ICEberg
ICEberg ID44
NameSXT(MO10)
FamilySXT/R391
OrganismVibrio cholerae O139 MO10
Size (bp)99483
GC content [Genome] (%)47 [47]
Insertion siteprfC
FunctionResistance to the antibiotics sulfamethoxazole, trimethoprim, chloramphenicol, and streptomycin; Toxin–Antitoxin System
Species that ICE can be transferred toVibrio cholerae; Escherichia coli; Salmonella enterica serovar Typhimurium
Nucleotide SequenceAY055428 (complete ICE sequence in this GenBank file)
Replicon-
Coordinates1..99483
Link to view genome context of this ICE in the genome browser
experimental This is a ICE derived from experimental literature.
Complete gene list of SXT(MO10) form AY055428
#GeneCoordinates [+/-], size (bp)Protein GI Product *
1int833..2074 [-], 124221885342  [UniProt] integrase
2s0022076..2345 [-], 27021885339  [UniProt] unknown
3s0032348..3322 [-], 97521885338  [UniProt] unknown
4rumB'4241..5413 [-], 117321885341  [UniProt] UV repair DNA polymerase
5tnp5697..6290 [+], 59421885282  [UniProt] putative transposase
6tnpA6404..9304 [+], 290121885281  [UniProt] putative transposase
7tnpB9799..11292 [+], 149421885280  [UniProt] putative transposase
8dhfR1811653..12207 [-], 55521885345  [UniProt] dhfR18
9s00912221..12766 [-], 54621885337  [UniProt] unknown
10s01012766..13932 [-], 116721885336  [UniProt] unknown
11dcd13947..14675 [-], 72921885344  [UniProt] deoxycytidine triphosphate deaminase
12'tnpB14935..15267 [+], 33321885346  [UniProt] putative transposase
13s01315298..16182 [+], 88521885335  [UniProt] unknownAR
14floR16399..17613 [+], 121521885343  [UniProt] florfenicol exporterAR
15s01517641..17946 [+], 30621885334  [UniProt] unknown
16tnpB'18058..18597 [+], 54021885279  [UniProt] putative transposase
17strB18569..19405 [-], 83721885283  [UniProt] streptomycin phosphotransferaseAR
18strA19405..20208 [-], 80421885284  [UniProt] streptomycin phosphotransferaseAR
19sulII20269..21084 [-], 81621885347  [UniProt] dihydropteroate synthase type IIAR
20tnpA'21555..23168 [+], 161421885278  [UniProt] putative transposase
21s02122636..23358 [-], 72321885333  [UniProt] unknown
22'rumB23511..23831 [-], 32121885348  [UniProt] UV repair DNA polymerase
23rumA23788..24237 [-], 45021885340  [UniProt] UV repair
24s02424876..25784 [+], 90921885332  [UniProt] unknown
25s02525858..26172 [+], 31521885331  [UniProt] unknown
26s02626241..27167 [+], 92721885330  [UniProt] unknown
27s02727395..27778 [+], 38421885329  [UniProt] unknown
28s02827766..28359 [+], 59421885328  [UniProt] unknown
29s02928378..30273 [+], 189621885327  [UniProt] unknown
30s03030325..31923 [+], 159921885326  [UniProt] unknown
31s03132037..32519 [+], 48321885325  [UniProt] unknown
32s03232488..33240 [+], 75321885324  [UniProt] unknown
33s03333237..33995 [+], 75921885323  [UniProt] unknown
34s03433999..34679 [+], 68121885322  [UniProt] unknown
35s03534672..35871 [+], 120021885321  [UniProt] unknown
36s03635852..36232 [+], 38121885320  [UniProt] unknown
37s03736399..37013 [+], 61521885319  [UniProt] unknown
38s03837601..40234 [+], 263421885318  [UniProt] unknown
39s03940251..42326 [+], 207621885317  [UniProt] unknown
40s04042331..45021 [+], 269121885316  [UniProt] unknown
41traI45176..47326 [+], 215121885269  [UniProt] conjugative relaxase
42traD47396..49195 [+], 180021885274  [UniProt] conjugative coupling factor
43s04349753..50388 [+], 63621885315  [UniProt] putative conjugation coupling factor
44s04450414..50692 [-], 27921885314  [UniProt] unknown
45s04550689..51012 [-], 32421885313  [UniProt] unknown
46traL51187..51474 [+], 28821885268  [UniProt] sex pilus assembly
47traE51471..52097 [+], 62721885273  [UniProt] sex pilus assembly
48s04852078..52977 [+], 90021885312  [UniProt] unknown
49traB52980..54269 [+], 129021885276  [UniProt] sex pilus assembly
50traV54266..54916 [+], 65121885266  [UniProt] sex pilus assembly
51traA54913..55299 [+], 38721885277  [UniProt] putative pilin subunit
