Neisseria gonorrhoeae 23S rRNA with mutation conferring resistance to azithromycin

Accession ARO:3004836
CARD Short NameNgon_23S_AZM
DefinitionPoint mutation in the 23S rRNA of Neisseria gonorrhoea shown to confer resistance to azithromycin, a macrolide type antibiotic.
AMR Gene Family23S rRNA with mutation conferring resistance to macrolide antibiotics
Drug Classmacrolide antibiotic
Resistance Mechanismantibiotic target alteration
Resistomes with Sequence VariantsAcinetobacter baumanniiwgs, Burkholderia cenocepaciawgs, Burkholderia pseudomalleiwgs, Citrobacter koseriwgs, Enterobacter hormaecheiwgs, Enterobacter kobeiwgs, Escherichia coliwgs, Helicobacter pyloriwgs, Klebsiella pneumoniaewgs, Neisseria brasiliensisg+wgs, Neisseria flavescensg+wgs, Neisseria gonorrhoeaeg+wgs, Neisseria meningitidisg+wgs, Neisseria siccag+wgs, Neisseria subflavag+wgs, Salmonella entericawgs, Streptococcus mitiswgs, Streptococcus pneumoniaewgs, Vibrio alginolyticuswgs, Vibrio choleraewgs, Vibrio parahaemolyticuswgs
Classification10 ontology terms | Show
Parent Term(s)2 ontology terms | Show
+ confers_resistance_to_antibiotic azithromycin [Antibiotic]
+ 23S rRNA with mutation conferring resistance to macrolide antibiotics [AMR Gene Family]
Publications

Bercot B, et al. 2014. Euro Surveill. 19(44): High-level azithromycin-resistant Neisseria gonorrhoeae clinical isolate in France, March 2014. (PMID 25394255)

Chisholm SA, et al. 2010. Antimicrob. Agents Chemother. 54(9):3812-6 High-level azithromycin resistance occurs in Neisseria gonorrhoeae as a result of a single point mutation in the 23S rRNA genes. (PMID 20585125)

Chisholm SA, et al. 2016. Sex Transm Infect 92(5):365-7 An outbreak of high-level azithromycin resistant Neisseria gonorrhoeae in England. (PMID 26601852)

Pham CD, et al. 2019. Antimicrob. Agents Chemother. 63(4): Emergence of Neisseria gonorrhoeae Strains Harboring a Novel Combination of Azithromycin-Attenuating Mutations. (PMID 30917979)

Zarantonelli L, et al. 1999. Antimicrob. Agents Chemother. 43(10):2468-72 Decreased azithromycin susceptibility of Neisseria gonorrhoeae due to mtrR mutations. (PMID 10508026)

Singh AE, et al. 2021. Emerg Infect Dis 27(6):1718-1722 Molecular Characterization and Antimicrobial Resistance in Neisseria gonorrhoeae, Nunavut Region of Inuit Nunangat, Canada, 2018-2019. (PMID 34013864)

Resistomes

Prevalence of Neisseria gonorrhoeae 23S rRNA with mutation conferring resistance to azithromycin 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: rRNA gene variant model (view sequences)

SpeciesNCBI ChromosomeNCBI PlasmidNCBI WGSNCBI GI
Acinetobacter baumannii0%0%0.02%0%
Burkholderia cenocepacia0%0%0.26%0%
Burkholderia pseudomallei0%0%0.06%0%
Citrobacter koseri0%0%1.04%0%
Enterobacter hormaechei0%0%0.05%0%
Enterobacter kobei0%0%0.52%0%
Escherichia coli0%0%0.04%0%
Helicobacter pylori0%0%0.05%0%
Klebsiella pneumoniae0%0%0.01%0%
Neisseria brasiliensis100%0%100%0%
Neisseria flavescens100%0%100%0%
Neisseria gonorrhoeae96.97%0%79.95%0%
Neisseria meningitidis100%0%93.29%0%
Neisseria sicca100%0%92.31%0%
Neisseria subflava100%0%100%0%
Salmonella enterica0%0%0.02%0%
Streptococcus mitis0%0%0.65%0%
Streptococcus pneumoniae0%0%0.02%0%
Vibrio alginolyticus0%0%0.67%0%
Vibrio cholerae0%0%0.21%0%
Vibrio parahaemolyticus0%0%0.19%0%
Show Perfect Only


