| Accession | ARO:3002961 |
| Synonym(s) | vanY-M vanYM |
| CARD Short Name | vanY_in_vanM_cl |
| Definition | Also known as vanYM, is a vanY variant found in the vanM gene cluster. |
| AMR Gene Family | glycopeptide resistance gene cluster, vanY |
| Drug Class | glycopeptide antibiotic |
| Resistance Mechanism | antibiotic target alteration |
| Resistomes with Perfect Matches | Enterococcus faeciumg+p+wgs+gi, Klebsiella pneumoniaewgs |
| Resistomes with Sequence Variants | Bacillus amyloliquefacienswgs, Bacillus anthracisg+wgs, Bacillus cereusg+p+wgs, Bacillus pumilusg+wgs, Bacillus subtilisg+wgs, Bacillus thuringiensisg+p+wgs, Blautia productag+wgs, Borrelia crociduraeg, Borrelia recurrentisg, Borreliella afzeliig, Borreliella gariniig+wgs, Brachyspira pilosicoliwgs, Brevibacillus laterosporusg+wgs, Burkholderia multivoranswgs, Christensenella minutag+wgs, Clostridium botulinumg+wgs, Clostridium septicumg+wgs, Cutibacterium acneswgs, Enterococcus faeciumg+p+wgs+gi, Erysipelatoclostridium ramosumwgs, Faecalibacterium prausnitziig+wgs, Glutamicibacter creatinolyticusg, Klebsiella pneumoniaewgs, Klebsiella quasipneumoniaewgs, Kocuria palustriswgs, Leifsonia xylig+wgs, Listeria innocuag+wgs, Listeria monocytogenesg+p+wgs, Lysobacter oculig, Macrococcus canisg+wgs, Micrococcus luteusg+wgs, Paeniclostridium sordelliig+wgs, Parvimonas micrag+wgs, Pseudomonas syringaeg, Rothia mucilaginosag+wgs, Staphylococcus arlettaeg+wgs, Staphylococcus aureusg+wgs, Staphylococcus epidermidisg+wgs, Staphylococcus equorumg+p+wgs, Staphylococcus haemolyticusg+wgs, Staphylococcus pasteurig, Staphylococcus saprophyticusg+wgs, Staphylococcus simulansg+wgs, Staphylococcus warneriwgs, Stenotrophomonas maltophiliawgs, Streptococcus agalactiaeg+wgs, Streptococcus anginosusg+wgs, Streptococcus constellatusg+wgs, Streptococcus cristatusg+wgs, Streptococcus gordoniig+wgs, Streptococcus gwangjuenseg+wgs, Streptococcus intermediuswgs, Streptococcus mitisg+wgs, Streptococcus pneumoniaeg+wgs, Streptococcus pseudopneumoniaeg+wgs, Streptococcus pyogeneswgs, Streptococcus sanguinisg+wgs, Streptococcus suisg+wgs, Streptococcus urinalisg+wgs, Treponema denticolag+wgs, Treponema pallidumg+wgs, Xanthomonas campestrisg+wgs |
| Classification | 13 ontology terms | Show + process or component of antibiotic biology or chemistry + mechanism of antibiotic resistance + antibiotic target alteration [Resistance Mechanism] + restructuring of bacterial cell wall conferring antibiotic resistance + determinant of antibiotic resistance + antibiotic molecule + glycopeptide antibiotic [Drug Class] + protein(s) conferring antibiotic resistance via molecular bypass + antibiotic resistance gene cluster, cassette, or operon + gene(s) or protein(s) associated with a glycopeptide resistance cluster + glycopeptide resistance gene cluster [AMR Gene Family] + teicoplanin [Antibiotic] + vancomycin [Antibiotic] |
| Parent Term(s) | 2 ontology terms | Show |
| Publications | Xu X, et al. 2010. Antimicrob Agents Chemother 54(11): 4643-4647. vanM, a new glycopeptide resistance gene cluster found in Enterococcus faecium. (PMID 20733041) |
Prevalence of vanY gene in vanM cluster among the sequenced genomes, plasmids, and whole-genome shotgun assemblies available at NCBI or IslandViewer for 413 important pathogens (see methodological details and complete list of analyzed pathogens). Values reflect percentage of genomes, plasmids, genome islands, or whole-genome shotgun assemblies that have at least one hit to the AMR detection model. Default view includes percentages calculated based on Perfect plus Strict RGI hits. Select the checkbox to view percentages based on only Perfect matches to AMR reference sequences curated in CARD (note: this excludes resistance via mutation as references in protein variant models are often wild-type, sensitive sequences).
