Mycolicibacterium smegmatis 16S rRNA (rrsB) mutation conferring resistance to hygromycin B

Accession ARO:3003540
CARD Short NameMsme_16rrsB_HGM
DefinitionPoint mutations in the highly conserved helix 44 of the 16S rrsB rRNA gene of Mycolicibacterium smegmatis can confer resistance to hygromycin B. Resistance against hygromycin B is the result of conformational alterations that distorts a strong hydrogen bond leading to a change in the local geometry of the hygromycin B binding site.
AMR Gene Family16s rRNA with mutation conferring resistance to aminoglycoside antibiotics
Drug Classaminoglycoside antibiotic
Resistance Mechanismantibiotic target alteration
Classification10 ontology terms | Show
Parent Term(s)2 ontology terms | Show
+ confers_resistance_to_antibiotic hygromycin B [Antibiotic]
+ 16s rRNA with mutation conferring resistance to aminoglycoside antibiotics [AMR Gene Family]

Pfister P, et al. 2003. Antimicrob Agents Chemother 47(5): 1496-1502. Role of 16S rRNA Helix 44 in Ribosomal Resistance to Hygromycin B. (PMID 12709313)


Prevalence of Mycolicibacterium smegmatis 16S rRNA (rrsB) mutation conferring resistance to hygromycin B 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

SpeciesNCBI ChromosomeNCBI PlasmidNCBI WGSNCBI GI
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): 2700


  • discovered in clinical, agricultural, or environmental isolates

  • discovered via laboratory selection experiments

  • ReSeqTB

Published Variants:

PMID: 12709313U1348C C1439U U1441C

>gb|X52922.1|+|1-1454|Mycolicibacterium smegmatis 16S rRNA (rrsB) mutation conferring resistance to hygromycin B [Mycolicibacterium smegmatis]