APH(6)-Id

Accession ARO:3002660
Synonym(s)strB, orfI
CARD Short NameAPH(6)-Id
DefinitionAPH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids, integrative conjugative elements and chromosomal genomic islands in K. pneumoniae, Salmonella spp., E. coli, Shigella flexneri, Providencia alcalifaciens, Pseudomonas spp., V. cholerae, Edwardsiella tarda, Pasteurella multocida and Aeromonas bestiarum.
AMR Gene FamilyAPH(6)
Drug Classaminoglycoside antibiotic
Resistance Mechanismantibiotic inactivation
Resistomes with Sequence VariantsAchromobacter xylosoxidansg+wgs+gi, Acinetobacter baumanniig+p+wgs+gi, Acinetobacter defluviig+gi, Acinetobacter haemolyticusp+wgs+gi, Acinetobacter indicusg+p+wgs+gi, Acinetobacter johnsoniig+p+wgs+gi, Acinetobacter juniip+wgs, Acinetobacter lwoffiiwgs, Acinetobacter nosocomialisp+wgs, Acinetobacter pittiig+p+wgs, Acinetobacter radioresistenswgs, Acinetobacter townerig+p+wgs+gi, Acinetobacter wuhouensisp+wgs, Actinobacillus indolicusg+gi, Actinobacillus pleuropneumoniaeg, Aeromonas caviaeg+p+wgs+gi, Aeromonas hydrophilag+p+wgs, Aeromonas veroniig+p+wgs, Alcaligenes faecalisg+p+wgs+gi, Avibacterium paragallinarumg+wgs, Bacteroides thetaiotaomicronwgs, Bordetella bronchisepticawgs, Burkholderia ambifariawgs, Burkholderia cenocepaciag+wgs, Burkholderia cepaciawgs, Burkholderia multivoranswgs, Burkholderia vietnamiensiswgs, Citrobacter amalonaticusp+wgs, Citrobacter freundiip+wgs+gi, Citrobacter koserig+p+wgs, Citrobacter portucalensisg+p+wgs, Citrobacter werkmaniip+wgs, Citrobacter youngaep, Comamonas testosteronip, Corynebacterium amycolatumg+wgs, Corynebacterium diphtheriaeg+wgs, Corynebacterium imitansg+gi, Corynebacterium jeikeiumwgs, Corynebacterium urealyticumwgs+gi, Cronobacter dublinensiswgs, Cronobacter malonaticuswgs, Cronobacter sakazakiiwgs, Edwardsiella tardap, Enterobacter asburiaep+wgs, Enterobacter cancerogenusp, Enterobacter chengduensiswgs, Enterobacter cloacaeg+p+wgs, Enterobacter hormaecheig+p+wgs+gi, Enterobacter kobeip+wgs, Enterobacter roggenkampiip+wgs, Escherichia albertiig+p+wgs, Escherichia colig+p+wgs+gi, Escherichia fergusoniig+p+wgs, Escherichia marmotaep, Faecalibacterium prausnitziiwgs, Glaesserella parasuisg+wgs+gi, Haemophilus influenzaeg+wgs, Haemophilus parainfluenzaeg+wgs, Histophilus somnig+wgs+gi, Kingella kingaegi, Klebsiella aerogenesg+p+wgs+gi, Klebsiella huaxiensisg+gi, Klebsiella michiganensisg+p+wgs, Klebsiella oxytocap+wgs, Klebsiella pneumoniaeg+p+wgs+gi, Klebsiella quasipneumoniaep+wgs, Laribacter hongkongensiswgs, Leclercia adecarboxylatag+p+wgs, Legionella pneumophilawgs, Moraxella osloensisp, Morganella morganiig+p+wgs+gi, Neisseria siccawgs, Pasteurella multocidag+wgs+gi, Phocaeicola doreiwgs, Proteus columbaeg+gi, Proteus mirabilisg+p+wgs+gi, Proteus pennerig+wgs, Proteus vulgarisg+p+wgs, Providencia rettgerig+wgs+gi, Providencia stuartiip+wgs, Pseudomonas aeruginosag+p+wgs+gi, Pseudomonas fluorescenswgs, Pseudomonas mendocinawgs, Pseudomonas monteiliiwgs+gi, Pseudomonas putidag+p+wgs+gi, Pseudomonas stutzeriwgs, Pseudomonas syringaep+wgs+gi, Raoultella planticolap+wgs, Salmonella entericag+p+wgs+gi, Serratia liquefacienswgs, Serratia marcescensp+wgs, Shewanella putrefaciensg+gi, Shigella boydiip+wgs, Shigella dysenteriaewgs, Shigella flexnerig+p+wgs, Shigella sonneip+wgs, Staphylococcus aureuswgs, Stenotrophomonas maltophiliag+wgs, Trueperella pyogeneswgs, Vibrio alginolyticusg+wgs, Vibrio choleraeg+p+wgs+gi, Vibrio fluvialisg+wgs, Vibrio harveyiwgs, Vibrio owensiig+gi, Vibrio parahaemolyticusg+p+wgs, Vibrio vulnificuswgs, Xanthomonas campestrisgi, Xanthomonas oryzaegi, Yersinia enterocoliticawgs, Yersinia pseudotuberculosiswgs
Classification11 ontology terms | Show
Parent Term(s)2 ontology terms | Show
+ confers_resistance_to_antibiotic streptomycin [Antibiotic]
+ APH(6)-I
Publications

