ICEberg
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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.

#IDICE nameStrainReplicon
146 experimental Tn4371Ralstonia oxalatica A5-
2166 experimental ICE-KKSAcidovorax sp. KKS102-
3192 in_silico ICE(Tn4371)6033Ralstonia pickettii 12JNC_010682
4193 in_silico ICE(Tn4371)6034Shewanella sp. ANA-3NC_008577
5194 in_silico ICE(Tn4371)6035Congregibacter litoralis KT71-
6195 in_silico ICE(Tn4371)6036Acidovorax citrulli AAC00-1NC_008752
7196 in_silico ICE(Tn4371)6037Delftia acidovorans SPH-1NC_010002
8197 in_silico ICE(Tn4371)6038Comamonas testosteroni KF-1-
9198 in_silico ICE(Tn4371)6039Acidovorax sp. JS42NC_008782
10199 in_silico ICE(Tn4371)6040Bordetella petrii DSM 12804NC_010170
11200 in_silico ICE(Tn4371)6041Pseudomonas aeruginosa 2192-
12201 in_silico ICE(Tn4371)6042Pseudomonas aeruginosa PA7NC_009656
13202 in_silico ICE(Tn4371)6066Acidovorax ebreus TPSYNC_011992
14203 in_silico ICE(Tn4371)6067Delftia acidovorans SPH-1NC_010002
15204 in_silico ICE(Tn4371)6068Stenotrophomonas maltophilia K279aNC_010943
16205 in_silico ICE(Tn4371)6070Pseudomonas aeruginosa PACS171b-
17332 in_silico ICE(Tn4371)6069Pseudomonas aeruginosa UCBPP-PA14NC_008463
18333 in_silico ICE(Tn4371)6071Thioalkalivibrio sp. HL-EbGR7NC_011901
19334 in_silico ICEAdeK601-1Alicycliphilus denitrificans K601NC_015422
20335 in_silico ICERsoGMI1000-1Ralstonia solanacearum GMI1000NC_003295
21336 in_silico ICEAviDJ-1Azotobacter vinelandii DJNC_012560
22337 in_silico CMGI-2Cupriavidus metallidurans CH34NC_007973
23338 in_silico CMGI-3Cupriavidus metallidurans CH34NC_007973
24339 in_silico ICE(Tn4371)6064Burkholderia pseudomallei MSHR346NC_012695
25340 in_silico ICE(Tn4371)6065Polaromonas naphthalenivorans CJ2NC_008757
26341 in_silico ICEAdeBC-1Alicycliphilus denitrificans BCNC_014910
27342 in_silico ICEBglBSR3-1Burkholderia gladioli BSR3NC_015381
28343 in_silico ICEBmu17616-1Burkholderia multivorans ATCC 17616NC_010804
experimental Data derived from experimental literature
in_silico Putative ICEs predicted by bioinformatic methods
(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] experimental
(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]
(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] experimental in_silico
(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] experimental
(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] experimental
(6) Salanoubat M et al. (2002). Genome sequence of the plant pathogen Ralstonia solanacearum. Nature. 415(6871):497-502. [PudMed:11823852]
(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] experimental
(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] experimental
(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] experimental
 
experimental experimental literature
in_silico in silico analysis literature

Genomics & Bioinformatics Group in MML, SJTU