Detection Models

Model Type: rRNA gene variant model

Model Definition: Ribosomal RNA (rRNA) Gene Variant Models (RVM) are similar to Protein Variant Models (PVM), i.e. detect sequences based on their similarity to a curated reference sequence and secondarily screen query sequences for curated sets of mutations to differentiate them from antibiotic susceptible wild-type alleles, except RVMs are designed to detect AMR acquired via mutation of genes encoding ribosomal RNAs (rRNA). RVMs include a rRNA 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 BLASTN bit-score above the curated BLASTN 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 BLASTN bit-score cut-off but still contains at least one curated mutation from amongst the mapped resistance variants.

Bit-score Cut-off (blastN): 5300

Legend:

  • discovered in clinical, agricultural, or environmental isolates

  • discovered via laboratory selection experiments

  • ReSeqTB https://platform.reseqtb.org

Published Variants:

PMID: 25394255C2600T
PMID: 20585125C2597T
PMID: 26601852A2145G
PMID: 30917979A2045G
PMID: 10508026GGATAAAAAGTCTTTTT:delA GGATAAAAAGTCTTTTT:insTT
PMID: 34013864A2059G C2611T


>gb|NR_103957.1|+|1-2910|Neisseria gonorrhoeae 23S rRNA with mutation conferring resistance to azithromycin [Neisseria gonorrhoeae]
TGAAATGATAGAGTCAAGTGAATAAGTGCATCAGGCGGATGCCTTGGCGATGATAGGCGACGAAGGACGTGTAAGCCTGCGAAAAGCGCG
GGGGAGCTGGCAATAAAGCAATGATCCCGCGGTGTCCGAATGGGGAAACCCACTGCATTCTGTGCAGTATCCTAAGTTGAATACATAGGC
TTAGAGAAGCGAACCCGGAGAACTGAACCATCTAAGTACCCGGAGGAAAAGAAATCAACCGAGATTCCGCAAGTAGTGGCGAGCGAACGC
GGAGGAGCCTGTACGTAATAACTGTCGAGGTAGAAGAACAAGCTGGGAAGCTTGACCATAGCGGGTGACAGTCCCGTATTCGAAATCTCA
ACAGCGGTACTAAGCGTACGAAAAGTAGGGCGGGACACGTGAAATCCTGTCTGAATATGGGGGGACCATCCTCCAAGGCTAAATACTCAT
CATCGACCGATAGTGAACCAGTACCGTGAGGGAAAGGCGAAAAGAACCCCGGGAGGGGAGTGAAACAGAACCTGAAACCTGATGCATACA
AACAGTGGGAGCGCCCTAGTGGTGTGACTGCGTACCTTTTGTATAATGGGTCAACGACTTACATTCAGTAGCGAGCTTAACCGGATAGGG
GAGGCGTAGGGAAACCGAGTCTTAATAGGGCGATGAGTTGCTGGGTGTAGACCCGAAACCGAGTGATCTATCCATGGCCAGGTTGAAGGT
GCCGTAACAGGTACTGGAGGACCGAACCCACGCATGTTGCAAAATGCGGGGATGAGCTGTGGGTAGGGGTGAAAGGCTAAACAAACTCGG