| Species | NCBI Chromosome | NCBI Plasmid | NCBI WGS | NCBI GI |
|---|---|---|---|---|
| Bacillus amyloliquefaciens | 0% | 0% | 1.12% | 0% |
| Bacillus anthracis | 97.54% | 0% | 71.93% | 0% |
| Bacillus cereus | 72.04% | 1.82% | 77.77% | 0% |
| Bacillus pumilus | 15% | 0% | 1.12% | 0% |
| Bacillus subtilis | 64.52% | 0% | 55.2% | 0% |
| Bacillus thuringiensis | 91.25% | 0.39% | 88.48% | 0% |
| Blautia producta | 66.67% | 0% | 54.55% | 0% |
| Borrelia crocidurae | 100% | 0% | 0% | 0% |
| Borrelia recurrentis | 100% | 0% | 0% | 0% |
| Borreliella afzelii | 42.42% | 0% | 0% | 0% |
| Borreliella garinii | 9.86% | 0% | 5.95% | 0% |
| Brachyspira pilosicoli | 0% | 0% | 4.55% | 0% |
| Brevibacillus laterosporus | 50% | 0% | 58.82% | 0% |
| Burkholderia multivorans | 0% | 0% | 0.24% | 0% |
| Christensenella minuta | 100% | 0% | 100% | 0% |
| Clostridium botulinum | 1.49% | 0% | 0.82% | 0% |
| Clostridium septicum | 100% | 0% | 100% | 0% |
| Cutibacterium acnes | 0% | 0% | 0.26% | 0% |
| Enterococcus faecium | 0.96% | 0.26% | 0.44% | 1.96% |
| Erysipelatoclostridium ramosum | 0% | 0% | 1.16% | 0% |
| Escherichia coli | 0% | 0% | 0% | 0% |
| Faecalibacterium prausnitzii | 20% | 0% | 2.91% | 0% |
| Glutamicibacter creatinolyticus | 100% | 0% | 0% | 0% |
| Klebsiella pneumoniae | 0% | 0% | 0.02% | 0% |
| Klebsiella quasipneumoniae | 0% | 0% | 0.13% | 0% |
| Kocuria palustris | 0% | 0% | 5.56% | 0% |
| Leifsonia xyli | 100% | 0% | 100% | 0% |
| Listeria innocua | 5.88% | 0% | 5.26% | 0% |
| Listeria monocytogenes | 99.44% | 0.97% | 74.36% | 0% |
| Lysobacter oculi | 100% | 0% | 0% | 0% |
| Macrococcus canis | 78.57% | 0% | 62.5% | 0% |
| Micrococcus luteus | 61.11% | 0% | 58.89% | 0% |
| Paeniclostridium sordellii | 100% | 0% | 96.61% | 0% |
| Parvimonas micra | 30% | 0% | 25% | 0% |
| Pseudomonas syringae | 2.08% | 0% | 0% | 0% |
| Rothia mucilaginosa | 60% | 0% | 63.16% | 0% |
| Staphylococcus arlettae | 100% | 0% | 85% | 0% |
| Staphylococcus aureus | 3.49% | 0% | 0.16% | 0% |
| Staphylococcus epidermidis | 3.87% | 0% | 1.51% | 0% |
| Staphylococcus equorum | 100% | 2.7% | 78.57% | 0% |
| Staphylococcus haemolyticus | 51.72% | 0% | 36.26% | 0% |
| Staphylococcus pasteuri | 12.5% | 0% | 0% | 0% |
| Staphylococcus saprophyticus | 100% | 0% | 74.83% | 0% |
| Staphylococcus simulans | 100% | 0% | 94.92% | 0% |
| Staphylococcus warneri | 0% | 0% | 4.1% | 0% |
| Stenotrophomonas maltophilia | 0% | 0% | 0.74% | 0% |
| Streptococcus agalactiae | 2.8% | 0% | 0.26% | 0% |
| Streptococcus anginosus | 100% | 0% | 50.88% | 0% |
| Streptococcus constellatus | 100% | 0% | 81.82% | 0% |
| Streptococcus cristatus | 100% | 0% | 100% | 0% |
| Streptococcus gordonii | 100% | 0% | 65.38% | 0% |
| Streptococcus gwangjuense | 100% | 0% | 100% | 0% |
| Streptococcus intermedius | 0% | 0% | 4.55% | 0% |
| Streptococcus mitis | 100% | 0% | 73.74% | 0% |
| Streptococcus pneumoniae | 75.73% | 0% | 67.68% | 0% |
| Streptococcus pseudopneumoniae | 100% | 0% | 76.27% | 0% |
| Streptococcus pyogenes | 0% | 0% | 0.1% | 0% |
| Streptococcus sanguinis | 28.57% | 0% | 26.8% | 0% |
| Streptococcus suis | 12% | 0% | 6.35% | 0% |
| Streptococcus urinalis | 100% | 0% | 100% | 0% |
| Treponema denticola | 100% | 0% | 41.18% | 0% |
| Treponema pallidum | 100% | 0% | 44.44% | 0% |
| Xanthomonas campestris | 1.06% | 0% | 0.79% | 0% |
Model Type: protein homolog model
Model Definition: Protein Homolog Models (PHM) detect protein sequences based on their similarity to a curated reference sequence, using curated BLASTP bitscore cut-offs. Protein Homolog Models apply to all genes that confer resistance through their presence in an organism, such as the presence of a beta-lactamase gene on a plasmid. PHMs include a reference sequence and a bitscore cut-off for detection using BLASTP. A Perfect RGI match is 100% identical to the reference protein sequence along its entire length, a Strict RGI match is not identical but the bit-score of the matched sequence is greater than the curated BLASTP bit-score cutoff, Loose RGI matches have a bit-score less than the curated BLASTP bit-score cut-off.
Bit-score Cut-off (blastP): 50