Daly M, et al. 2005. J Antimicrob Chemother 55(4): 558-561. Comparison of multidrug resistance gene regions between two geographically unrelated Salmonella serotypes. (PMID 15722395)

Gordon L, et al. 2008. J Antimicrob Chemother 62(1): 65-71. Complete sequence of the floR-carrying multiresistance plasmid pAB5S9 from freshwater Aeromonas bestiarum. (PMID 18413319)

Scholz P, et al. 1989. Gene 75(2): 271-288. Complete nucleotide sequence and gene organization of the broad-host-range plasmid RSF1010. (PMID 2653965)

Meyer R and Meyer R. 2009. Plasmid 62(2): 57-70. Replication and conjugative mobilization of broad host-range IncQ plasmids. (PMID 19465049)

Resistomes

Prevalence of APH(6)-Id 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).

Prevalence: protein homolog model (view sequences)

SpeciesNCBI ChromosomeNCBI PlasmidNCBI WGSNCBI GI
Achromobacter xylosoxidans8.7%0%1.53%28.57%
Acinetobacter baumannii47.08%3.01%38%32.7%
Acinetobacter defluvii100%0%0%50%
Acinetobacter haemolyticus0%2.44%2.33%11.11%
Acinetobacter indicus23.81%11.32%25.97%75%
Acinetobacter johnsonii5.26%4.17%16.36%33.33%
Acinetobacter junii0%33.33%1.49%0%
Acinetobacter lwoffii0%0%5.26%0%
Acinetobacter nosocomialis0%3.28%5.17%0%
Acinetobacter pittii2.7%3.94%6.25%0%
Acinetobacter radioresistens0%0%8.77%0%
Acinetobacter towneri12.5%18.75%19.23%100%
Acinetobacter wuhouensis0%9.09%50%0%
Actinobacillus indolicus100%0%0%100%
Actinobacillus pleuropneumoniae11.11%0%0%0%
Aeromonas caviae4.55%3.9%7.53%33.33%
Aeromonas hydrophila6.15%5.19%4.03%0%
Aeromonas veronii1.82%1.54%1.12%0%
Alcaligenes faecalis10%20%2.94%33.33%
Avibacterium paragallinarum12.5%0%5.88%0%
Bacteroides thetaiotaomicron0%0%0.7%0%
Bordetella bronchiseptica0%0%1.37%0%
Burkholderia ambifaria0%0%1.3%0%
Burkholderia cenocepacia1.01%0%1.54%0%
Burkholderia cepacia0%0%6.73%0%
Burkholderia multivorans0%0%0.48%0%
Burkholderia vietnamiensis0%0%0.86%0%
Citrobacter amalonaticus0%8.33%7.27%0%
Citrobacter freundii0%6.77%14.89%27.27%
Citrobacter koseri6.25%15%8.11%0%
Citrobacter portucalensis11.11%25%18.02%0%
Citrobacter werkmanii0%10%23.08%0%
Citrobacter youngae0%9.09%0%0%
Comamonas testosteroni0%50%0%0%
Corynebacterium amycolatum57.14%0%25.93%0%
Corynebacterium diphtheriae1.85%0%2.51%0%
Corynebacterium imitans100%0%0%50%
Corynebacterium jeikeium0%0%15.79%0%
Corynebacterium urealyticum0%0%60%50%
Cronobacter dublinensis0%0%2.56%0%
Cronobacter malonaticus0%0%1.82%0%