AGATAGCTGGTTCTCCCCGAAAACTATTTAGGTAGTGCCTCGAGCAAGACACTGATGGGGGTAAAGCACTGTTATGGCTAGGGGGTTATT
GCAACTTACCAACCCATGGCAAACTCAGAATACCATCAAGTGGTTCCTCGGGAGACAGACAGCGGGTGCTAACGTCCGTTGTCAAGAGGG
AAACAACCCAGACCGCCGGCTAAGGTCCCAAATGATAGATTAAGTGGTAAACGAAGTGGGAAGGCACAGACAGCCAGGATGTTGGCTTAG
AAGCAGCCATCATTTAAAGAAAGCGTAATAGCTCACTGGTCGAGTCGTCCTGCGCGGAAGATGTAACGGGGCTCAAATCTATAACCGAAG
CTGCGGATGCCGGTTTACCGGCATGGTAGGGGAGCGTTCTGTAGGCTGATGAAGGTGCATTGTAAAGTGTGCTGGAGGTATCAGAAGTGC
GAATGTTGACATGAGTAGCGATAAAGCGGGTGAAAAGCCCGCTCGCCGAAAGCCCAAGGTTTCCTACGCAACGTTCATCGGCGTAGGGTG
AGTCGGCCCCTAAGGCGAGGCAGAAATGCGTAGTCGATGGGAAACAGGTTAATATTCCTGTACTTGATTCAAATGCGATGTGGGGACGGA
GAAGGTTAGGTTGGCAAGCTGTTGGAATAGCTTGTTTAAGCCGGTAGGTGGAAGACTTAGGCAAATCCGGGTTTTCTTAACACCGAAGAA
GTGATGACGAGTGTTTACGGACACGAAGCAACCGATACCACGCTTCCAGGAAAAGCCACTAAGCTTCAGTTTGAATCGAACCGTACCGCA
AACCGACACAGGTGGGCAGGATGAGAATTCTAAGGCGCTTGAGAGAACTCGGGAGAAGGAACTCGGCAAATTGATACCGTAACTTCGGGA
GAAGGTATGCCCTCTAAGGTTAAGGACTTGCTCCGTAAGCCCCGGAGGGTCGCAGAGAATAGGTGGCTGCGACTTGTTTATTAAAAACAC
GAGCACTCTTGCCAACACGAAAGTGGACGTATAGGGTGTAACGCCTGCCCGGTGCCGGAAGGTTAATTGAAGATGTGCAAGCATCGGATC
GAAGCCCCGGTAAACGGCGGCCGTAACTATAACGGTCCTAAGGTAGCGAAATTCCTTGTCGGGTAAGTTCCGACCCGCACGAATGGCGTA
ACGATGGCCACACTGTCTCCTCCCGAGACTCAGCGAAGTTGAAGTGGTTGTGAAGATGCAATCTACCCGCTGCTAGACGGAAAGACCCCG
TGAACCTTTACTGTAGCTTTGCATTGGACTTTGAAGTCACTTGTGTAGGATAGGTGGAAGGCTTGGAAGCAAAGACGCCAGTCTCTGTGG
AGTCGTCCTTGAAAATACCACCCTGGTGTCTTTGAGGTTCTAACCCAGACCCGTCATCCGGGTCGGGGACCGTGCATGGTAGGCAGTTTG
ACTGGGGCGGTCTCCTCCCAAAGCGTAACGGAGGAGTTCGAAGGTTACCTAGGTCCGGTCGGAAATCGGACTGATAGTGCAATGGCAAAA
GGTAGCTTAACTGCGAGACCGACAAGTCGGGCAGGTGCGAAAGCAGGACATAGTGATCCGGTGGTTCTGTATGGAAGGGCCATCGCTCAA
CGGATAAAAGGTACTCCGGGGATAACAGGCTTGATTCCGCCCAAGAGTTCATATCGACGGCGGAGTTTGGCACCTCGATGTCGGCTCATC
ACATCCTGGGGCTGTAGTCGGTCCCAAGGGTATGGCTGTTCGCCATTTTAAAGTGGTACGTGAGTTGGGTTTAAAACGTCGTGAGACAGT
TTGGTCCCTATCTGCAGTGGGCGTTGGAAGTTTGACGGGGGCTGCTCCTAGTACGAGAGGACCGGAGTGGACGAACCTCTGGTGTACCGG
TTGTAACGCCAGTTGCATAGCCGGGTAGCTAAGTTCGGAAGAGATAAGCGCTGAAAGCATCTAAGCGCGAAACTCGCCTGAAGATGAGAC
TTCCCTTGCGGTTTAACCGCACTAAAGGGTCGTTCGAGACCAGGACGTTGATAGGTGGGGTGTGGAAGCGCGGTAACGCGTGAAGCTAAC
CCATACTAATTGCCCGTGAGGCTTGACTCT