| Accession | ARO:3004107 |
| CARD Short Name | Paer_soxR |
| Definition | SoxR is a redox-sensitive transcriptional activator that induces expression of a small regulon that includes the RND efflux pump-encoding operon mexGHI-opmD. SoxR was shown to be activated by pyocyanin. |
| AMR Gene Family | ATP-binding cassette (ABC) antibiotic efflux pump, major facilitator superfamily (MFS) antibiotic efflux pump, resistance-nodulation-cell division (RND) antibiotic efflux pump |
| Drug Class | tetracycline antibiotic, phenicol antibiotic, disinfecting agents and antiseptics, fluoroquinolone antibiotic, glycylcycline, penam, cephalosporin, rifamycin 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 Perfect Matches | Pseudomonas aeruginosag+p+wgs, Pseudomonas fluorescensg |
| Resistomes with Sequence Variants | Pseudomonas aeruginosag+p+wgs, Pseudomonas brassicacearumg+wgs, Pseudomonas chlororaphisg+wgs, Pseudomonas fluorescensg+wgs, Pseudomonas koreensisg+wgs, Pseudomonas mendocinag+wgs, Pseudomonas monteiliiwgs, Pseudomonas putidag+wgs, Pseudomonas synxanthag+wgs, Pseudomonas syringaeg+wgs, Rhizobium leguminosarumg+wgs |
| Classification | 38 ontology terms | Show + process or component of antibiotic biology or chemistry + antibiotic molecule + mechanism of antibiotic resistance + beta-lactam antibiotic + determinant of antibiotic resistance + antibiotic efflux [Resistance Mechanism] + cephem + tetracycline antibiotic [Drug Class] + phenicol antibiotic [Drug Class] + disinfecting agents and antiseptics [Drug Class] + fluoroquinolone antibiotic [Drug Class] + efflux pump complex or subunit conferring antibiotic resistance [Efflux Component] + glycylcycline [Drug Class] + penam [Drug Class] + cephalosporin [Drug Class] + rifamycin antibiotic [Drug Class] + antibiotic target alteration [Resistance Mechanism] + tigecycline [Antibiotic] + ampicillin [Antibiotic] + ATP-binding cassette (ABC) antibiotic efflux pump [AMR Gene Family] + cefalotin [Antibiotic] + major facilitator superfamily (MFS) antibiotic efflux pump [AMR Gene Family] + norfloxacin [Antibiotic] + tetracycline [Antibiotic] + chloramphenicol [Antibiotic] + mutation conferring antibiotic resistance + rifampin [Antibiotic] + ciprofloxacin [Antibiotic] + triclosan [Antibiotic] + resistance-nodulation-cell division (RND) antibiotic efflux pump [AMR Gene Family] + QepA1 + protein(s) and two-component regulatory system modulating antibiotic efflux [Efflux Regulator] + PatA-PatB + AcrAB-TolC + antibiotic resistant gene variant or mutant + acriflavine [Antibiotic] + soxRS + mutant efflux regulatory protein conferring antibiotic resistance |
| Parent Term(s) | 2 ontology terms | Show |
| Publications | Sakhtah H, et al. 2016. Proc. Natl. Acad. Sci. U.S.A. 113(25):E3538-47 The Pseudomonas aeruginosa efflux pump MexGHI-OpmD transports a natural phenazine that controls gene expression and biofilm development. (PMID 27274079) Palma M, et al. 2005. Infect Immun 73(5): 2958-2966. Pseudomonas aeruginosa SoxR does not conform to the archetypal paradigm for SoxR-dependent regulation of the bacterial oxidative stress adaptive response. (PMID 15845502) Dietrich LE, et al. 2006. Mol. Microbiol. 61(5):1308-21 The phenazine pyocyanin is a terminal signalling factor in the quorum sensing network of Pseudomonas aeruginosa. (PMID 16879411) |
Prevalence of Pseudomonas aeruginosa soxR 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).
| Species | NCBI Chromosome | NCBI Plasmid | NCBI WGS | NCBI GI |
|---|---|---|---|---|
| Pseudomonas aeruginosa | 96.17% | 0.58% | 66.33% | 0% |
| Pseudomonas brassicacearum | 100% | 0% | 64% | 0% |
| Pseudomonas chlororaphis | 100% | 0% | 56.45% | 0% |
| Pseudomonas fluorescens | 83.33% | 0% | 42.61% | 0% |
| Pseudomonas koreensis | 75% | 0% | 60.87% | 0% |
| Pseudomonas mendocina | 25% | 0% | 21.43% | 0% |
| Pseudomonas monteilii | 0% | 0% | 4.76% | 0% |
| Pseudomonas putida | 8.45% | 0% | 11.23% | 0% |
| Pseudomonas synxantha | 100% | 0% | 87.5% | 0% |
| Pseudomonas syringae | 2.08% | 0% | 2.37% | 0% |
| Rhizobium leguminosarum | 10% | 0% | 12.27% | 0% |
Model Type: protein homolog model
Model Definition: Protein Homolog Models (PHM) detect protein sequences based on their similarity to a curated reference sequence, using curated BLASTP bitscore cut-offs. Protein Homolog Models apply to all genes that confer resistance through their presence in an organism, such as the presence of a beta-lactamase gene on a plasmid. PHMs include a reference sequence and a bitscore cut-off for detection using BLASTP. A Perfect RGI match is 100% identical to the reference protein sequence along its entire length, a Strict RGI match is not identical but the bit-score of the matched sequence is greater than the curated BLASTP bit-score cutoff, Loose RGI matches have a bit-score less than the curated BLASTP bit-score cut-off.
Bit-score Cut-off (blastP): 200