Cronobacter sakazakii0%0%0.22%0%
Edwardsiella tarda0%10.53%0%0%
Enterobacter asburiae0%1.65%9.49%0%
Enterobacter cancerogenus0%25%0%0%
Enterobacter chengduensis0%0%20%0%
Enterobacter cloacae3.57%5.03%21.73%0%
Enterobacter hormaechei3.24%5.47%23.91%6.67%
Enterobacter kobei0%0.69%12.66%0%
Enterobacter roggenkampii0%4.35%6.12%0%
Escherichia albertii2.86%1.69%4.52%0%
Escherichia coli5.12%5.03%19.88%3.32%
Escherichia fergusonii8.2%6.41%25%0%
Escherichia marmotae0%6.25%0%0%
Faecalibacterium prausnitzii0%0%0.97%0%
Glaesserella parasuis34.62%0%11.28%100%
Haemophilus influenzae1.03%0%0.54%0%
Haemophilus parainfluenzae6.25%0%2.44%0%
Histophilus somni46.67%0%13.79%100%
Kingella kingae0%0%0%100%
Klebsiella aerogenes2%9.78%6.78%25%
Klebsiella huaxiensis100%0%0%50%
Klebsiella michiganensis4.84%12.57%10.9%0%
Klebsiella oxytoca0%8.9%5.88%0%
Klebsiella pneumoniae1.72%6.63%18.75%1.9%
Klebsiella quasipneumoniae0%4.45%19.61%0%
Laribacter hongkongensis0%0%4.17%0%
Leclercia adecarboxylata7.14%4.76%11.63%0%
Legionella pneumophila0%0%0.11%0%
Moraxella osloensis0%2.56%0%0%
Morganella morganii9.62%2.5%9.2%7.69%
Neisseria sicca0%0%7.69%0%
Pasteurella multocida12.86%0%14.61%66.67%
Phocaeicola dorei0%0%1.04%0%
Proteus columbae100%0%0%50%
Proteus mirabilis37.61%7.5%17.33%18.52%
Proteus penneri50%0%12.5%0%
Proteus vulgaris9.09%22.22%11.11%0%
Providencia rettgeri8.82%0%5.1%50%
Providencia stuartii0%2.27%6.82%0%
Pseudomonas aeruginosa5.06%3.51%3.82%5.56%
Pseudomonas fluorescens0%0%0.43%0%
Pseudomonas mendocina0%0%7.14%0%
Pseudomonas monteilii0%0%30.95%100%
Pseudomonas putida5.63%16%6.95%25%
Pseudomonas stutzeri0%0%2.29%0%
Pseudomonas syringae0%1.89%0.85%100%
Raoultella planticola0%9.3%20.51%0%
Salmonella enterica8.83%13.68%15.44%18.87%
Serratia liquefaciens0%0%4.76%0%
Serratia marcescens0%3.87%2.62%0%
Shewanella putrefaciens11.11%0%0%50%
Shigella boydii0%4.35%42.22%0%
Shigella dysenteriae0%0%40%0%
Shigella flexneri10%11.24%38.98%0%
Shigella sonnei0%7.77%43.68%0%
Staphylococcus aureus0%0%0.01%0%
Stenotrophomonas maltophilia3.37%0%1.04%0%
Trueperella pyogenes0%0%8.33%0%
Vibrio alginolyticus2.47%0%1.98%0%
Vibrio cholerae8.07%21.05%29.52%14.29%
Vibrio fluvialis2.63%0%2.67%0%
Vibrio harveyi0%0%2%0%
Vibrio owensii16.67%0%0%50%
Vibrio parahaemolyticus0.32%0.62%0.77%0%
Vibrio vulnificus0%0%0.82%0%
Xanthomonas campestris0%0%0%100%
Xanthomonas oryzae0%0%0%100%
Yersinia enterocolitica0%0%1.36%0%
Yersinia pseudotuberculosis0%0%2.94%0%
Show Perfect Only