52s05255664..56311 [+], 64821885311  [UniProt] unknownTA
53s05356292..57242 [+], 95121885310  [UniProt] unknownTA
54s05457374..58066 [+], 69321885309  [UniProt] putative disulfide bond isomerase
55traC58066..60465 [+], 240021885275  [UniProt] sex pilus assembly
56trsF60789..61301 [+], 51321885264  [UniProt] conjugation signal peptidase
57traW61216..62436 [+], 122121885265  [UniProt] sex pilus assembly
58traU62420..63448 [+], 102921885267  [UniProt] sex pilus assembly
59traN63683..67147 [+], 346521885349  [UniProt] mating pair stabilization
60s06067924..69006 [-], 108321885308  [UniProt] unknown
61s06169006..70070 [-], 106521885307  [UniProt] unknown
62s06270183..70899 [-], 71721885306  [UniProt] unknown
63s06371008..71610 [-], 60321885305  [UniProt] unknown
64ssb72318..72737 [+], 42021885285  [UniProt] single-stranded DNA binding proteinVF
65s06572817..73635 [+], 81921885304  [UniProt] putative DNA recombination protein
66s06673921..74937 [+], 101721885303  [UniProt] unknown
67s06775030..76106 [+], 107721885302  [UniProt] unknown
68s06876975..77928 [+], 95421885301  [UniProt] unknown
69s06977990..78430 [+], 44121885300  [UniProt] unknown
70s07078500..80155 [+], 165621885299  [UniProt] unknown
71s07180237..80734 [+], 49821885298  [UniProt] putative DNA repair radCVF
72s07281243..82244 [+], 100221885297  [UniProt] unknown
73s07382335..83042 [+], 70821885296  [UniProt] unknown
74-83304..84233 [-], 93021885295  [UniProt] putative response regulator
75-84239..88045 [-], 380721885294  [UniProt] putative histidine kinaseVF
76traF88747..89724 [+], 97821885272  [UniProt] sex pilus assembly
77traH89727..91115 [+], 138921885270  [UniProt] sex pilus assembly
78traG91119..94688 [+], 357021885271  [UniProt] sex pilus assembly
79s07994721..95173 [-], 45321885293  [UniProt] unknown
80setC95207..95740 [-], 53421885287  [UniProt] transcriptional activator
81setD95737..96036 [-], 30021885350  [UniProt] transcriptional activator
82s08296033..96581 [-], 54921885292  [UniProt] unknown
83s08396568..96936 [-], 36921885291  [UniProt] unknown
84s08496926..97231 [-], 30621885290  [UniProt] unknown
85s08597218..97739 [-], 52221885289  [UniProt] unknown
86s08698144..98395 [-], 25221885288  [UniProt] unknown
87setR98513..99160 [+], 64821885286  [UniProt] transcriptional repressor
 
integrase Gene may contribute to site-specific recombination
conjugation Gene may play role in conjugative transfer
regulation Gene may play role in regulation of transfer

ElementNo. of sequencesDownload
Nucleotide sequences1Fasta
Proteins87Fasta
(1) Daccord A; Mursell M; Poulin-Laprade D; Burrus V (2012). Dynamics of the SetCD-Regulated Integration and Excision of Genomic Islands Mobilized by Integrating Conjugative Elements of the SXT/R391 Family. J Bacteriol. 194(21):5794-802. [PudMed:22923590] experimental
(2) Pande K; Mendiratta DK; Vijayashri D; Thamke DC; Narang P (2012). SXT constin among Vibrio cholerae isolates from a tertiary care hospital. Indian J Med Res. 135:346-50. [PudMed:22561621] experimental
(3) Spagnoletti M; Ceccarelli D; Colombo MM (2012). Rapid detection by multiplex PCR of Genomic Islands, prophages and Integrative Conjugative Elements in V. cholerae 7th pandemic variants. J Microbiol Methods. 88(1):98-102. [PudMed:22062086] experimental
(4) Chen WY; Ho JW; Huang JD; Watt RM (2011). Functional characterization of an alkaline exonuclease and single strand annealing protein from the SXT genetic element of Vibrio cholerae. BMC Mol Biol. 12(1):16. [PudMed:21501469] experimental
(5) Wozniak RA; Fouts DE; Spagnoletti M; Colombo MM; Ceccarelli D; Garriss G; Dery C; Burrus V; Waldor MK (2009). Comparative ICE genomics: insights into the evolution of the SXT/R391 family of ICEs. PLoS Genet. 5(12):e1000786. [PudMed:20041216] in_silico
