ICEberg
I. Information of IME
ICEberg ID235_IME
Name SGI2 [SGI1-J] This IME is derived from experimental literature
Family-
OrganismSalmonella enterica subsp. enterica serovar Emek
Size (bp)47132 bp
GC content [Genome] (%)
Insertion site3'-end of the trmE
FunctiondfrA1, floR, sul1, tet(G)
Species that IME can be transferred toEscherichia coli UB1637
Nucleotide SequenceAY963803 (complete IME sequence in this contig)
Replicon-
Coordinates1..47132
Putative oriT region -
Putative relaxase -


II. IME interaction with ICE/CIME/Plasmids

The Interaction Network among ICE/IME/CIME/plasmid


Detailed Informatioin of the Interaction Network
# IME  Inter_Ele [Type] Methods Donors Recipients Exper_Ref 
1SGI2 [SGI1-J] pRMH760 [IncC plasmid] experimentalin trans Salmonella enterica Escherichia coli 27620651

experimental This is an interactioin derived from experimental literature


The graph information of SGI2 [SGI1-J] components from AY963803
Complete gene list of SGI2 [SGI1-J] from AY963803
#GeneCoordinates [+/-], size (bp) Product *Reannotation 
1trmE447..1163 [+], 717TrmE
2int1367..2584 [+], 1218integrase
3S0022581..2949 [-], 369S002
4rep3307..4260 [-], 954Rep
5S0044247..4537 [-], 291S004
6traN4624..7383 [-], 2760TraNTraN_F, T4SS component 
7S0067480..8013 [-], 534S006
8S0078016..8627 [-], 612S007
9S0088627..8848 [-], 222S008
10S0099023..9313 [+], 291S009
11S0109333..9587 [-], 255S010
12traG9587..12991 [-], 3405TraGTraG_F, T4SS component 
13traH12995..14419 [-], 1425TraHTraH_F, T4SS component 
14S01314663..15520 [+], 858S013
15S01415517..15912 [+], 396S014
16S01516327..16596 [-], 270S015
17S01616674..16859 [-], 186S016
18S01716719..16973 [+], 255S017
19S01816870..17187 [-], 318S018
20S01917445..17741 [-], 297S019
21S02017745..18710 [-], 966S020
22S02118803..19138 [+], 336S021
23S02219050..19325 [-], 276S022
24intI120948..21961 [-], 1014IntI1Integrase 
25dfrA122118..22591 [+], 474DfrA1 trimethoprim-insensitive dihydrofolate reductaseAR 
26orfC22685..23164 [+], 480OrfC
27qacEdelta123295..23642 [+], 348QacEdelta1
28cmlA924824..26038 [+], 1215CmlA9 chloramphenicol efflux proteinAR 
29tetR26245..26871 [-], 627TetR
30tetA(G)27023..28150 [+], 1128TetA(G)AR 
31orf128171..28962 [+], 792Orf1
32rcr329054..30538 [-], 1485Rcr3
33groEL/int30813..31466 [-], 654GroEL/Int
34sul131568..32419 [+], 852Sul1; sulfonamide-insensitive dihydropteroate synthaseAR 
35orf532547..33047 [+], 501Orf5
36tnp610033524..34318 [+], 795Tnp6100
37tniA34812..36494 [-], 1683TniA
38S02437241..39166 [-], 1926S024
39S02539244..41787 [-], 2544S025
40S02641808..42797 [-], 990S026
41res42876..43460 [-], 585Res
42S04443668..44297 [+], 630hypothetical protein
43yidY44607..45794 [+], 1188YidYAR 
 
integrase Gene may contribute to site-specific recombination
conjugation Gene may play role in conjugative transfer
virulence  Gene may be involved in adaptative function

ElementNo. of sequencesDownload
Nucleotide sequences1Fasta
Proteins43Fasta
(1) Soliman AM; Ahmed AM; Shimamoto T; El-Domany RA; Nariya H; Shimamoto T (2017). First report in Africa of two clinical isolates of Proteus mirabilis carrying Salmonella genomic island (SGI1) variants, SGI1-PmABB and SGI1-W. Infect Genet Evol. 51:132-137. [PudMed:28359833]
(2) Harmer CJ; Hamidian M; Ambrose SJ; Hall RM (2016). Destabilization of IncA and IncC plasmids by SGI1 and SGI2 type Salmonella genomic islands. Plasmid. 87-88:51-57. [PudMed:27620651]
(3) Le Hello S; Weill FX; Guibert V; Praud K; Cloeckaert A; Doublet B (2012). Early strains of multidrug-resistant Salmonella enterica serovar Kentucky sequence type 198 from Southeast Asia harbor Salmonella genomic island 1-J variants with a novel insertion sequence. Antimicrob Agents Chemother. 56(10):5096-102. [PudMed:22802251]
(4) Levings RS; Djordjevic SP; Hall RM (2008). SGI2, a relative of Salmonella genomic island SGI1 with an independent origin. Antimicrob Agents Chemother. 52(7):2529-37. [PudMed:18443113]
(5) Levings RS; Lightfoot D; Partridge SR; Hall RM; Djordjevic SP (2005). The genomic island SGI1, containing the multiple antibiotic resistance region of Salmonella enterica serovar Typhimurium DT104 or variants of it, is widely distributed in other S. enterica serovars. J Bacteriol. 187(13):4401-9. [PudMed:15968049]
 

Genomics & Bioinformatics Group in MML, SJTU