Mycobacteroides abscessus 23S rRNA with mutation conferring resistance to clarithromycin

Download Sequences
Accession ARO:3004163
CARD Short NameMabs_23S_CLR
DefinitionPoint mutation in the 23S rRNA of Mycobacteroides abscessus 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
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

Wallace RJ, et al. 1996. Antimicrob. Agents Chemother. 40(7):1676-81 Genetic basis for clarithromycin resistance among isolates of Mycobacterium chelonae and Mycobacterium abscessus. (PMID 8807061)

Mougari F, et al. 2017. Antimicrob. Agents Chemother. 61(1): Selection of Resistance to Clarithromycin in Mycobacterium abscessus Subspecies. (PMID 27799212)
Resistomes

Prevalence of Mycobacteroides abscessus 23S rRNA with mutation conferring resistance to clarithromycin among the sequenced genomes, plasmids, and whole-genome shotgun assemblies available at NCBI or IslandViewer for 414 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

SpeciesNCBI ChromosomeNCBI PlasmidNCBI WGSNCBI GIGRDI-AMR2
No prevalence data


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

PubMed: mutation data hand curated from the scientific literature, evaluated as conferring resistance (R). CRyPTIC: mutation data acquired from the CRyPTIC catalog, evaluated as resistant (R), susceptible (S), or undetermined (U). ReSeqTB: mutation data acquired from the ReSeqTB catalog, evaluated as conferring resistance (Minimal, Moderate, High), not conferring resistance (None), or Indeterminate. WHO: mutation data acquired from the WHO 2023 catalog, evaluated as resistant (R), susceptible (S), or undetermined (U).

MutationMutation typePubMed
a2058tsingle resistance variantPMID:27799212
a2058gsingle resistance variantPMID:27799212
a2058csingle resistance variantPMID:27799212
a2059gsingle resistance variantPMID:27799212
a2059csingle resistance variantPMID:27799212
a2271gsingle resistance variantPMID:8807061
a2272csingle resistance variantPMID:8807061
a2272gsingle resistance variantPMID:8807061


