APH(2'')-Ig

Accession ARO:3002669
CARD Short NameAPH(2'')-Ig
DefinitionAPH('')-Ig is a plasmid-encoded aminoglycoside phosphotransferase in Campylobacter coli.
AMR Gene FamilyAPH(2'')
Drug Classaminoglycoside antibiotic
Resistance Mechanismantibiotic inactivation
Resistomes with Perfect MatchesCampylobacter colip+wgs, Campylobacter jejunip+wgs
Resistomes with Sequence VariantsCampylobacter colip+wgs, Campylobacter jejunip+wgs, Ruthenibacterium lactatiformanswgs
Classification19 ontology terms | Show
Parent Term(s)5 ontology terms | Show
+ confers_resistance_to_antibiotic amikacin [Antibiotic]
+ confers_resistance_to_antibiotic kanamycin A [Antibiotic]
+ confers_resistance_to_antibiotic tobramycin [Antibiotic]
+ APH(2'') [AMR Gene Family]
+ confers_resistance_to_antibiotic gentamicin A [Antibiotic]
Publications

Chen Y, et al. 2013. Antimicrob Agents Chemother 57(11): 5398-5405. Whole-genome sequencing of gentamicin-resistant Campylobacter coli isolated from U.S. retail meats reveals novel plasmid-mediated aminoglycoside resistance genes. (PMID 23959310)

Resistomes

Prevalence of APH(2'')-Ig among the sequenced genomes, plasmids, and whole-genome shotgun assemblies available at NCBI or IslandViewer for 377 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
Campylobacter coli0%4%3%0%
Campylobacter jejuni0%2.11%0.05%0%
Ruthenibacterium lactatiformans0%0%4.55%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): 550


>gb|AGV10818.1|-|APH(2'')-Ig [Campylobacter coli CVM N29710]
MCEFSSPQIPITDIENAMERIGSPVRELRRLDAGDDSEVLLCNGLFVIKIPKRPSVRVTQQREFAVYSFLKQYDLPALIPEVIFQCSEFN
VMSFIPGENFGFQEYALLSEKEKEALASDMAIFLRRLHGISVPLSEKPFCEIFEDKRKRYLEDQEQLLEVLENRKLLNAPLQKNIQTIYE
HIGQNQELFNYAACLVHNDFSSSNMVFRHNRLYGVIDFGDVIVGDPDNDFLCLLDCSMDDFGKDFGRKVLRHYGHRNPQLAERKAEINDA
YWPIQQVLLGVQREDRSLFCKGYRELLAIDPDAFIL


>gb|CP004067.1|-|43008-43928|APH(2'')-Ig [Campylobacter coli CVM N29710]
ATGTGTGAATTTAGTAGTCCGCAAATTCCAATAACGGATATTGAGAATGCCATGGAACGGATCGGAAGTCCGGTGAGAGAACTCCGCCGC
TTGGATGCGGGGGATGACAGCGAAGTGCTGCTTTGCAATGGGCTGTTTGTCATCAAAATCCCCAAACGGCCATCTGTGCGCGTGACACAG
CAAAGAGAATTTGCAGTATACTCCTTTCTCAAACAGTATGATTTACCTGCCTTGATTCCGGAAGTGATTTTTCAATGCAGCGAATTTAAT
GTTATGTCGTTTATCCCCGGAGAAAACTTTGGCTTTCAAGAATATGCTTTGCTTTCAGAAAAGGAAAAAGAAGCGCTTGCTTCAGATATG
GCGATATTTTTGCGGAGATTGCATGGTATATCGGTGCCGCTTTCAGAGAAACCGTTCTGTGAAATCTTCGAAGATAAACGCAAAAGATAT
TTGGAAGACCAAGAACAGCTGCTTGAAGTGCTCGAAAACCGAAAACTCTTGAATGCACCACTCCAGAAAAATATCCAGACGATATACGAG
CATATCGGTCAGAATCAGGAACTGTTTAACTATGCGGCCTGTTTAGTTCACAATGATTTTAGCTCTTCCAATATGGTGTTCAGACATAAT
CGTCTGTATGGCGTGATCGATTTTGGAGATGTAATTGTCGGCGATCCGGACAATGATTTTTTATGCCTTCTGGATTGCAGCATGGATGAC
TTTGGGAAAGATTTCGGGCGAAAGGTTTTAAGGCATTATGGCCATCGGAATCCACAATTAGCAGAAAGAAAAGCAGAAATCAATGATGCT
TACTGGCCGATACAGCAAGTCCTGCTTGGTGTTCAGAGAGAAGATCGGTCGCTTTTCTGTAAGGGATACCGTGAACTTCTAGCCATAGAC
CCAGATGCTTTCATTTTATAA