(6) Bordeleau E; Brouillette E; Robichaud N; Burrus V (2010). Beyond antibiotic resistance: integrating conjugative elements of the SXT/R391 family that encode novel diguanylate cyclases participate to c-di-GMP signalling in Vibrio cholerae. Environ Microbiol. 12(2):510-23. [PudMed:19888998] experimental
(7) Wozniak RA; Waldor MK (2009). A toxin-antitoxin system promotes the maintenance of an integrative conjugative element. PLoS Genet. 5(3):e1000439. [PudMed:19325886] experimental
(8) Ceccarelli D; Daccord A; Rene M; Burrus V (2008). Identification of the origin of transfer (oriT) and a new gene required for mobilization of the SXT/R391 family of integrating conjugative elements. J Bacteriol. 190(15):5328-38. [PudMed:18539733] experimental
(9) Marrero J; Waldor MK (2007). The SXT/R391 family of integrative conjugative elements is composed of two exclusion groups. J Bacteriol. 189(8):3302-5. [PudMed:17307849] experimental
(10) McLeod SM; Burrus V; Waldor MK (2006). Requirement for Vibrio cholerae integration host factor in conjugative DNA transfer. J Bacteriol. 188(16):5704-11. [PudMed:16885438] experimental
(11) Marrero J; Waldor MK (2005). Interactions between inner membrane proteins in donor and recipient cells limit conjugal DNA transfer. Dev Cell. 8(6):963-70. [PudMed:15935784] experimental
(12) Beaber JW; Waldor MK (2004). Identification of operators and promoters that control SXT conjugative transfer. J Bacteriol. 186(17):5945-9. [PudMed:15317801] experimental
(13) Burrus V; Waldor MK (2004). Formation of SXT tandem arrays and SXT-R391 hybrids. J Bacteriol. 186(9):2636-45. [PudMed:15090504] experimental
(14) Boltner D; Osborn AM (2004). Structural comparison of the integrative and conjugative elements R391, pMERPH, R997, and SXT. Plasmid. 51(1):12-23. [PudMed:14711525] experimental
(15) Beaber JW; Hochhut B; Waldor MK (2004). SOS response promotes horizontal dissemination of antibiotic resistance genes. Nature. 427(6969):72-4. [PudMed:14688795] experimental
(16) Burrus V; Waldor MK (2003). Control of SXT integration and excision. J Bacteriol. 185(17):5045-54. [PudMed:12923077] experimental
(17) Thungapathra M; Amita; Sinha KK; Chaudhuri SR; Garg P; Ramamurthy T; Nair GB; Ghosh A (2002). Occurrence of antibiotic resistance gene cassettes aac(6')-Ib, dfrA5, dfrA12, and ereA2 in class I integrons in non-O1, non-O139 Vibrio cholerae strains in India. Antimicrob Agents Chemother. 46(9):2948-55. [PudMed:12183252] experimental
(18) Beaber JW; Hochhut B; Waldor MK (2002). Genomic and functional analyses of SXT, an integrating antibiotic resistance gene transfer element derived from Vibrio cholerae. J Bacteriol. 184(15):4259-69. [PudMed:12107144] experimental
(19) Hochhut B; Lotfi Y; Mazel D; Faruque SM; Woodgate R; Waldor MK (2001). Molecular analysis of antibiotic resistance gene clusters in vibrio cholerae O139 and O1 SXT constins. Antimicrob Agents Chemother. 45(11):2991-3000. [PudMed:11600347] experimental
(20) Hochhut B; Beaber JW; Woodgate R; Waldor MK (2001). Formation of chromosomal tandem arrays of the SXT element and R391, two conjugative chromosomally integrating elements that share an attachment site. J Bacteriol. 183(4):1124-32. [PudMed:11157923] experimental
(21) Hochhut B; Marrero J; Waldor MK (2000). Mobilization of plasmids and chromosomal DNA mediated by the SXT element, a constin found in Vibrio cholerae O139. J Bacteriol. 182(7):2043-7. [PudMed:10715015] experimental
(22) Hochhut B; Waldor MK (1999). Site-specific integration of the conjugal Vibrio cholerae SXT element into prfC. Mol Microbiol. 32(1):99-110. [PudMed:10216863] experimental
(23) Waldor MK; Tschape H; Mekalanos JJ (1996). A new type of conjugative transposon encodes resistance to sulfamethoxazole, trimethoprim, and streptomycin in Vibrio cholerae O139. J Bacteriol. 178(14):4157-65. [PudMed:8763944] experimental
 
experimental experimental literature
in_silico in silico analysis literature

Genomics & Bioinformatics Group in MML, SJTU