| Accession | ARO:3003381 |
| CARD Short Name | Ecol_soxR_MULT |
| Definition | SoxR is a sensory protein that upregulates soxS expression in the presence of redox-cycling drugs. This stress response leads to the expression many multidrug efflux pumps. |
| AMR Gene Family | resistance-nodulation-cell division (RND) antibiotic efflux pump, major facilitator superfamily (MFS) antibiotic efflux pump, ATP-binding cassette (ABC) antibiotic efflux pump |
| Drug Class | tetracycline antibiotic, penicillin beta-lactam, cephalosporin, disinfecting agents and antiseptics, phenicol antibiotic, rifamycin antibiotic, glycylcycline, fluoroquinolone antibiotic |
| Resistance Mechanism | antibiotic efflux, antibiotic target alteration |
| Efflux Component | efflux pump complex or subunit conferring antibiotic resistance |
| Efflux Regulator | protein(s) and two-component regulatory system modulating antibiotic efflux |
| Resistomes with Sequence Variants | Citrobacter amalonaticusg+wgs, Escherichia albertiig+wgs, Escherichia colig+p+wgs, Escherichia fergusoniig+wgs, Escherichia marmotaeg+wgs, Klebsiella oxytocap, Salmonella bongorig+wgs, Salmonella entericag+wgs, Shigella boydiig+wgs, Shigella dysenteriaeg+wgs, Shigella flexnerig+wgs, Shigella sonneig+wgs |
| Classification | 38 ontology terms | Show + process or component of antibiotic biology or chemistry + antibiotic molecule + beta-lactam antibiotic + mechanism of antibiotic resistance + tetracycline antibiotic [Drug Class] + penicillin beta-lactam [Drug Class] + determinant of antibiotic resistance + antibiotic efflux [Resistance Mechanism] + cephalosporin [Drug Class] + penicillin with extended spectrum + first-generation cephalosporin + disinfecting agents and antiseptics [Drug Class] + phenicol antibiotic [Drug Class] + efflux pump complex or subunit conferring antibiotic resistance [Efflux Component] + rifamycin antibiotic [Drug Class] + antibiotic target alteration [Resistance Mechanism] + glycylcycline [Drug Class] + fluoroquinolone antibiotic [Drug Class] + triclosan [Antibiotic] + cefalotin [Antibiotic] + norfloxacin [Antibiotic] + ampicillin [Antibiotic] + chloramphenicol [Antibiotic] + mutation conferring antibiotic resistance + rifampin [Antibiotic] + resistance-nodulation-cell division (RND) antibiotic efflux pump [AMR Gene Family] + major facilitator superfamily (MFS) antibiotic efflux pump [AMR Gene Family] + ATP-binding cassette (ABC) antibiotic efflux pump [AMR Gene Family] + tetracycline [Antibiotic] + ciprofloxacin [Antibiotic] + tigecycline [Antibiotic] + PatA-PatB + protein(s) and two-component regulatory system modulating antibiotic efflux [Efflux Regulator] + QepA1 + AcrAB-TolC + antibiotic resistant gene variant or mutant + soxRS + mutant efflux regulatory protein conferring antibiotic resistance |
| Parent Term(s) | 4 ontology terms | Show + confers_resistance_to_antibiotic ciprofloxacin [Antibiotic] + confers_resistance_to_antibiotic chloramphenicol [Antibiotic] + confers_resistance_to_antibiotic nalidixic acid [Antibiotic] + soxR |
| Publications | Gu M and Imlay JA. 2011. Mol Microbiol 79(5): 1136-1150. The SoxRS response of Escherichia coli is directly activated by redox-cycling drugs rather than by superoxide. (PMID 21226770) Koutsolioutsou A, et al. 2005. Antimicrob. Agents Chemother. 49(7):2746-52 Constitutive soxR mutations contribute to multiple-antibiotic resistance in clinical Escherichia coli isolates. (PMID 15980345) Webber MA, et al. 2001. Antimicrob. Agents Chemother. 45(5):1550-2 Absence of mutations in marRAB or soxRS in acrB-overexpressing fluoroquinolone-resistant clinical and veterinary isolates of Escherichia coli. (PMID 11302826) |
Prevalence of Escherichia coli soxR with mutation conferring antibiotic resistance 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 |
|---|---|---|---|---|---|
| Citrobacter amalonaticus | 90.91% | 0% | 96.36% | 0% | 0% |
| Escherichia albertii | 100% | 0% | 100% | 0% | 0% |
| Escherichia coli | 67.77% | 0.02% | 99.26% | 0% | 99.78% |
| Escherichia fergusonii | 100% | 0% | 100% | 0% | 0% |
| Escherichia marmotae | 100% | 0% | 97.92% | 0% | 0% |
| Klebsiella oxytoca | 0% | 0.68% | 0% | 0% | 0% |
| Salmonella bongori | 100% | 0% | 100% | 0% | 0% |
| Salmonella enterica | 91.99% | 0% | 97.42% | 0% | 0% |
| Shigella boydii | 86.67% | 0% | 96.67% | 0% | 0% |
| Shigella dysenteriae | 100% | 0% | 100% | 0% | 0% |
| Shigella flexneri | 99% | 0% | 99.69% | 0% | 0% |
| Shigella sonnei | 2.44% | 0% | 4.89% | 0% | 0% |
Model Type: protein overexpression model
Model Definition: Protein Overexpression Models (POM) are similar to Protein Variant Models (PVM) in that they include a protein reference sequence, a curated BLASTP bitscore cut-off, and mapped resistance variants. Whereas PVMs are designed to detect AMR acquired via mutation of house-keeping genes or antibiotic targets, reporting only those with curated mutations conferring AMR, POMs are restricted to regulatory proteins and report both wild-type sequences and/or sequences with mutations leading to overexpression of efflux complexes. The former lead to efflux of antibiotics at basal levels, while the latter can confer clinical resistance. POMs include a protein reference sequence (often from 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 Perfect RGI match is 100% identical to the wild-type reference protein sequence along its entire length, a Strict RGI match has a BLASTP bit-score above the curated BLASTP cutoff value may or may not contain 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 may or may not contain at least one curated mutation from amongst the mapped resistance variants.
Bit-score Cut-off (blastP): 300
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 |
|---|---|---|
| R20H | single resistance variant | PMID:15980345 |
| S31A | single resistance variant | PMID:11302826 |
| T38S,G74R | multiple resistance variants | PMID:15980345 |
| R71S | single resistance variant | PMID:11302826 |
| R90G | single resistance variant | PMID:11302826 |
| G121D | single resistance variant | PMID:21226770 |
| -S128 | deletion mutation from peptide sequence | PMID:15980345 |
| L148fs | frameshift mutation | PMID:15980345 |
| Curator | Description | Most Recent Edit |
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