| Accession | ARO:3007060 |
| CARD Short Name | Hpyl_pbp1_AMX |
| Definition | Point mutations in Helicobacter pylori pbp1 observed to confer resistance to amoxicillin. |
| AMR Gene Family | Penicillin-binding protein mutations conferring resistance to beta-lactam antibiotics |
| Drug Class | cephalosporin, penam, cephamycin |
| Resistance Mechanism | antibiotic target alteration |
| Classification | 13 ontology terms | Show + process or component of antibiotic biology or chemistry + mechanism of antibiotic resistance + antibiotic molecule + antibiotic target alteration [Resistance Mechanism] + beta-lactam antibiotic + cephem + determinant of antibiotic resistance + mutation conferring antibiotic resistance + beta-lactam resistant penicillin-binding proteins + cephalosporin [Drug Class] + penam [Drug Class] + cephamycin [Drug Class] + antibiotic resistant gene variant or mutant |
| Parent Term(s) | 2 ontology terms | Show + confers_resistance_to_antibiotic amoxicillin [Antibiotic] + Penicillin-binding protein mutations conferring resistance to beta-lactam antibiotics [AMR Gene Family] |
| Publications | Matteo MJ, et al. 2008. J Antimicrob Chemother 61(3):474-7 Helicobacter pylori amoxicillin heteroresistance due to point mutations in PBP-1A in isogenic isolates. (PMID 18192681) Rimbara E, et al. 2007. Microbiol Immunol 51(10):939-44 Correlation between substitutions in penicillin-binding protein 1 and amoxicillin resistance in Helicobacter pylori. (PMID 17951983) Tran TT, et al. 2022. BMC Microbiol 22(1):41 Emergence of amoxicillin resistance and identification of novel mutations of the pbp1A gene in Helicobacter pylori in Vietnam. (PMID 35114945) Tshibangu-Kabamba E, et al. 2020. Microorganisms 8(6): Next-Generation Sequencing of the Whole Bacterial Genome for Tracking Molecular Insight into the Broad-Spectrum Antimicrobial Resistance of Helicobacter pylori Clinical Isolates from the Democratic Republic of Congo. (PMID 32545318) Saranathan R, et al. 2020. J Clin Microbiol 58(3): Helicobacter pylori Infections in the Bronx, New York: Surveying Antibiotic Susceptibility and Strain Lineage by Whole-Genome Sequencing. (PMID 31801839) Azzaya D, et al. 2020. Microorganisms 8(7): High Antibiotic Resistance of Helicobacter pylori and Its Associated Novel Gene Mutations among the Mongolian Population. (PMID 32708761) Guzman K, et al. 2023. Front Microbiol 14:1198325 The Helicobacter pylori single nucleotide polymorphisms SNPs associated with multiple therapy resistance in Colombia. (PMID 37485536) |
Prevalence of Helicobacter pylori pbp1 mutants conferring resistance to amoxicillin 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 |
|---|---|---|---|---|
| No prevalence data | ||||
Model Type: protein variant model
Model Definition: Protein Variant Models (PVM) perform a similar search as Protein Homolog Models (PHM), i.e. detect protein sequences based on their similarity to a curated reference sequence, but secondarily screen query sequences for curated sets of mutations to differentiate them from antibiotic susceptible wild-type alleles. PVMs are designed to detect AMR acquired via mutation of house-keeping genes or antibiotic targets, e.g. a mutated gyrase resistant to aminocoumarin antibiotics. PVMs include a protein reference sequence (often from antibiotic susceptible wild-type alleles), a curated bit-score cut-off, and mapped resistance variants. Mapped resistance variants may include any or all of single point mutations, insertions, or deletions curated from the scientific literature. A Strict RGI match has a BLASTP bit-score above the curated BLASTP cutoff value and contains at least one curated mutation from amongst the mapped resistance variants, while a Loose RGI match has a bit-score less than the curated BLASTP bit-score cut-off but still contains at least one curated mutation from amongst the mapped resistance variants.
Bit-score Cut-off (blastP): 1300
Legend:
Published Variants:
| PMID: 18192681 | T556S |
| PMID: 17951983 | S414R N562Y T593A G595S |
| PMID: 35114945 | +A595-596 +E464-465 +G595-596 +N464-465 +S595-596 |
| PMID: 32545318 | F366L S402G S405N S414R A474T T556S T558S N562Y N562H T593K T593S T593G |
| PMID: 31801839 | N107R A201V V250I S543T |
| PMID: 32708761 | V374L S414N I450V L610STOP |
| PMID: 37485536 | R649K R656H R656P |