Mycobacterium tuberculosis 16S rRNA mutation conferring resistance to streptomycin

Accession ARO:3003480
CARD Short NameMtub_16S_STR
DefinitionPoint mutations within the 530 loop of the 16S rRNA of Mycobacterium tuberculosis can result in resistance against streptomycin. These mutations do not directly inhibit the binding of streptomycin, but is hypothesized that they interfere with conformational perturbations that account for streptomycin's action on the ribosome.
AMR Gene Family16s rRNA with mutation conferring resistance to aminoglycoside antibiotics
Drug Classaminoglycoside antibiotic
Resistance Mechanismantibiotic target alteration
Resistomes with Sequence VariantsMycobacterium tuberculosisg+wgs
Classification10 ontology terms | Show
Parent Term(s)2 ontology terms | Show
+ confers_resistance_to_antibiotic streptomycin [Antibiotic]
+ 16s rRNA with mutation conferring resistance to aminoglycoside antibiotics [AMR Gene Family]

Finken M, et al. 1993. Mol Microbiol 9(6): 1239-1246. Molecular basis of streptomycin resistance in Mycobacterium tuberculosis: alterations of the ribosomal protein S12 gene and point mutations within a functional 16S ribosomal RNA pseudoknot. (PMID 7934937)

Spies FS, et al. 2008. Antimicrob Agents Chemother 52(8): 2947-2949. Identification of mutations related to streptomycin resistance in clinical isolates of Mycobacterium tuberculosis and possible involvement of efflux mechanism. (PMID 18541729)

Taniguchi H, et al. 1997. J Bacteriol 179(15): 4795-4801. Molecular analysis of kanamycin and viomycin resistance in Mycobacterium smegmatis by use of the conjugation system. (PMID 9244267)

Meier A, et al. 1996. Antimicrob Agents Chemother 40(11): 2452-2454. Correlation of molecular resistance mechanisms and phenotypic resistance levels in streptomycin-resistant Mycobacterium tuberculosis. (PMID 8913445)

Meier A, et al. 1994. Antimicrob Agents Chemother 38(2): 228-233. Genetic alterations in streptomycin-resistant Mycobacterium tuberculosis: mapping of mutations conferring resistance. (PMID 8192448)

Domenech P, et al. 2022. Antimicrob Agents Chemother 66(3):e0191521 Experimental Confirmation that an Uncommon rrs Gene Mutation (g878a) of Mycobacterium tuberculosis Confers Resistance to Streptomycin. (PMID 35072512)


Prevalence of Mycobacterium tuberculosis 16S rRNA mutation conferring resistance to streptomycin 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 tuberculosis17.42%0%10.16%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): 2700


  • discovered in clinical, agricultural, or environmental isolates

  • discovered via laboratory selection experiments

  • ReSeqTB

Published Variants:

PMID in progress (TB): C517T

PMID: 8192448G427C C492U C513U A514C A514U C516U C517U A906G A1401G
PMID: 35072512G878A


High ConfidenceA514C C517T
Moderate ConfidenceA1401G

>gb|AL123456.3|+|1471846-1473382|Mycobacterium tuberculosis 16S rRNA mutation conferring resistance to streptomycin [Mycobacterium tuberculosis H37Rv]