tet(D)

Accession ARO:3000168
Synonym(s)tetD
CARD Short Nametet(D)
DefinitionTetD is a tetracycline efflux pump found exclusively in Gram-negative bacteria.
AMR Gene Familymajor facilitator superfamily (MFS) antibiotic efflux pump
Drug Classtetracycline antibiotic
Resistance Mechanismantibiotic efflux
Efflux Componentefflux pump complex or subunit conferring antibiotic resistance
Resistomes with Perfect MatchesAeromonas hydrophilag, Aeromonas veroniip+wgs, Citrobacter freundiip+wgs, Citrobacter portucalensisp+wgs, Citrobacter werkmaniiwgs, Cronobacter malonaticuswgs, Enterobacter asburiaep+wgs, Enterobacter chengduensiswgs, Enterobacter cloacaep+wgs, Enterobacter hormaecheig+p+wgs, Enterobacter kobeip+wgs, Enterobacter roggenkampiip+wgs, Escherichia colig+p+wgs+gi, Klebsiella aerogeneswgs, Klebsiella michiganensisp+wgs, Klebsiella oxytocag+wgs, Klebsiella pneumoniaeg+p+wgs, Klebsiella quasipneumoniaeg+p+wgs, Morganella morganiip+wgs, Plesiomonas shigelloideswgs, Proteus mirabilisg+p+gi, Proteus penneriwgs, Providencia rettgeriwgs, Raoultella planticolawgs, Salmonella entericawgs, Serratia marcescensp+wgs, Vibrio choleraep+wgs
Resistomes with Sequence VariantsAcinetobacter baumanniigi, Aeromonas hydrophilag, Aeromonas veroniip+wgs+gi, Bordetella trematumgi, Citrobacter freundiip+wgs, Citrobacter portucalensisp+wgs, Citrobacter werkmaniiwgs, Citrobacter youngaewgs, Comamonas testosteronigi, Corynebacterium diphtheriaegi, Cronobacter malonaticuswgs, Delftia tsuruhatensisgi, Enterobacter asburiaep+wgs, Enterobacter chengduensiswgs, Enterobacter cloacaep+wgs, Enterobacter hormaecheig+p+wgs+gi, Enterobacter kobeip+wgs, Enterobacter roggenkampiip+wgs, Escherichia colig+p+wgs+gi, Klebsiella aerogeneswgs, Klebsiella huaxiensisg+gi, Klebsiella michiganensisp+wgs, Klebsiella oxytocag+wgs, Klebsiella pneumoniaeg+p+wgs, Klebsiella quasipneumoniaeg+p+wgs, Laribacter hongkongensisgi, Morganella morganiig+p+wgs, Pasteurella multocidagi, Plesiomonas shigelloideswgs, Proteus mirabilisg+p+gi, Proteus penneriwgs, Providencia rettgeriwgs, Pseudomonas aeruginosagi, Raoultella planticolap+wgs, Rhodobacteraceae bacteriumgi, Salmonella entericawgs+gi, Serratia marcescensp+wgs, Shewanella putrefaciensgi, Trueperella pyogenesgi, Vibrio choleraep+wgs+gi, Vibrio neocaledonicusgi, Vibrio owensiigi
Classification7 ontology terms | Show
Parent Term(s)2 ontology terms | Show
+ confers_resistance_to_antibiotic tetracycline [Antibiotic]
+ major facilitator superfamily (MFS) antibiotic efflux pump [AMR Gene Family]
Publications

Roberts MC. 2005. FEMS Microbiol Lett 245(2): 195-203. Update on acquired tetracycline resistance genes. (PMID 15837373)

Resistomes

Prevalence of tet(D) 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: protein homolog model (view sequences)

SpeciesNCBI ChromosomeNCBI PlasmidNCBI WGSNCBI GI
Acinetobacter baumannii0%0%0%0.63%
Aeromonas hydrophila1.54%0%0%0%
Aeromonas veronii0%3.08%0.56%25%
Bordetella trematum0%0%0%50%
Citrobacter freundii0%4%7.16%0%
Citrobacter portucalensis0%1.47%13.51%0%
Citrobacter werkmanii0%0%15.38%0%
Citrobacter youngae0%0%6.25%0%
Comamonas testosteroni0%0%0%100%
Corynebacterium diphtheriae0%0%0%50%
Cronobacter malonaticus0%0%1.82%0%
Delftia tsuruhatensis0%0%0%100%
Enterobacter asburiae0%0.55%1.19%0%
Enterobacter chengduensis0%0%12%0%
Enterobacter cloacae0%1.12%5.11%0%
Enterobacter hormaechei0.36%2.96%6.6%3.33%
Enterobacter kobei0%1.38%3.06%0%
Enterobacter roggenkampii0%0.97%1.44%0%
Escherichia coli0.48%0.01%0.5%0.64%
Klebsiella aerogenes0%0%1.98%0%
Klebsiella huaxiensis100%0%0%50%
Klebsiella michiganensis0%1.14%0.53%0%
Klebsiella oxytoca2.56%0%2.94%0%
Klebsiella pneumoniae0.24%1.24%6.61%0%
Klebsiella quasipneumoniae0.84%1.91%5.39%0%
Laribacter hongkongensis0%0%0%50%
Morganella morganii30.77%2.5%15.34%0%
Pasteurella multocida0%0%0%16.67%
Plesiomonas shigelloides0%0%3.45%0%
Proteus mirabilis0.92%1.25%0%7.41%
Proteus penneri0%0%12.5%0%
Providencia rettgeri0%0%1.91%0%
Pseudomonas aeruginosa0%0%0%9.72%
Raoultella planticola0%2.33%5.13%0%
Rhodobacteraceae bacterium0%0%0%100%
Salmonella enterica0%0%0.26%3.97%
Serratia marcescens0%2.58%2.49%0%
Shewanella putrefaciens0%0%0%50%
Trueperella pyogenes0%0%0%30%
Vibrio cholerae0%5.26%0.45%9.52%
Vibrio neocaledonicus0%0%0%100%
Vibrio owensii0%0%0%50%
Show Perfect Only


