 ICEberg ID | 3 |
Name  | CTnDOT  |
| ICEO ID | ICEO_0000701 |
| Organism | Bacteroides thetaiotaomicron |
| Size (bp) | ~65 kb |
| GC content [Genome] (%) | - |
| Insertion site | TTTGCNNNNN |
| Function | Tetracycline resistance and erythromycin resistance |
| Species that ICE can be transferred to | Bacteroides thetaiotaomicron; Bacteroides spp.; Escherichia coli |
| Nucleotide Sequence | AJ431573; AF289050; AJ319661; AJ311171 (partial ICE sequence) |
| Putative oriT region | - |
| Putative relaxase | coordinates: 7955..8866; Locus tag: -; Family: MOBP |
The Interaction Network among ICE/IME/CIME | ||||||
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| Detailed Informatioin of the Interaction Network | ||||||
| # | ICE | Inter_Ele [Type] | Methods | Donors | Recipients | Exper_Ref |
| 1 | CTnDOT | ermF region [IME] | in trans | Bacteroides thetaiotaomicron | Bacteroides thetaiotaomicron | 11472924 |
| 2 | CTnDOT | NBU1 [IME] | in trans | Bacteroides uniformis | Bacteroides thetaiotaomicron 5482 | 8407835 |
| 3 | CTnDOT | NBU2 [IME] | in trans | Bacteroides thetaiotaomicron; Bacteroides uniformis | Bacteroides thetaiotaomicron 5482 | 8407835 |
| 4 | CTnDOT | Tn4399 [IME] | in trans | Bacteroides | Bacteroides | 8397185 |
| This is an interactioin derived from experimental literature |
The graph information of CTnDOT components from AF289050 | |||||
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| Incomplete gene list of CTnDOT from AF289050 | |||||
| # | Gene | Coordinates [+/-], size (bp) | Product (GenBank annotation) | *Reannotation | |
| 1 | - | 1..702 [-], 702 | unknown | ||
| 2 | - | 733..1980 [-], 1248 | unknown | ||
| 3 | traA | 3069..3824 [+], 756 | TraA | part of transfer region; [PMID: 11319931] | |
| 4 | traB | 3830..4279 [+], 450 | TraB | part of transfer region; [PMID: 11319931] | |
| 5 | traC | 4300..4659 [+], 360 | TraC | part of transfer region; [PMID: 11319931] | |
| 6 | traD | 4656..5396 [+], 741 | TraD | part of transfer region; [PMID: 11319931] | |
| 7 | traE | 5597..5914 [+], 318 | TraE | part of transfer region; [PMID: 11319931] | |
| 8 | traF | 5926..6258 [+], 333 | TraF | part of transfer region; [PMID: 11319931] | |
| 9 | traG | 6255..8771 [+], 2517 | TraG | part of transfer region; [PMID: 11319931] | |
| 10 | traH | 8611..9186 [+], 576 | TraH | part of transfer region; [PMID: 11319931] | |
| 11 | traI | 9211..9840 [+], 630 | TraI | part of transfer region; [PMID: 11319931] | |
| 12 | traJ | 9845..10849 [+], 1005 | TraJ | part of transfer region; [PMID: 11319931] | |
| 13 | traK | 10882..11505 [+], 624 | TraK | part of transfer region; [PMID: 11319931] | |
| 14 | traL | 11512..11832 [+], 321 | TraL | part of transfer region; [PMID: 11319931] | |
| 15 | traM | 11813..13171 [+], 1359 | TraM | part of transfer region; [PMID: 11319931] | |
| 16 | traN | 13209..14198 [+], 990 | TraN | part of transfer region; [PMID: 11319931] | |
| 17 | traO | 14201..14776 [+], 576 | TraO | part of transfer region; [PMID: 11319931] | |
| 18 | traP | 14803..15669 [+], 867 | TraP | part of transfer region; [PMID: 11319931] | |
| 19 | traQ | 15683..16180 [+], 498 | TraQ | part of transfer region; [PMID: 11319931] | |
The graph information of CTnDOT components from AJ431573 | |||||
 | |||||
| Incomplete gene list of CTnDOT from AJ431573 | |||||
| # | Gene | Coordinates [+/-], size (bp) | Product (GenBank annotation) | *Reannotation | |
| 1 | - | 370..672 [-], 303 | hypothetical protein | ||
| 2 | - | 704..1480 [-], 777 | hypothetical protein | ||
| 3 | xis2c | 1284..1640 [+], 357 | excisionase of CTnDOT | Xis2c; resembles other Recombination Directionality Factors (RDFs); [PMID: 26104696] | |
| 4 | xis2d | 1643..1993 [+], 351 | excisionase of CTnDOT | Xis2d; resembles other Recombination Directionality Factors (RDFs); [PMID: 26104696] | |
| 5 | - | 2014..3582 [+], 1569 | hypothetical protein | ||
| 6 | exc | 3644..5731 [+], 2088 | Exc protein | a topoisomerases-related protein required for excision; [PMID: 11532130; 12453211] | |
| 7 | - | 4397..5593 [-], 1197 | hypothetical protein | ||
| 8 | rteR | 5562..5759 [+], 198 | RteR protein | ||
| 9 | - | 5759..6346 [+], 588 | hypothetical protein | ||
The graph information of CTnDOT components from AJ319661 | |||||
 | |||||
| Incomplete gene list of CTnDOT from AJ319661 | |||||
| # | Gene | Coordinates [+/-], size (bp) | Product (GenBank annotation) | *Reannotation | |
| 1 | - | 1..1569 [+], 1569 | hypothetical protein | ||
| 2 | exc | 1631..3718 [+], 2088 | Exc protein | a topoisomerases-related protein required for excision; [PMID: 11532130; 12453211] | |
The graph information of CTnDOT components from AJ311171 | |||||
