ICEberg
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ICE family: SPI-7
SPI-7 is a well studied ICE. We selected it as a reference and defined SPI-7 family. We classified any ICE that encodes an integrase gene closely related to int(SPI-7), defined as over 60% protein homology and that that has significant sequence alignment and syntenic 'core' structure into the this family.

#IDICE nameStrainReplicon
1113 experimental ICESb1Salmonella bongori CEIM46082-
2114 in_silico ICESb2Salmonella bongori 2022/77-
3288 experimental SPI-7Salmonella enterica subsp. enterica serovar Typhi str. CT18NC_003198
4360 in_silico ICESenTy2-1Salmonella enterica subsp. enterica serovar Typhi str. Ty2NC_004631
5462 in_silico SPI-7RKS4594Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594NC_012125
6463 in_silico SPI-71662KSalmonella enterica subsp. enterica serovar Dublin 1662K-
experimental Data derived from experimental literature
in_silico Putative ICEs predicted by bioinformatic methods
ElementNo. of sequencesDownloadAlignment
Proteins465FastaMultiple protein sequence alignment by MUSCLE online
ICEs4Fasta Nucleotide sequence comparison by webACT
(1) Moreno Switt AI et al. (2012). Identification and characterization of novel Salmonella mobile elements involved in the dissemination of genes linked to virulence and transmission. PLoS One. 7(7):e41247. [PudMed:22911766] in_silico
(2) Janis C et al. (2011). In vivo regulation of the Vi antigen in Salmonella and induction of immune responses with an in vivo-inducible promoter. Infect Immun. 79(6):2481-8. [PudMed:21402763] experimental
(3) Maurya P et al. (2010). Status of Vi gene, its expression and Salmonella Pathogenicity Island (SPI-7) in Salmonella Typhi in India. Southeast Asian J Trop Med Public Health. 41(4):913-9. [PudMed:21073066] experimental
(4) Parvathi A et al. (2011). Comparative virulence genotyping and antimicrobial susceptibility profiling of environmental and clinical Salmonella enterica from Cochin, India. Curr Microbiol. 62(1):21-6. [PudMed:20490498] experimental
(5) Seth-Smith HM (2008). SPI-7: Salmonella's Vi-encoding Pathogenicity Island. J Infect Dev Ctries. 2(4):267-71. [PudMed:19741287]
(6) Baker S et al. (2008). Mobilization of the incQ plasmid R300B with a chromosomal conjugation system in Salmonella enterica serovar typhi. J Bacteriol. 190(11):4084-7. [PudMed:18390666] experimental
(7) Baker S et al. (2005). Detection of Vi-negative Salmonella enterica serovar typhi in the peripheral blood of patients with typhoid fever in the Faisalabad region of Pakistan. J Clin Microbiol. 43(9):4418-25. [PudMed:16145086] experimental
(8) Faucher SP et al. (2005). Selective capture of Salmonella enterica serovar typhi genes expressed in macrophages that are absent from the Salmonella enterica serovar Typhimurium genome. Infect Immun. 73(8):5217-21. [PudMed:16041043] experimental
(9) Pickard D et al. (2003). Composition, acquisition, and distribution of the Vi exopolysaccharide-encoding Salmonella enterica pathogenicity island SPI-7. J Bacteriol. 185(17):5055-65. [PudMed:12923078] experimental
(10) Hansen-Wester I et al. (2002). Genome-based identification of chromosomal regions specific for Salmonella spp. Infect Immun. 70(5):2351-60. [PudMed:11953370] in_silico
(11) Parkhill J et al. (2001). Complete genome sequence of a multiple drug resistant Salmonella enterica serovar Typhi CT18. Nature. 413(6858):848-52. [PudMed:11677608]
 
experimental experimental literature
in_silico in silico analysis literature