TABLE 3

Major regions of differences identified in VR50 compared to other E. coli strains

IdentifierStart nucleotideEnd nucleotideSize (bp)Insertion siteVirulence-related or other notable gene(s)Description
RD-124401227770433,692aspV tRNAyafTLipoprotein
RD-21527896154789219,996ydbL_ynbGfeaRB, paaABCDEFGHIJKXYPhenylacetic acid degradation
RD-32125253216003334,780asnT tRNAYersiniabactin-biosynthetic cluster99% similar to high-pathogenicity island (HPI) from Yersinia pestis
RD-42172863219285119,988yeeHaflu1Antigen 43 phase-variable biofilm formation autotransporter
RD-5221648022255249,044gnd_galFO-antigen region
RD-6303759230472329,640iap_cysHCRISPR locusCRISPR 2.1
RD-73157781316995112,170glyU tRNAETT2 cluster remnantT3SSb-related genes; similar to ETT2 sepsis (eprKa, epaS1a, eivJ2a, and eivICAEGF missing)
RD-832951043407870112,766pheV tRNApap cluster remnant; iuc, iha, flu2, sat, and afaABCDE kps clusterGI-VR50 pheV capsular biosynthesis gene cluster
RD-93407872344292035,048kpsM_yghGgsp1 glcABGFEDCT2SSc-related genes (general secretory pathway); glycolate metabolism genes
RD-103770072378278412,712rpsJ_bfrgsp2 cryptic clusterT2SS-related genes (general secretory pathway; cryptic)
RD-113952087396510613,019yhiM_yhiNTn7-related genes
RD-124403223441979416,571typA_dtdyihLMN, ompL, and yihOPQRSTUVWXYSugar catabolism
RD-134704726471863913,913pheU tRNAfecIRABCDE regulonIron dicitrate transport
RD-144859525487484915,324leuX tRNAPutative oxidoreductase putative transporters
RD-154912259494750335,244nanS_yjiAhsdRMS, mrr, and mcrBC sgcXBCQAERRestriction-modification enzymes pentose and pentitol sugar breakdown
  • a Pseudogene.

  • b T3SS, type III secretion system.

  • c T2SS, type II secretion system.