ICEberg
I. Information of IME
ICEberg ID204_IME
Name SGI1  This IME is derived from experimental literature
Family-
OrganismSalmonella enterica Typhymurium DT104
Size (bp)42451 bp
GC content [Genome] (%)
Insertion site3′ of trmE (tRNA modification GTPase), an intergenic secondary site
FunctionaadA2, sul1, floR, tetA(G), tetR and blaPSE-1( streptomycin and spectinomycin, sulfonamides, chloramphenicol and florfenicol, tetracyclines, and ampicillin)
Species that IME can be transferred toCitrobacter freundii 2954-S1F1; Enterobacter aerogenes 409-S1A1; Enterobacter cloacae 646-S1L21; Escherichia coli 565-S1C1; Klebsiella oxytoca 603-S1O1; Klebsiella pneumoniae 568-S1K38; Proteus mirabilis 709-S1P13; Proteus vulgaris 835-S1V1; Providencia stuartii 719-S1T1; Serratia marcescens 1003-S1M12
Nucleotide SequenceAF261825 (complete IME sequence in this contig)
Replicon-
Coordinates146..42596
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 
1SGI1  pR55 [IncA/C plasmid] experimentalin trans Salmonella enterica Escherichia coli 27150396; 21187963
2SGI1  pR16a [IncA/C plasmid] experimentalin trans Salmonella enterica Escherichia coli 27150396; 21187963
3SGI1  pRA1 [IncA plasmid] experimentalin trans Salmonella enterica Escherichia coli 27150396; 21187963

experimental This is an interactioin derived from experimental literature


The graph information of SGI1  components from AF261825
Complete gene list of SGI1  from AF261825
#GeneCoordinates [+/-], size (bp) Product *Reannotation 
1int367..1584 [+], 1218integrase
2xis1581..1949 [-], 369excisionase
3rep2307..3260 [-], 954replication protein
4S0043247..3537 [-], 291hypothetical protein
5S0053625..6384 [-], 2760putative mating pair stabilization proteinTraN_F, T4SS component 
6S0066481..7014 [-], 534putative regulator protein
7S0077017..7628 [-], 612hypothetical protein
8S0087628..7849 [-], 222hypothetical protein
9S0098024..8314 [+], 291hypothetical protein
10-8334..8588 [-], 255hypothetical protein
11S0118588..11992 [-], 3405putative pilus assembly proteinTraG_F, T4SS component 
12S01211996..13420 [-], 1425putative pilus assembly proteinTraH_F, T4SS component 
13S01313664..14521 [+], 858hypothetical protein
14S01414518..14913 [+], 396hypothetical protein
15S01515328..15597 [-], 270hypothetical protein
16S01615675..15860 [-], 186hypothetical protein
17S01715720..15974 [+], 255hypothetical protein
18S01815871..16188 [-], 318hypothetical protein
19S01916447..16743 [-], 297hypothetical protein
20S02016747..17712 [-], 966putative integrase
21S02117805..18140 [+], 336hypothetical protein
22S02218052..18327 [-], 276hypothetical protein
23S02318688..20328 [-], 1641putative helicase
24S02420346..22271 [-], 1926putative exonuclease
25S02522349..24892 [-], 2544putative subtilisin proteinase-like protein
26S02624913..25902 [-], 990putative ATPase
27res25981..26565 [-], 585resolvase
28intI126839..27852 [-], 1014integraseIntegrase 
29aadA227998..28789 [+], 792streptomycin/spectinomycin resistance proteinAR 
30qacEdelta128953..29300 [+], 348quaternary ammonium compound and disinfectant protein
31-29294..30265 [+], 972sul1delta fusion proteinAR 
32flo30482..31696 [+], 1215chloramphenicol and florfenicol resistance proteinAR 
33tetR31903..32529 [-], 627tetracycline resistance regulator protein
34tet(G)32681..33808 [+], 1128tetracycline resistance proteinAR 
35qacEdelta133829..34620 [+], 792putative LysR-type transcriptional regulator
36-34712..36196 [-], 1485putative transposase-like protein
37groEL/intI136471..37124 [-], 654GroEL/integrase fusion protein
38pse-137330..38196 [+], 867beta-lactamaseAR 
39qacEdelta138413..38760 [+], 348quaternary ammonium compound and disinfectant protein
40sul138754..39593 [+], 840sulfonamide resistance proteinAR 
41-39721..40221 [+], 501putative acetyltransferase
42-40245..40532 [+], 288hypothetical protein
43tnpA40698..41492 [+], 795transposase
44S04441840..42469 [+], 630hypothetical protein
45urt44397..45359 [+], 963hypothetical protein
46rt45359..46294 [+], 936reverse transcriptase
 