 | |||||
| Incomplete gene list of CTnDOT from AJ311171 | |||||
| # | Gene | Coordinates [+/-], size (bp) | Product (GenBank annotation) | *Reannotation | |
| 1 | intDOT | 847..2082 [+], 1236 | integrase protein | Integrase | |
| 2 | - | 2095..2457 [+], 363 | hypothetical protein | ||
| 3 | intF | 2672..4006 [+], 1335 | putative integrase | ||
| 4 | - | 4011..4196 [+], 186 | hypothetical protein | ||
| 5 | - | 5172..5471 [+], 300 | hypothetical protein | ||
| 6 | - | 5649..6518 [+], 870 | hypothetical protein | ||
| 7 | prmF | 6589..7542 [+], 954 | hypothetical protein | ||
| 8 | mobB | 7612..7974 [+], 363 | MobB protein | functional mobilization gene; [PMID: 11472924] | |
| 9 | mobA | 7955..8866 [+], 912 | MobA protein | Relaxase, MOBP Family | |
| 10 | - | 8871..9464 [+], 594 | hypothetical protein | ||
| 11 | aadS | 9763..10599 [-], 837 | aminoglycoside 6-adenylyltransferase | a streptomycin resistance determinant; [PMID: 11472924] | |
| 12 | tetX2 | 10775..11941 [-], 1167 | TetX2 protein | AR | |
| 13 | tetX1 | 12110..13189 [-], 1080 | TetX1 protein | ||
| 14 | ermF | 13555..14355 [+], 801 | rRNA adenine-N6 methyltransferase | AR | |
| 15 | tpnF | 14593..15432 [+], 840 | TpnF protein | ||
| 16 | - | 15901..16218 [-], 318 | hypothetical protein | ||
| 17 | - | 16249..16734 [-], 486 | hypothetical protein | ||
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(1) Park J; Salyers AA (2011). Characterization of the Bacteroides CTnDOT regulatory protein RteC. J Bacteriol. 193(1):91-7. [PubMed:21037014]
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(2) Wood MM; Dichiara JM; Yoneji S; Gardner JF (2010). CTnDOT integrase interactions with attachment site DNA and control of directionality of the recombination reaction. J Bacteriol. 192(15):3934-43. [PubMed:20511494]
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(5) Malanowska K; Yoneji S; Salyers AA; Gardner JF (2007). CTnDOT integrase performs ordered homology-dependent and homology-independent strand exchanges. Nucleic Acids Res. 35(17):5861-73. [PubMed:17720706]
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(6) Moon K; Sonnenburg J; Salyers AA (2007). Unexpected effect of a Bacteroides conjugative transposon, CTnDOT, on chromosomal gene expression in its bacterial host. Mol Microbiol. 64(6):1562-71. [PubMed:17555438]
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(7) Dichiara JM; Mattis AN; Gardner JF (2007). IntDOT interactions with core- and arm-type sites of the conjugative transposon CTnDOT. J Bacteriol. 189(7):2692-701. [PubMed:17277054]
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(8) Malanowska K; Salyers AA; Gardner JF (2006). Characterization of a conjugative transposon integrase, IntDOT. Mol Microbiol. 60(5):1228-40. [PubMed:16689798]
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(10) DiChiara JM; Salyers AA; Gardner JF (2005). In vitro analysis of sequence requirements for the excision reaction of the Bacteroides conjugative transposon, CTnDOT. Mol Microbiol. 56(4):1035-48. [PubMed:15853888]
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(17) Whittle G; Shoemaker NB; Salyers AA (2002). Characterization of genes involved in modulation of conjugal transfer of the Bacteroides conjugative transposon CTnDOT. J Bacteriol. 184(14):3839-47. [PubMed:12081954]
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(18) Cheng Q; Sutanto Y; Shoemaker NB; Gardner JF; Salyers AA (2001). Identification of genes required for excision of CTnDOT, a Bacteroides conjugative transposon. Mol Microbiol. 41(3):625-32. [PubMed:11532130]
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(19) Whittle G; Hund BD; Shoemaker NB; Salyers AA (2001). Characterization of the 13-kilobase ermF region of the Bacteroides conjugative transposon CTnDOT. Appl Environ Microbiol. 67(8):3488-95. [PubMed:11472924]
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(20) Cheng Q; Paszkiet BJ; Shoemaker NB; Gardner JF; Salyers AA (2000). Integration and excision of a Bacteroides conjugative transposon, CTnDOT. J Bacteriol. 182(14):4035-43. [PubMed:10869083]
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(22) Valentine PJ; Shoemaker NB; Salyers AA (1988). Mobilization of Bacteroides plasmids by Bacteroides conjugal elements. J Bacteriol. 170(3):1319-24. [PubMed:3343220]
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(23) Bedzyk LA; Shoemaker NB; Young KE; Salyers AA (1992). Insertion and excision of Bacteroides conjugative chromosomal elements. J Bacteriol. 174(1):166-72. [PubMed:1309516]
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| experimental literature |