Mycobacterium avium 23S rRNA with mutation conferring resistance to clarithromycin

Accession ARO:3004164
CARD Short NameMavi_23S_CLR
DefinitionPoint mutation in the 23S rRNA of Mycobacterium avium shown to confer resistance to clarithromycin, 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 VariantsMycobacterium aviumg+wgs+gi
Classification10 ontology terms | Show
Parent Term(s)2 ontology terms | Show
+ confers_resistance_to_antibiotic clarithromycin [Antibiotic]
+ 23S rRNA with mutation conferring resistance to macrolide antibiotics [AMR Gene Family]
Publications

Nash KA, et al. 1995. Antimicrob. Agents Chemother. 39(12):2625-30 Genetic basis of macrolide resistance in Mycobacterium avium isolated from patients with disseminated disease. (PMID 8592991)

Resistomes

Prevalence of Mycobacterium avium 23S rRNA with mutation conferring resistance to clarithromycin 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: rRNA gene variant model (view sequences)

SpeciesNCBI ChromosomeNCBI PlasmidNCBI WGSNCBI GI
Mycobacterium avium97.56%0%88.04%100%
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): 5700

Legend:

  • discovered in clinical, agricultural, or environmental isolates

  • discovered via laboratory selection experiments

  • ReSeqTB https://platform.reseqtb.org

Published Variants:

