-nuclease restriction of whole genomic DNA and pulsed-field gel electrophoresis (PFGE) according to Barton et al. [9]; ffor these substance only epidemiological cut-off values (ECOFFs) are available to separates microorganisms without (wild type) and with acquired resistance mechanisms (non-wild type) to the agent in question (http://www.eucast.org); In bold print: plasmid replicon type (incompatibility group) of plasmids that carry the colistin resistance gene mcr-1-like