flank Flanking regions
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
Proteins44Fasta
(1) Guedon G; Libante V; Coluzzi C; Payot S; Leblond-Bourget N (2017). The Obscure World of Integrative and Mobilizable Elements, Highly Widespread Elements that Pirate Bacterial Conjugative Systems. Genes (Basel). 8(11). [PudMed:29165361]
(2) Carraro N; Rivard N; Burrus V; Ceccarelli D (2017). Mobilizable genomic islands, different strategies for the dissemination of multidrug resistance and other adaptive traits. Mob Genet Elements. 7(2):1-6. [PudMed:28439449]
(3) Schultz E; Barraud O; Madec JY; Haenni M; Cloeckaert A; Ploy MC; Doublet B (2017). Multidrug Resistance Salmonella Genomic Island 1 in a Morganella morganii subsp. morganii Human Clinical Isolate from France. mSphere. 2(2). [PudMed:28435889]
(4) Carraro N; Durand R; Rivard N; Anquetil C; Barrette C; Humbert M; Burrus V (2017). Salmonella genomic island 1 (SGI1) reshapes the mating apparatus of IncC conjugative plasmids to promote self-propagation. PLoS Genet. 13(3):e1006705. [PudMed:28355215]
(5) Huguet KT; Gonnet M; Doublet B; Cloeckaert A (2016). A toxin antitoxin system promotes the maintenance of the IncA/C-mobilizable Salmonella Genomic Island 1. Sci Rep. 6:32285. [PudMed:27576575]
(6) Siebor E; de Curraize C; Amoureux L; Neuwirth C (2016). Mobilization of the Salmonella genomic island SGI1 and the Proteus genomic island PGI1 by the A/C2 plasmid carrying blaTEM-24 harboured by various clinical species of Enterobacteriaceae. J Antimicrob Chemother. 71(8):2167-70. [PudMed:27150396]
(7) Bellanger X; Payot S; Leblond-Bourget N; Guedon G (2014). Conjugative and mobilizable genomic islands in bacteria: evolution and diversity. FEMS Microbiol Rev. 38(4):720-60. [PudMed:24372381]
(8) Douard G; Praud K; Cloeckaert A; Doublet B (2010). The Salmonella genomic island 1 is specifically mobilized in trans by the IncA/C multidrug resistance plasmid family. PLoS One. 5(12):e15302. [PudMed:21187963]
(9) Boyd D; Peters GA; Cloeckaert A; Boumedine KS; Chaslus-Dancla E; Imberechts H; Mulvey MR (2001). Complete nucleotide sequence of a 43-kilobase genomic island associated with the multidrug resistance region of Salmonella enterica serovar Typhimurium DT104 and its identification in phage type DT120 and serovar Agona. J Bacteriol. 183(19):5725-32. [PudMed:11544236]
(10) Boyd DA; Peters GA; Ng L; Mulvey MR (2000). Partial characterization of a genomic island associated with the multidrug resistance region of Salmonella enterica Typhymurium DT104. FEMS Microbiol Lett. 189(2):285-91. [PudMed:10930753]
 

Genomics & Bioinformatics Group in MML, SJTU