Detection Models

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): 500


>gb|AAC23556.1|+|APH(6)-Id [Pseudomonas aeruginosa]
MFMPPVFPAHWHVSQPVLIADTFSSLVWKVSLPDGTPAIVKGLKPIEDIADELRGADYLVWRNGRGAVRLLGRENNLMLLEYAGERMLSH
IVAEHGDYQATEIAAELMAKLYAASEEPLPSALLPIRDRFAALFQRARDDQNAGCQTDYVHAAIIADQMMSNASELRGLHGDLHHENIMF
SSRGWLVIDPVGLVGEVGFGAANMFYDPADRDDLCLDPRRIAQMADAFSRALDVDPRRLLDQAYAYGCLSAAWNADGEQEQRDLAIAAAI
KQVRQTSY


>gb|AF024602.1|+|3156-3992|APH(6)-Id [Pseudomonas aeruginosa]
ATGTTCATGCCGCCTGTTTTTCCTGCTCATTGGCACGTTTCGCAACCTGTTCTCATTGCGGACACCTTTTCCAGCCTCGTTTGGAAAGTT
TCATTGCCAGACGGGACTCCTGCAATCGTCAAGGGATTGAAACCTATAGAAGACATTGCTGATGAACTGCGCGGGGCCGACTATCTGGTA
TGGCGCAATGGGAGGGGAGCAGTCCGGTTGCTCGGTCGTGAGAACAATCTGATGTTGCTCGAATATGCCGGGGAGCGAATGCTCTCTCAC
ATCGTTGCCGAGCACGGCGACTACCAGGCGACCGAAATTGCAGCGGAACTAATGGCGAAGCTGTATGCCGCATCTGAGGAACCCCTGCCT
TCTGCCCTTCTCCCGATCCGGGATCGCTTTGCAGCTTTGTTTCAGCGGGCGCGCGATGATCAAAACGCAGGTTGTCAAACTGACTACGTC
CACGCGGCGATTATAGCCGATCAAATGATGAGCAATGCCTCGGAACTGCGTGGGCTACATGGCGATCTGCATCATGAAAACATCATGTTC
TCCAGTCGCGGCTGGCTGGTGATAGATCCCGTCGGTCTGGTCGGTGAAGTGGGCTTTGGCGCCGCCAATATGTTCTACGATCCGGCTGAC
AGAGACGACCTTTGTCTCGATCCTAGACGCATTGCACAGATGGCGGACGCATTCTCTCGTGCGCTGGACGTCGATCCGCGTCGCCTGCTC
GACCAGGCGTACGCTTATGGGTGCCTTTCCGCAGCTTGGAACGCGGATGGAGAACAGGAGCAACGCGATCTAGCTATCGCGGCCGCGATC
AAGCAGGTGCGACAGACGTCATACTAG