Pre_GI Island

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n1_4mer:GRV/n1_4mer:RV = (Global Relative Variance of OU patterns) / (Local Relative Variance of OU patterns)

n0_4mer:D = Distance between local and global OU patterns

n0_4mer:PS = Distance between 2 strands of same DNA molecule

Selected loci indicated by large D, increased GRV associated with decreased RV and moderate increase in PS

NC_010658: Shigella boydii CDC 3083-94, complete genome

NCBI: NC_010658

Host Lineage: Shigella boydii; Shigella; Enterobacteriaceae; Enterobacteriales; Proteobacteria; Bacteria

General Information: This strain (strain BS512; serotype 18) was originally isolated from a 12-year-old boy in Arizona, USA by Dr. Nancy Stockbine. It is a member of Group 1 as determined by limited sequence analysis and can invade HeLa cells. Pathogenicity and virulence have been verified during in vitro experimentation, and multiple plasmids are present in this strain. This genus is named for the Japanese scientist (Shiga) who first discovered these organisms in the 1890s. They are closely related to the Escherichia group, and may be considered the same species. These organisms are human-specific pathogens that are transmitted via contaminated food and water and are the leading causes of endemic bacillary dysentery, causing over 160 million cases of infection and 1 million deaths yearly worldwide. The bacteria infect the epithelial lining of the colon, causing acute inflammation by entering the host cell cytoplasm and spreading intercellularly. Shigella spp. are extremely virulent organisms that can cause an active infection after a very low exposure. Both the type III secretion system, which delivers effector molecules into the host cell, and some of the translocated effectors such as the invasion plasmid antigens (Ipas), are encoded on the plasmid. The bacterium produces a surface protein that localizes to one pole of the cell (IcsA) which binds to and promotes actin polymerization, resulting in movement of the bacterium through the cell cytoplasm, and eventually to neighboring cells, which results in inflammatory destruction of the mucosal lining. This species is uncommon except in India, where it was first isolated. Progression to clinical dysentery occurs in most patients infected with this organism.

Islands with an asterisk (*) contain ribosomal proteins or RNA related elements and may indicate a False Positive Prediction!

#StartEndLengthIsland TextGRV_RVDPSNeighboursClusterSub ClusterBLASTNKey Word ConfirmationOther DB ConfirmationDownload Island
11090104112159931496Island text3.3582641.288923.6963Neighbours41BLASTNIslandViewer 1090104.gbk
21193225*121671123487Island text1.6680828.024725.1919Neighbours41BLASTN+1193225.gbk
31593137161115518019Island text1.5892627.629520.709Neighbours41BLASTN+IslandViewer 1593137.gbk
41772994*179509922106Island text1.8499929.801426.0683Neighbours41BLASTN+IslandViewer 1772994.gbk
51933605*196015326549Island text2.6929834.397822.425Neighbours41BLASTN+IslandViewer 1933605.gbk
62529033*255581226780Island text2.0680131.906620.797Neighbours41BLASTN+IslandViewer 2529033.gbk
73014371*303259918229Island text1.9415628.151321.3272Neighbours41BLASTN+3014371.gbk
83622610364133018721Island text1.6466627.471432.172Neighbours41BLASTN+3622610.gbk
93774110*379937225263Island text2.5686436.7516.9039Neighbours41BLASTNIslandViewer 3774110.gbk
104257310427618618877Island text1.52929.550721.3729Neighbours41BLASTN+IslandViewer 4257310.gbk
114494103*451209917997Island text1.6130727.726825.3137Neighbours41BLASTN+4494103.gbk