tet(X1)

Accession ARO:3005166
Synonym(s)tetX1
CARD Short Nametet(X1)
DefinitionTetracycline resistance gene tet(X) ortholog described by Fang et al. 2020.
AMR Gene Familytetracycline inactivation enzyme
Drug Classtetracycline antibiotic
Resistance Mechanismantibiotic inactivation
Resistomes with Sequence VariantsBacteroides caccaewgs, Bacteroides fragilisg+wgs, Bacteroides ovatuswgs, Bacteroides thetaiotaomicrong+wgs, Parabacteroides distasonisg+wgs, Phocaeicola doreiwgs, Phocaeicola vulgatuswgs
Classification8 ontology terms | Show
Parent Term(s)4 ontology terms | Show
+ tetracycline inactivation enzyme [AMR Gene Family]
+ confers_resistance_to_antibiotic tetracycline [Antibiotic]
+ confers_resistance_to_antibiotic oxytetracycline [Antibiotic]
+ confers_resistance_to_antibiotic minocycline [Antibiotic]
Publications

Fang LX, et al. 2020. Bioessays 42(8):e2000014 Emerging High-Level Tigecycline Resistance: Novel Tetracycline Destructases Spread via the Mobile Tet(X). (PMID 32567703)

Resistomes

Prevalence of tet(X1) 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
Bacteroides caccae0%0%3.75%0%
Bacteroides fragilis3.85%0%2.39%0%
Bacteroides ovatus0%0%3.04%0%
Bacteroides thetaiotaomicron14.29%0%3.5%0%
Parabacteroides distasonis11.54%0%1.87%0%
Phocaeicola dorei0%0%6.25%0%
Phocaeicola vulgatus0%0%4.46%0%
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): 650


>gb|CAC47933.1|-|tet(X1) [Bacteroides thetaiotaomicron]
MANLLQQNGIDITVYERDENPKARVWGGTLDLHKNSGQEAMKKVGLLQTYYDLALPMGVNFADEKGNIIATRNPTLENKFDNPEINRNAL
RKMLLGSLKNDTVVWDRKSIGLEQENGKWLLHFENKPTALADFIIVSNGGMSKIRNFVSDNEVEETGTFIIQGDIPEPETNCPEFYKLCN
NNRLMTAHQGNLLVANPFNNGMLTYGVIFKKPEEWNNGKGLDFKPTKSVSEFLTNRFSNWSNEYKELIRSTTFFVGLTIKIFPLDKKPWK
SNRPLPITLIGDTAHLMPPFAGQGVNIGLMDALILSENLTNGKFGTIQSAIDDYEQRMFVYATEAQADSTKNEIEMRNPSFTFQQLMNV


>gb|AJ311171.1|-|12110-13189|tet(X1) [Bacteroides thetaiotaomicron]
ATGGCAAACTTGTTACAACAAAACGGTATTGACATTACCGTTTACGAAAGAGATGAAAACCCAAAAGCACGAGTTTGGGGCGGAACGCTT
GACCTTCACAAAAATTCAGGACAAGAAGCAATGAAAAAAGTAGGATTGTTGCAAACCTACTATGATTTGGCGCTACCTATGGGCGTAAAC
TTTGCTGATGAGAAGGGTAACATTATAGCAACAAGAAACCCGACACTCGAAAATAAGTTTGACAACCCCGAAATAAATAGAAACGCGTTG
CGAAAAATGTTGCTTGGCAGCTTGAAAAATGACACAGTTGTTTGGGATAGAAAATCTATTGGGCTTGAACAAGAAAACGGAAAATGGCTG
CTACATTTTGAAAATAAGCCAACTGCATTGGCCGACTTTATTATTGTTTCCAATGGTGGAATGTCTAAAATAAGAAATTTTGTTTCAGAT
AATGAAGTCGAAGAAACAGGTACTTTTATTATTCAGGGCGACATTCCTGAACCAGAAACGAACTGCCCTGAATTTTATAAGTTGTGCAAC
AACAATAGACTAATGACCGCACATCAAGGGAATTTATTAGTTGCGAATCCATTTAACAACGGAATGTTAACTTACGGTGTCATTTTCAAA
AAGCCTGAAGAATGGAATAATGGAAAAGGATTAGATTTTAAGCCCACAAAAAGCGTTTCCGAGTTCTTGACAAACAGGTTTTCAAATTGG
AGCAATGAATACAAGGAGTTAATTCGTTCAACAACTTTTTTCGTTGGTTTAACAATAAAAATATTTCCGCTAGACAAAAAGCCTTGGAAG
AGTAATCGTCCGTTACCCATAACTTTAATTGGCGACACAGCTCACCTAATGCCACCTTTTGCAGGGCAGGGCGTAAACATTGGACTAATG
GACGCTTTGATTTTGTCAGAAAATCTTACAAACGGGAAATTTGGAACGATACAAAGTGCTATTGATGACTATGAACAACGAATGTTTGTT
TACGCAACAGAAGCACAAGCGGACTCGACAAAGAATGAAATAGAAATGCGAAATCCGAGCTTTACTTTTCAACAGCTAATGAATGTATAA