| Accession | ARO:3003470 |
| Synonym(s) | Rv3919c |
| CARD Short Name | Mtub_gidB_STR |
| Definition | Specific mutations that occurs on Mycobacterium tuberculosis gidB causing it to be streptomycin resistant. |
| AMR Gene Family | antibiotic resistant gidB |
| Drug Class | aminoglycoside antibiotic |
| Resistance Mechanism | antibiotic target alteration |
| Resistomes with Sequence Variants | Mycobacterium tuberculosisg+wgs |
| Classification | 12 ontology terms | Show + process or component of antibiotic biology or chemistry + mechanism of antibiotic resistance + determinant of antibiotic resistance + antibiotic target alteration [Resistance Mechanism] + antibiotic target modifying enzyme + ribosomal alteration conferring antibiotic resistance + mutation conferring antibiotic resistance + rRNA methyltransferase conferring antibiotic resistance + antibiotic molecule + 16S ribosomal RNA methyltransferase + 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 gidB [AMR Gene Family] |
| Publications | 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) 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) Spies FS, et al. 2011. J. Clin. Microbiol. 49(7):2625-30 Streptomycin resistance and lineage-specific polymorphisms in Mycobacterium tuberculosis gidB gene. (PMID 21593257) Wong SY, et al. 2011. Antimicrob. Agents Chemother. 55(6):2515-22 Mutations in gidB confer low-level streptomycin resistance in Mycobacterium tuberculosis. (PMID 21444711) Bouziane F, et al. 2019. J Glob Antimicrob Resist : First genetic characterization of multi-drug resistant Mycobacterium tuberculosis isolates from Algeria. (PMID 31100498) Klopper M, et al. 2020. BMC Med 18(1):24 A landscape of genomic alterations at the root of a near-untreatable tuberculosis epidemic. (PMID 32014024) Wang Y, et al. 2019. Int J Clin Exp Pathol 12(7):2713-2721 The roles of rpsL, rrs, and gidB mutations in predicting streptomycin-resistant drugs used on clinical Mycobacterium tuberculosis isolates from Hebei Province, China. (PMID 31934102) 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) 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 gidB mutation 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 |
|---|---|---|---|---|---|
| Mycobacterium tuberculosis | 1.64% | 0% | 4.36% | 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): 400
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 |
|---|---|---|---|---|---|
| M1Var | single resistance variant | no data | no data | no data | WHO-R |
| G13Ter | nonsense mutation | no data | no data | no data | WHO-R |
| Y22Ter | nonsense mutation | no data | no data | no data | WHO-R |
| L26Ter | nonsense mutation | no data | no data | no data | WHO-R |
| G28Ter | nonsense mutation | no data | no data | no data | WHO-R |
| G30R | single resistance variant | PMID:21593257 | no data | no data | no data |
| G37Ter | nonsense mutation | no data | no data | no data | WHO-R |
| G37V | single resistance variant | PMID:31100498 | no data | no data | no data |
| E40Ter | nonsense mutation | no data | no data | no data | WHO-R |
| W45S | single resistance variant | PMID:21593257 | no data | no data | WHO-U |
| W45Ter | nonsense mutation | no data | no data | no data | WHO-R |
| W45C | single resistance variant | PMID:18541729 | no data | no data | no data |
| R47Q | single resistance variant | PMID:21593257 | no data | no data | WHO-U |
| H48Q | single resistance variant | no data | no data | no data | WHO-R |
| H48Y | single resistance variant | PMID:21593257 | no data | no data | WHO-U |
| L49F | single resistance variant | PMID:21593257 | no data | no data | no data |
| N51T | single resistance variant | PMID:21593257 | no data | no data | WHO-U |
| C52Ter | nonsense mutation | PMID:21593257 | no data | no data | WHO-R |
| I55S | single resistance variant | PMID:21593257 | no data | no data | no data |
| E60Ter | nonsense mutation | no data | no data | no data | WHO-R |
| D67H | single resistance variant | PMID:21593257 | no data | no data | WHO-R |
| S70N | single resistance variant | no data | no data | no data | WHO-R |
| S70R | single resistance variant | PMID:17238915 | no data | no data | WHO-U |