Detection Models

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): 700


>gb|AAL75563.1|+|tet(D) [Shigella flexneri Y]
MNKPAVIALVITLLDAMGIGLIMPVLPSLLREYLPEADVANHYGILLALYAVMQVCFAPLLGRWSDKLGRRPVLLLSLAGAAFDYTLLAL
SNVLWMLYLGRIISGITGATGAVAASVVADSTAVSERTAWFGRLGAAFGAGLIAGPAIGGLAGDISPHLPFVIAAILNACTFLMVFFIFK
PAVQTEEKPAEQKQESAGISFITLLKPLALLLFVFFTAQLIGQIPATVWVLFTESRFAWDSAAVGFSLAGLGAMHALFQAVVAGALAKRL
SEKTIIFAGFIADATAFLLMSAITSGWMVYPVLILLAGGGIALPALQGIISAGASAANQGKLQGVLVSLTNLTGVAGPLLFAFIFSQTQQ
SADGTVWLIGTALYGLLLAICLLIRKPAPVAATC


>gb|AF467077.1|+|164-1348|tet(D) [Shigella flexneri Y]
ATGAATAAACCCGCTGTCATCGCGCTGGTGATTACACTGCTGGACGCGATGGGAATTGGTCTGATCATGCCGGTATTACCGTCACTGCTG
CGGGAATATCTCCCGGAAGCGGATGTGGCAAACCATTACGGCATTCTGCTGGCGCTGTATGCGGTGATGCAGGTCTGTTTTGCTCCGCTG
CTGGGCAGATGGTCAGATAAGCTGGGGCGCAGACCGGTGCTGCTGTTATCCCTGGCGGGTGCCGCGTTTGATTACACACTGCTGGCACTG
TCCAATGTGCTGTGGATGTTGTATCTCGGGCGGATTATCTCCGGGATCACTGGTGCCACCGGCGCGGTTGCGGCTTCGGTAGTGGCGGAC
AGCACGGCGGTCAGCGAGCGTACCGCCTGGTTCGGCCGTCTCGGTGCGGCCTTTGGTGCCGGGCTGATTGCCGGGCCGGCTATCGGCGGA
CTGGCGGGGGATATCTCACCGCATCTGCCGTTTGTCATTGCGGCAATACTGAATGCCTGCACCTTTCTGATGGTCTTTTTTATCTTTAAA
CCGGCGGTACAGACAGAAGAAAAACCGGCGGAGCAGAAACAAGAAAGCGCAGGTATCAGCTTTATCACACTGCTTAAACCTCTGGCGCTG
TTGCTGTTTGTCTTTTTTACCGCGCAGCTTATCGGGCAGATCCCGGCCACTGTCTGGGTATTGTTTACGGAGAGCCGCTTTGCCTGGGAC
AGCGCGGCGGTCGGTTTTTCACTGGCGGGACTCGGGGCGATGCATGCACTGTTTCAGGCGGTGGTTGCCGGGGCGCTGGCAAAACGGCTG
AGTGAGAAAACCATTATTTTCGCCGGATTTATTGCCGATGCCACCGCGTTTTTACTGATGTCTGCTATCACTTCCGGATGGATGGTGTAT
CCGGTCCTGATCCTGCTGGCAGGCGGCGGAATTGCACTGCCTGCATTGCAGGGCATTATCTCTGCCGGGGCATCGGCGGCAAATCAGGGA
AAACTACAGGGTGTGCTGGTCAGCCTGACCAATCTGACCGGCGTGGCGGGCCCGCTGCTGTTTGCTTTTATTTTCAGTCAGACACAGCAG
AGTGCGGACGGTACGGTGTGGCTGATTGGCACGGCACTGTACGGTCTGCTGCTGGCAATCTGTCTGCTGATCAGAAAACCGGCACCGGTG
GCGGCCACCTGCTGA