| Accession | ARO:3007052 |
| CARD Short Name | Hpyl_gyrA_FLO |
| Definition | Point mutations in the quinolone resistance-determining regions of Helicobacter pylori observed to confer resistance to fluoroquinolone antibiotics. |
| AMR Gene Family | fluoroquinolone resistant gyrA |
| Drug Class | fluoroquinolone antibiotic |
| Resistance Mechanism | antibiotic target alteration |
| Resistomes with Sequence Variants | Helicobacter pylorig+wgs |
| Classification | 11 ontology terms | Show + process or component of antibiotic biology or chemistry + mechanism of antibiotic resistance + antibiotic target alteration [Resistance Mechanism] + mutation conferring antibiotic resistance + determinant of antibiotic resistance + antibiotic resistant gene variant or mutant + antibiotic resistant DNA topoisomerase subunit + antibiotic molecule + fluoroquinolone resistant DNA topoisomerase + antibiotic resistant DNA topoisomerase subunit gyrA + fluoroquinolone antibiotic [Drug Class] |
| Parent Term(s) | 2 ontology terms | Show + confers_resistance_to_antibiotic levofloxacin [Antibiotic] + fluoroquinolone resistant gyrA [AMR Gene Family] |
| Publications | Lee JW, et al. 2011. Helicobacter 16(4):301-10 Mutations of Helicobacter pylori associated with fluoroquinolone resistance in Korea. (PMID 21762270) Chang WL, et al. 2012. Helicobacter 17(3):210-5 Gemifloxacin can partially overcome quinolone resistance of H. pylori with gyrA mutation in Taiwan. (PMID 22515359) Garcia M, et al. 2012. Antimicrob Agents Chemother 56(1):550-1 Distribution of spontaneous gyrA mutations in 97 fluoroquinolone-resistant Helicobacter pylori isolates collected in France. (PMID 22064536) Phan TN, et al. 2015. Int J Antimicrob Agents 45(3):244-8 High rate of levofloxacin resistance in a background of clarithromycin- and metronidazole-resistant Helicobacter pylori in Vietnam. (PMID 25499186) Miftahussurur M, et al. 2016. BMC Microbiol 16(1):256 Emerging Helicobacter pylori levofloxacin resistance and novel genetic mutation in Nepal. (PMID 27809767) Hanafi A, et al. 2016. Front Microbiol 7:2015 Molecular and Proteomic Analysis of Levofloxacin and Metronidazole Resistant Helicobacter pylori. (PMID 28018334) Miftahussurur M, et al. 2016. PLoS One 11(12):e0166199 Surveillance of Helicobacter pylori Antibiotic Susceptibility in Indonesia: Different Resistance Types among Regions and with Novel Genetic Mutations. (PMID 27906990) Rhie SY, et al. 2020. Antibiotics (Basel) 9(6): Discovery of a Novel Mutation in DNA Gyrase and Changes in the Fluoroquinolone Resistance of Helicobacter pylori over a 14-Year Period: A Single Center Study in Korea. (PMID 32471292) Wei W, et al. 2023. Front Cell Infect Microbiol 13:1294379 Antibiotic resistance of Helicobacter pylori in Nanjing, China: a cross-section study from 2018 to 2023. (PMID 38089809) Miftahussurur M, et al. 2019. Infect Drug Resist 12:345-358 Alternative eradication regimens for Helicobacter pylori infection in Indonesian regions with high metronidazole and levofloxacin resistance. (PMID 30774400) Teh X, et al. 2014. PLoS One 9(7):e101481 Functional and molecular surveillance of Helicobacter pylori antibiotic resistance in Kuala Lumpur. (PMID 25003707) |
Prevalence of Helicobacter pylori gyrA conferring resistance to fluoroquinolones 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 |
|---|---|---|---|---|
| Helicobacter pylori | 16.41% | 0% | 18.84% | 0% |
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): 1400
Legend:
Published Variants:
| PMID: 21762270 | N87K N87I N87Y D91G D91N D91Y D91Y,A97V |
| PMID: 22515359 | N87K,H57Y D91N,A97V D91N,V77A |
| PMID: 22064536 | T87I A88P D91H |
| PMID: 25499186 | N87A,A88N,V65I |
| PMID: 27809767 | S63P,D91N S63P,N87K,P188S S63P,R130K N87K,D91N,V172I D91N,R130K D99V |
| PMID: 28018334 | V172I |
| PMID: 27906990 | R140K,D192N D34N D34Y,R140K D91G,D161N |
| PMID: 32471292 | G85C |
| PMID: 38089809 | D87G |
| PMID: 30774400 | 45612,A129T+45613,S479G 45612,D91N+45613,R484K 45612,D91N,A129T+45613,S479G 45612,N87Y+45613,R484K |
| PMID: 25003707 | 45612,D91G,V199I+45613,D481E 45612,D91N+45613,D481E,D484K 45612,D91N,V199I+45613,D481E,D484K 45612,N87K+45613,F438S 45612,N87K,V199A+45613,D481E,R484K 45612,N87K,V199I+45613,D484K |