| Accession | ARO:3003395 |
| Synonym(s) | Rv0682 |
| CARD Short Name | Mtub_rpsL_STR |
| Definition | Ribosomal protein S12 stabilizes the highly conserved pseudoknot structure formed by 16S rRNA. Amino acid substitutions in RpsL affect the higher-order structure of 16S rRNA and confer streptomycin resistance by disrupting interactions between 16S rRNA and streptomycin. |
| AMR Gene Family | antibiotic-resistant rpsL |
| Drug Class | aminoglycoside antibiotic |
| Resistance Mechanism | antibiotic target alteration |
| Resistomes with Sequence Variants | Bifidobacterium bifidumg+wgs, Bifidobacterium breveg+wgs, Bifidobacterium longumg+wgs, Corynebacterium jeikeiumg+wgs, Corynebacterium ulceranswgs, Corynebacterium urealyticumg, Kocuria palustriswgs, Micrococcus luteuswgs, Mycobacterium kansasiig, Mycobacterium tuberculosisg+wgs, Schaalia odontolyticag+wgs, Tropheryma whippleiwgs, Trueperella pyogenesg+wgs |
| Classification | 8 ontology terms | Show + process or component of antibiotic biology or chemistry + mechanism of antibiotic resistance + antibiotic target alteration [Resistance Mechanism] + mutation conferring antibiotic resistance + determinant of antibiotic resistance + antibiotic molecule + antibiotic resistant gene variant or mutant + aminoglycoside antibiotic [Drug Class] |
| Parent Term(s) | 2 ontology terms | Show + confers_resistance_to_antibiotic streptomycin [Antibiotic] + antibiotic-resistant rpsL [AMR Gene Family] |
| Publications | Ballif M, et al. 2012. BMC Microbiol 12: 191. Drug resistance-conferring mutations in Mycobacterium tuberculosis from Madang, Papua New Guinea. (PMID 22943573) Sreevatsan S, et al. 1996. Antimicrob Agents Chemother 40(4): 1024-1026. Characterization of rpsL and rrs mutations in streptomycin-resistant Mycobacterium tuberculosis isolates from diverse geographic localities. (PMID 8849220) Okamoto S, et al. 2007. Mol Microbiol 63(4): 1096-1106. Loss of a conserved 7-methylguanosine modification in 16S rRNA confers low-level streptomycin resistance in bacteria. (PMID 17238915) 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) Brzostek A, et al. 2004. Int J Tuberc Lung Dis 8(8): 1032-1035. Molecular characterisation of streptomycin-resistant Mycobacterium tuberculosis strains isolated in Poland. (PMID 15305490) Nair J, et al. 1993. Mol Microbiol 10(3): 521-527. The rpsL gene and streptomycin resistance in single and multiple drug-resistant strains of Mycobacterium tuberculosis. (PMID 7968530) Ezewudo M, et al. 2018. Sci Rep 8(1):15382 Integrating standardized whole genome sequence analysis with a global Mycobacterium tuberculosis antibiotic resistance knowledgebase. (PMID 30337678) The CRyPTIC Consortium 2022. PLoS Biol 20(8):e3001721 A data compendium associating the genomes of 12,289 Mycobacterium tuberculosis isolates with quantitative resistance phenotypes to 13 antibiotics. (PMID 35944069) World Health Organization. 2023. ISBN 978-92-4-008241-0. Catalogue of mutations in Mycobacterium tuberculosis complex and their association with drug resistance. Second Edition. (ISBN 978-92-4-008241-0) |
Prevalence of Mycobacterium tuberculosis rpsL mutations conferring resistance to Streptomycin 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).
| Species | NCBI Chromosome | NCBI Plasmid | NCBI WGS | NCBI GI | GRDI-AMR2 |
|---|---|---|---|---|---|
| Bifidobacterium bifidum | 7.14% | 0% | 10.45% | 0% | 0% |
| Bifidobacterium breve | 9.8% | 0% | 9.04% | 0% | 0% |
| Bifidobacterium longum | 18.95% | 0% | 4.03% | 0% | 0% |
| Corynebacterium jeikeium | 60% | 0% | 31.58% | 0% | 0% |
| Corynebacterium ulcerans | 0% | 0% | 4.55% | 0% | 0% |
| Corynebacterium urealyticum | 100% | 0% | 0% | 0% | 0% |
| Kocuria palustris | 0% | 0% | 5.56% | 0% | 0% |
| Micrococcus luteus | 0% | 0% | 3.33% | 0% | 0% |
| Mycobacterium kansasii | 27.27% | 0% | 0% | 0% | 0% |
| Mycobacterium tuberculosis | 17.42% | 0% | 15.47% | 0% | 0% |
| Schaalia odontolytica | 33.33% | 0% | 12.5% | 0% | 0% |
| Tropheryma whipplei | 0% | 0% | 5.88% | 0% | 0% |
| Trueperella pyogenes | 13.33% | 0% | 8.33% | 0% | 0% |
Model Type: protein variant model
Model Definition: Protein Variant Models (PVM) perform a similar search as Protein Homolog Models (PHM), i.e. detect protein sequences based on their similarity to a curated reference sequence, but secondarily screen query sequences for curated sets of mutations to differentiate them from antibiotic susceptible wild-type alleles. PVMs are designed to detect AMR acquired via mutation of house-keeping genes or antibiotic targets, e.g. a mutated gyrase resistant to aminocoumarin antibiotics. PVMs include a protein 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 BLASTP bit-score above the curated BLASTP 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 BLASTP bit-score cut-off but still contains at least one curated mutation from amongst the mapped resistance variants.
Bit-score Cut-off (blastP): 200
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).| Mutation | Mutation type | PubMed | ReSeqTB | CRyPTIC | WHO |
|---|---|---|---|---|---|
| T40I | single resistance variant | PMID:15305490 | no data | CRyPTIC-U | no data |
| K43R | single resistance variant | PMID:15305490 | ReSeqTB-High | CRyPTIC-R | WHO-R |
| K88R | single resistance variant | PMID:22943573 | ReSeqTB-High | CRyPTIC-R | WHO-R |
| K88Q | single resistance variant | PMID:22943573 | no data | CRyPTIC-R | WHO-R |
| K88M | single resistance variant | no data | no data | no data | WHO-R |
| Curator | Description | Most Recent Edit |
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