| ICE family: Tn4371 | ||||
| The Tn4371 family was defined by Ryan et al (2009). propose that
any ICE that encodes an integrase gene closely related to
intTn4371, defined as over 70% protein homology and that
has similar maintenance and transfer genes be considered
part of the Tn4371 family of ICEs. However, we lessen the protein homology to 60% for those similar in sequence. | ||||
| # | ID | ICE name | Strain | Replicon |
| 1 | 46  | Tn4371 | Ralstonia oxalatica A5 | - |
| 2 | 166 | ICE-KKS | Acidovorax sp. KKS102 | - |
| 3 | 192  | ICE(Tn4371)6033 | Ralstonia pickettii 12J | NC_010682 |
| 4 | 193 | ICE(Tn4371)6034 | Shewanella sp. ANA-3 | NC_008577 |
| 5 | 194 | ICE(Tn4371)6035 | Congregibacter litoralis KT71 | - |
| 6 | 195 | ICE(Tn4371)6036 | Acidovorax citrulli AAC00-1 | NC_008752 |
| 7 | 196 | ICE(Tn4371)6037 | Delftia acidovorans SPH-1 | NC_010002 |
| 8 | 197 | ICE(Tn4371)6038 | Comamonas testosteroni KF-1 | - |
| 9 | 198 | ICE(Tn4371)6039 | Acidovorax sp. JS42 | NC_008782 |
| 10 | 199 | ICE(Tn4371)6040 | Bordetella petrii DSM 12804 | NC_010170 |
| 11 | 200 | ICE(Tn4371)6041 | Pseudomonas aeruginosa 2192 | - |
| 12 | 201 | ICE(Tn4371)6042 | Pseudomonas aeruginosa PA7 | NC_009656 |
| 13 | 202 | ICE(Tn4371)6066 | Acidovorax ebreus TPSY | NC_011992 |
| 14 | 203 | ICE(Tn4371)6067 | Delftia acidovorans SPH-1 | NC_010002 |
| 15 | 204 | ICE(Tn4371)6068 | Stenotrophomonas maltophilia K279a | NC_010943 |
| 16 | 205 | ICE(Tn4371)6070 | Pseudomonas aeruginosa PACS171b | - |
| 17 | 332 | ICE(Tn4371)6069 | Pseudomonas aeruginosa UCBPP-PA14 | NC_008463 |
| 18 | 333 | ICE(Tn4371)6071 | Thioalkalivibrio sp. HL-EbGR7 | NC_011901 |
| 19 | 334 | ICEAdeK601-1 | Alicycliphilus denitrificans K601 | NC_015422 |
| 20 | 335 | ICERsoGMI1000-1 | Ralstonia solanacearum GMI1000 | NC_003295 |
| 21 | 336 | ICEAviDJ-1 | Azotobacter vinelandii DJ | NC_012560 |
| 22 | 337 | CMGI-2 | Cupriavidus metallidurans CH34 | NC_007973 |
| 23 | 338 | CMGI-3 | Cupriavidus metallidurans CH34 | NC_007973 |
| 24 | 339 | ICE(Tn4371)6064 | Burkholderia pseudomallei MSHR346 | NC_012695 |
| 25 | 340 | ICE(Tn4371)6065 | Polaromonas naphthalenivorans CJ2 | NC_008757 |
| 26 | 341 | ICEAdeBC-1 | Alicycliphilus denitrificans BC | NC_014910 |
| 27 | 342 | ICEBglBSR3-1 | Burkholderia gladioli BSR3 | NC_015381 |
| 28 | 343 | ICEBmu17616-1 | Burkholderia multivorans ATCC 17616 | NC_010804 |
| Data derived from experimental literature | ||||
| Putative ICEs predicted by bioinformatic methods | ||||
| Element | No. of sequences | Download | Alignment |
| Proteins | 1464 | Fasta | Multiple protein sequence alignment by MUSCLE online |
| ICEs | 28 | Fasta | Nucleotide sequence comparison by webACT |
|
(1) Ohtsubo Y et al. (2012). Conjugal transfer of polychlorinated biphenyl/biphenyl degradation genes in Acidovorax sp. strain KKS102, which are located on an integrative and conjugative element. J Bacteriol. 194(16):4237-48. [PudMed:22685277]
|
| (2) Janssen PJ et al. (2010). The complete genome sequence of Cupriavidus metallidurans strain CH34, a master survivalist in harsh and anthropogenic environments. PLoS One. 5(5):e10433. [PudMed:20463976] |
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(3) Ryan MP et al. (2009). Novel Tn4371-ICE like element in Ralstonia pickettii and genome mining for comparative elements. BMC Microbiol. 0.543055556. [PudMed:19941653]
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(4) Ohtsubo Y et al. (2006). Identification of a response regulator gene for catabolite control from a PCB-degrading beta-proteobacteria, Acidovorax sp. KKS102. Mol Microbiol. 60(6):1563-75. [PudMed:16796688]
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(5) Toussaint A et al. (2003). The biphenyl- and 4-chlorobiphenyl-catabolic transposon Tn4371, a member of a new family of genomic islands related to IncP and Ti plasmids. Appl Environ Microbiol. 69(8):4837-45. [PudMed:12902278]
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| (6) Salanoubat M et al. (2002). Genome sequence of the plant pathogen Ralstonia solanacearum. Nature. 415(6871):497-502. [PudMed:11823852] |
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(7) Ohtsubo Y et al. (2001). BphS, a key transcriptional regulator of bph genes involved in polychlorinated biphenyl/biphenyl degradation in Pseudomonas sp. KKS102. J Biol Chem. 276(39):36146-54. [PudMed:11459836]
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(8) Merlin C et al. (1999). Tn4371: A modular structure encoding a phage-like integrase, a Pseudomonas-like catabolic pathway, and RP4/Ti-like transfer functions. Plasmid. 41(1):40-54. [PudMed:9887305]
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(9) Springael D et al. (1993). Identification of a catabolic transposon, Tn4371, carrying biphenyl and 4-chlorobiphenyl degradation genes in Alcaligenes eutrophus A5. J Bacteriol. 175(6):1674-81. [PudMed:8383664]
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| experimental literature |
| in silico analysis literature |