| G71Ter | nonsense mutation | no data | no data | no data | WHO-R |
| G71V | single resistance variant | PMID:17238915 | no data | no data | no data |
| G73E | single resistance variant | no data | no data | no data | WHO-R |
| G73A | single resistance variant | no data | no data | no data | WHO-R |
| L74Ter | nonsense mutation | no data | no data | no data | WHO-R |
| P75S | single resistance variant | PMID:18541729 | no data | no data | WHO-U |
| L79S | single resistance variant | PMID:32014024 | ReSeqTB-High | no data | WHO-U |
| L79F | single resistance variant | PMID:21593257 | no data | no data | no data |
| L79Ter | nonsense mutation | no data | no data | no data | WHO-R |
| P84L | single resistance variant | PMID:21593257 | no data | no data | WHO-R |
| P84C | single resistance variant | PMID:18541729 | no data | no data | no data |
| Q87Ter | nonsense mutation | no data | no data | no data | WHO-R |
| E92D | single resistance variant | no data | ReSeqTB-Minimal | no data | WHO-S |
| E92Ter | nonsense mutation | no data | no data | no data | WHO-R |
| E92A | single resistance variant | PMID:31100498 | no data | no data | no data |
| E99Ter | nonsense mutation | no data | no data | no data | WHO-R |
| R102Ter | nonsense mutation | no data | no data | no data | WHO-R |
| E103Ter | nonsense mutation | no data | no data | no data | WHO-R |
| V105E | single resistance variant | no data | no data | no data | WHO-R |
| -nt115:c | deletion mutation from nucleotide sequence | PMID:21593257 | no data | no data | no data |
| G117E | single resistance variant | PMID:21593257 | no data | no data | WHO-U |
| R118fs | frameshift mutation | no data | ReSeqTB-High | no data | no data |
| E121Ter | nonsense mutation | no data | no data | no data | WHO-R |
| W123Ter | nonsense mutation | no data | no data | no data | WHO-R |
| V124G | single resistance variant | PMID:31100498 | no data | no data | WHO-U |
| Q125Ter | nonsense mutation | no data | no data | no data | WHO-R |
| Q127Ter | nonsense mutation | no data | no data | no data | WHO-R |
| Q127P | single resistance variant | PMID:17238915 | no data | no data | no data |
| A134E | single resistance variant | PMID:17238915 | no data | no data | WHO-R |
| S136Ter | nonsense mutation | no data | no data | no data | WHO-R |
| A138E | single resistance variant | PMID:17238915 | no data | no data | WHO-U |
| V139A | single resistance variant | PMID:31100498 | no data | no data | WHO-U |
| K144Ter | nonsense mutation | no data | no data | no data | WHO-R |
| W148R | single resistance variant | PMID:18541729 | no data | no data | no data |
| W148Ter | nonsense mutation | no data | no data | no data | WHO-R |
| R158Ter | nonsense mutation | no data | no data | no data | WHO-R |
| K163Ter | nonsense mutation | no data | no data | no data | WHO-R |
| G164C | single resistance variant | PMID:21593257 | no data | no data | no data |
| E165Ter | nonsense mutation | no data | no data | no data | WHO-R |
| E170Ter | nonsense mutation | no data | no data | no data | WHO-R |
| E173Ter | nonsense mutation | no data | no data | no data | WHO-R |
| S181Ter | nonsense mutation | no data | no data | no data | WHO-R |
| A183T | single resistance variant | PMID:21593257 | no data | no data | no data |
| A183E | single resistance variant | PMID:21593257 | no data | no data | WHO-U |
| V188M | single resistance variant | PMID:18541729 | no data | no data | no data |
| V188G | single resistance variant | PMID:21593257 | no data | no data | no data |
| Y195Ter | nonsense mutation | no data | no data | no data | WHO-R |
| A200E | single resistance variant | PMID:21593257 | no data | no data | WHO-R |
| R206Ter | nonsense mutation | no data | no data | no data | WHO-R |
| R213Ter | nonsense mutation | no data | no data | no data | WHO-R |
| +nt350:g | insertion mutation from nucleotide sequence | PMID:21593257 | no data | no data | no data |
| +nt351:g | insertion mutation from nucleotide sequence | PMID:31934102 | no data | no data | no data |
| Curator | Description | Most Recent Edit |
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