>gb|NC_010397.1|+|1464208-1467319|Mycobacteroides abscessus 23S rRNA with mutation conferring resistance to clarithromycin [Mycobacteroides abscessus]
CTAAGTTCTTAAGGGCGCATGGTGAATGCCTTGGCACTAGAAGCCGAAGAAGGACGTAGGAGGCTGCGATAAGCCTCGGGGAGCTGCCAA
CCGAGCTTTGATCCGAGGATCTCCGAATGGGGAAACCCAGCACGAGTGATGTCGTGTTACCCACTGCTGAATATATAGGCTTTGGGAGGA
AACGCGGGGAAGTGAAACATCTCAGTACCCGTAGGAAGAGAAAACAACCGTGATTCCGTGAGTAGTGGCGAGCGAAAGCGGAAGATGGCT
AAACCGCATGCATGTGATACCTGGTAGGGGTTGTGTGTGCGGGGTTGTGGGAGTTGTACTTGCCGGTTCTACCAGGCCGGCGGACAGTAA
AAAAGTGTCGTGATTAGCGGAAGTGGTCTGGGACGGCCCGCCGCAGACGGTGAGAGTCCGGTACGCGAAAATCCGACACCTGTCTCGTAC
TTCATCCCGAGTAGCAGCGGGCTCGTGGAATCTGCTGTGAATCTGCCGGGACCACCCGGTAAGCCTAAATACTCTCTAGTGACCGATAGC
GGATTAGTACCGTGAGGGAATGGTGAAAAGTACCCCGGGAGGGGAGTGAAATAGTACCTGAAACCATGTGCCTACAATCCGTCAAAGCCT
CCTCGTGGGGTGATGGCGTGCCTTTTGAAGAATGAGCCTGCGAGTCAGGGACACGTCGCGAGGTTAACCCGTGTGGGGTAGCCGTAGCGA
AAGCGAGTCTGAATAGGGCGCCCATAGTGGCGTGTTCTGGACCCGAAGCGGAGTGATCTACCCATGGCCAGGGTGAAGCGGCGGTAAGAC
GCCGTGGAGGCCCGAACCCACTTAGGTTGAAGACTGAGGGGATGAGCTGTGGGTAGGGGTGAAAGGCCAATCAAACTCCGTGATAGCTGG
TTCTCCCCGAAATGCATTTAGGTGCAGCGTCGCGTGTTTCTTGTTGGAGGTAGAGCTACTGGATGGCCGATGGGCCCTACTAGGTTACTG
ACGTCAGCCAAACTCCGAATGCCAATAAGTTAGAGCGCGGCAGTGAGACGGCGGGGGAGAAGCTCCGTACGTCGAGAGGGAAACAGCCCA
GATCGCCGGCTAAGGCCCCTAAGCGTGTACTAAGTGGAAAAGGATGTGCAGTCGCGAAGACAACCAGGAGGTTGGCTTAGAAGCAGCCAC
CCTTGAAAGAGTGCGTAATAGCTCACTGGTCAAGTGATTGTGCGCCGACAATGTAGCGGGGCTCAAGTACACCGCCGAAGCCGCGGCATT
CATGCAATACATTCCCTTCGGGGCAGTGGCATGGATGGGTAGGGGAGCGTCCTGCACCCAGCGAAGCTGCGAAGTAATTCAGCAGTGGAG
GGTGCGGGAGTGAGAATGCAGGCATGAGTAGCGACAGGCAAGTGAGAAACTTGCCCGCCGAATGACCAAGGGTTCCTGGGCCAGGCTAGT
CCTCCCAGGGTAAGTCGGGACCTAAGGCGAGGCCGACAGGCGTAGTCGATGGACAACGGGTTGATATTCCCGTACCCGTGTGTGCGCGCC
CATGATGAATCATCGGTACTAACCACCCAAAAGGTTCTAGATCAATCTCTTCGGAGTGCGACGTGAACCCGCTGCGTGGGACCTTCGGTG
GTAGTAGTCAAGCGATGGGGTGACGCAGGAAGGTAGCTGTACCGGTTAGTGGTTATACCGGAGCAAGCCCGTAGGACGACATCTAGGCAA
ATCCGGATGTCATACGTCTGAGAGGTGACGCATAGCCGATTGAGGCGAATTCAGTGATCCTATGCTGCCAAGAAAAGCCTCTAGTGAGTT
CACACACGGCCCGTACCCCAAACCAACACAGGTGGTCAGGTAGAGAATACTAAGGCGTACGAGATAACTATGGTTAAGGAACTCGGCAAA
ATACCCCCGTAACTTCGGGAGAAGGGGGACCTCGCTTGGTGACCGGACTTGCTCCGTGAGCTGAACGAGGTCGCAGAGACCAGTGAGAAG
CGACTGTTTACTAAAAACACAGGTCCGTGCGAAGTCGCAAGACGATGTATACGGACTGACGCCTGCCCGGTGCTGGAAGGTTAAGAGGAC
CCGTTAACCCTTGGGTGAAGCGGAGAATTTAAGCCCCAGTAAACGGCGGTGGTAACTATAACCATCCTAAGGTAGCGAAATTCCTTGTCG
GGTAAGTTCCGACCTGCACGAATGGCGTAACGACTTCTCAACTGTCTCAACCATAGACTCGGCGAAATTGCACTACGAGTAAAGATGCTC
GTTACGCGCGGCAGGACGAAAAGACCCCGGGACCTTCACTATAGCTTGGTATTGGCGTTTGGTTCGGTTTGTGTAGGATAGGTGGGAGAC
TGTGAAGCAGGCACGCCAGTGTTTGTGGAGTCATCGTTGAAATACCACTCTGATCGTATTGAACCTCTAACCTCGGACCGTATATCCGGT
CCAGGGACAGTGCCTGGTGGGTAGTTTAACTGGGGCGGTTGCCTCCCAAAATGTAACGGAGGCGCCCAAAGGTTCCCTCAACCTGGACGG
CAATCAGGTGTTGAGTGCAAGTGCACAAGGGAGCTTGACTGCGAGACCTACAAGTCAAGCAGGGACGAAAGTCGGGACTAGTGATCCGGC
ACCTCTGAGTGGAAGGGGTGTCGCTCAACGGATAAAAGGTACCCCGGGGATAACAGGCTGATCTTCCCCAAGAGTCCATATCGACGGGAT
GGTTTGGCACCTCGATGTCGGCTCGTCGCATCCTGGGGCTGGAGCAGGTCCCAAGGGTTGGGCTGTTCGCCCATTAAAGCGGCACGCGAG
CTGGGTTTAGAACGTCGTGAGACAGTTCGGTCTCTATCCGCCGCGCGCGTCAGAAACTTGAGGAAACCTGTCCCTAGTACGAGAGGACCG
GGACGGACGAACCTCTGGTGTACCAGTTGTTCCACCAGGAGCACGGCTGGATAGCTACGTTCGGACAGGATAACCGCTGAAAGCATCTAA
GCGGGAAACCTATTCCAAGACCAGGTTTCTTACCCTTTTAGAGGGATAAGGTCACCCACAGACTATGGGTTCAATAGGCCAGACCTGCAA
GCGTAGTAATACGTTCAGGGAACTGGCACTAATCGACCGAAAACTTACTAAT

Curator Acknowledgements
Curator Description Most Recent Edit