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HAMAP: Escherichia coli (strain SMS-3-5 / SECEC) complete proteome

General information

Species:  Escherichia coli (strain SMS-3-5 / SECEC)
Species code: ECOSM
Taxonomy: Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacteriales; Enterobacteriaceae; Escherichia (TaxID: 439855) [NEWT/ NCBI]
Description: Escherichia coli is a Gram-negative straight rod, which either uses peritrichous flagella for mobility or is nonmotile. It is a facultatively anaerobic chemoorganotroph capable of both respiratory and fermentative metabolism. E.coli serves a useful function in the body by suppressing the growth of harmful bacterial species and by synthesising appreciable amounts of vitamins. It is an important component of the biosphere. It colonizes the lower gut of animals and survives when released to the natural environment, allowing widespread dissemination to new hosts. Pathogenic E.coli strains are responsible for infection of the enteric, urinary, pulmonary and nervous systems. Comparison of 20 E.coli/Shigella strains shows the core genome to be about 2000 genes while the pan-genome has over 18,000 genes. There are multiple, striking integration hotspots that are conserved across the genomes, corresponding to regions of abundant and parallel insertions and deletions of genetic material.
E.coli strain SECEC SMS-3-5 was isolated from Shipyard Creek, USA, an industrial, toxic metal-contaminated coastal environment. It is resistant to a record-number of antibiotics, in many cases at record-high concentrations. This is the first case of resistance to ciprofloxacin and moxifloxacin, two front-line fluoroquinolones, in an environmental strain. By multilocus sequence typing it belongs to a clade close to the last common E.coli/Shigella ancestor. It belongs to phylogenetic group D and is serptype O19:H34 (modified from PubMed 18708504 ).
Properties: Presence of flagella: Yes
Human pathogen: not known
Interaction: No
Number of membranes: 2
Number of inteins:0
Statistics: Number of ECOSM entries in the UniProt Knowledgebase: 4877 (785 in UniProtKB/Swiss-Prot + 4092 in UniProtKB/TrEMBL)


Genome(s) sequenced

Strain:    SMS-3-5 / SECEC
Genome structure:
• Chromosome EMBL accession number CP000970 (circular; 5,068,389 bp) (download entry) (download Genome Reviews).
• Plasmid pSMS35_130 EMBL accession number CP000971 (circular; 130,440 bp) (download entry) (download Genome Reviews).
• Plasmid pSMS35_8 EMBL accession number CP000972 (circular; 8,909 bp) (download entry) (download Genome Reviews).
• Plasmid pSMS35_4 EMBL accession number CP000973 (circular; 4,074 bp) (download entry) (download Genome Reviews).
• Plasmid pSMS35_3 EMBL accession number CP000974 (circular; 3,565 bp) (download entry) (download Genome Reviews).
Reference(s):
[1] PubMed=18708504; [ NCBI , EBI , Israel , Japan ]
Fricke W.F., Wright M.S., Lindell A.H., Harkins D.M., Baker-Austin C., Ravel J., Stepanauskas R. ;
"Insights into the environmental resistance gene pool from the genome sequence of the multidrug-resistant environmental isolate Escherichia coli SMS-3-5.";
J. Bacteriol. 190:6779-6794(2008).
Web links:
Official genome site(s):
http://msc.jcvi.org/e_coli_and_shigella/escherichia_coli_secec_sms_3_5/index.shtml
Other web sites:
coliBASE: http://xbase.bham.ac.uk/colibase/genome.pl?id=1550
Entrez Genome Project: http://www.ncbi.nlm.nih.gov/sites/entrez?Db=genomeprj&cmd=ShowDetailView&TermToSearch=19469
GIB (DDBJ): http://gib.genes.nig.ac.jp/single/index.php?spid=Ecol_SMS35
 EBI Proteome Analysis page



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