PMID: 8592991A2272C A2274T A2274G


>gb|NG_041979.1|+|1-3112|Mycobacterium avium 23S rRNA with mutation conferring resistance to clarithromycin [Mycobacterium avium]
TGTGTGTAAGTAAGTGTTTAAGGGCGCATGGTGGATGCCTTGGCATCGAGAGCCGATGAAGGACGTGGGAGGCTGCGATATGCCTCGGGG
AGCTGTCAACCGAGCATTGATCCGAGGATTTCCGAATGGGGAAACCCAGCACGAGTGATGTCGTGTTACCCGTATCTGAATATATAGGGT
GCGGGAGGTAACGCGGGGAAGTGAAACATCTCAGTACCCGTAGGAGAAGAAAACAATTGTGATTCCGTCAGTAGTGGCGAGCGAACGCGG
AACAGGCTAAACCGCATGCATGGACAACCGGGTAGGGGTTGTGTGTGCGGGGTTGTGGGATTGATATGTCTCAGCTCTACCTGGCTGAGG
GGTAGTCAGAAAGTGTCGTGGTTAGCGGAAGTGGCCTGGGACGGCCCGCCGTAGACGGTGAGAGCCCGGTACGCGAAAACCCGGCACCTG
CCTTATATCAACACCCGAGTAGCAGCGGGCCCGTGGAATCTGCTGTGAATCTGCCGGGACCACCCGGTAAGCCTAAATACTTCTCGATGA
CCGATAGCGGATTAGTACCGTGAGGGAATGGTGAAAAGTACCCCGGGAGGGGAGTGAAATAGTACCTGAAACCGTGTGCCTACAATCCGT
CAGAGCCTCCTCGTGGGGTGATGGCGTGCCTTTTGAAGAATGAGCCTGCGAGTCAGGGACACGTCGCGAGGTTAACCCGTGCGGGGTAGC
CGCAGCGAAAGCGAGTCTGAATAGGGCGCATCCCCTTTGGGGTGTAGTGGCGTGTTCTGGACCCGAAGCGGAGTGATCTACCCATGGCCA
GGGTGAAGCGCGGGTAAGACCGCGTGGAGGCCCGAACCCACTTAGGTTGAAGACTGAGGGGATGAGCTGTGGGTAGGGGTGAAAGGCCAA
TCAAACTCCGTGATAGCTGGTTCTCCCCGAAATGCATTTAGGTGCAGCGTTGCGTGGTTCACCACGGAGGTAGAGCTACTGGATGGCCGA
TGGGCCCTACTAGGTTACTGACGTCAGCCAAACTCCGAATGCCGTGGTGTAAAGCGTGGCAGTGAGACGGCGGGGGATAAGCTCCGTACG
TCGAAAGGGAAACAGCCCAGATCGCCGGCTAAGGCCCCTAAGCGTGTGCTAAGTGGAAAAGGATGTGTAGTCGCAGAGACAACCAGGAGG
TTGGCTTAGAAGCAGCCACCCTTGAAAGAGTGCGTAATAGCTCACTGGTCAAGTGATTATGCGCCGATAATGTAGCGGGGCTCAAGCACA
CCGCCGAAGCCGCGGCACATTCATCTTTACGGTGGATGTGGGTAGGGGAGCGTCCCCCATTCAGCGAAGCCTCCGGGTGACCGGTGGTGG
AGGGTGGGGGAGTGAGAATGCAGGCATGAGTAGCGATAAGGCAAGTGAGAACCTTGCCCGCCGTAAGACCAAGGGTTCCTGGGCCAGGCC
AGTCCGCCCAGGGTGAGTCGGGACCTAAGGCGAGGCCGACAGGCGTAGTCGATGGACAACGGGTTGATATTCCCGTACCCGTGTATGGGC
GTCCCTGATGAATCAGCGGTACTAACCACCCAAAACCGGATCGACCATTCCCCTTCGGGGGCGTGGCGATTCGGGGCTGCGTGGGACCTT
CGCTGGTAGTAGTCAAGCAATGGGGTGACGCAGGAAGGCAGCCGTACCAGTCAGTGGTAATACTGGGGCAAGCCCGTAGGGAGAGCGATA
GGCAAATCCGTCGCTCACTAATCCTGAGAGGTGATGCATAGCCGGTTGAGGCGAATTCGGTGATCCTCTGCTGCCAAGAAAAGCCTCTAG
CGAGCACATACACGGCCCGTACCCCAAACCAACACAGGTGGTCAGGTAGAGAATACCAAGGCGTACGAGATAACTATGGTTAAGGAACTC
GGCAAAATGCCCCCGTAACTTCGGGAGAAGGGGGGCCGGAATACCGTGAACACCCTTGCGGTGGGAGCGGGATTCGGCCGCAGAAACCAG
TGGGTAGCGACTGTTTACTAAAAACACAGGTCCGTGCGAAGTCGCAAGACGATGTATACGGACTGACGCCTGCCCGGTGCTGGAAGGTTA
AGAGGACCCGTTAACCCGTAAGGGTGAAGCGGAGAATTTAAGCCCCAGTAAACGGCGGTGGTAACTATAACCATCCTAAGGTAGCGAAAT
TCCTTGTCGGGTAAGTTCCGACCTGCACGAATGGCGTAACGACTTCCCAACTGTCTCAACCATAGACTCGGCGAAATTGCACTACGAGTA
AAGATGCTCGTTACGCGCGGCAGGACGAAAAGACCCCGGGACCTTCACTACAACTTGGTATTGGTGTTCGGTACGGTTTGTGTAGGATAG
GTGGGAGACTTTGAAGCACAGACGCCAGTTTGTGTGGAGTCGTTGTTGAAATACCACTCTGATCGTATTGGACACCTAACGTCGAACCCT
TATCGGGTTCACGGACAGTGCCTGGCGGGTAGTTTAACTGGGGCGGTTGCCTCCTAAAATGTAACGGAGGCGCCCAAAGGTTCCCTCAAC
CTGGACGGCAATCAGGTGGCGAGTGTAAGTGCACAAGGGAGCTTGACTGCGAGACTTACAAGTCAAGCAGGGACGAAAGTCGGGACTAGT
GATCCGGCACCCCCGAGTGGAAGGGGTGTCGCTCAACGGATAAAAGGTACCCCGGGGATAACAGGCTGATCTTCCCCAAGAGTCCATATC
GACGGGATGGTTTGGCACCTCGATGTCGGCTCGTCGCATCCTGGGGCTGGAGCAGGTCCCAAGGGTTGGGCTGTTCGCCCATTAAAGCGG
CACGCGAGCTGGGTTTAGAACGTCGTGAGACAGTTCGGTCTCTATCCGCCGCGCGCGTCAGAAACTTGAGGAAACCTGTCCCTAGTACGA
GAGGACCGGGACGGACGAACCTCTGGTATACCAGTTGTCCCACCAGGGGCACGGCTGGATAGCCACGTTCGGACAGGATAACCGCTGAAA
GCATCTAAGCGGGAAACCTTCTCCAAGATCAGGTTTCTCACCCTTTTAGAGGGATAAGGCCCCCCGCAGACCACGGGATTGATAGGCCAG
ACCTGGAAGCTCAGTAATGAGTGCAGGGAACTGGCACTAACCGGCCGAAAAC