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_007384: Shigella sonnei Ss046, complete genome

NCBI: NC_007384

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

General Information: This strain is an isolate from an epidemic in China in the 1950s. A leading cause of dysentery. 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. This 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 organism is the leading cause of dysentery in industrialized countries. The disease is usually less severe than other types of Shigella, causing mild diarrhea and dehydration.

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
116500*4120424705Island text2.0883733.629422.2536Neighbours41BLASTN+IslandViewer 16500.gbk
227881029760818799Island text1.512936.162545.1425Neighbours41BLASTNIslandViewer PAI DB278810.gbk
3307013*33111524103Island text1.4037429.438230.1925Neighbours41BLASTN307013.gbk
41086025111635930335Island text2.0959341.034225.2637Neighbours41BLASTN+IslandViewer 1086025.gbk
51320287*134781127525Island text2.280133.90423.6365Neighbours41BLASTN+IslandViewer 1320287.gbk
61355060138217827119Island text1.946733.605517.6781Neighbours41BLASTN+IslandViewer 1355060.gbk
71696831171856121731Island text1.8229930.33523.3428Neighbours41BLASTN+IslandViewer 1696831.gbk
81737885176063922755Island text1.5768131.32327.5368Neighbours41BLASTN1737885.gbk
91763375178359920225Island text1.5190233.401235.7646Neighbours51BLASTN+IslandViewer 1763375.gbk
102007467203964532179Island text2.0727438.318826.937Neighbours41BLASTN+IslandViewer 2007467.gbk
112251792*227443422643Island text1.469130.903527.4089Neighbours41BLASTNIslandViewer 2251792.gbk
122587876261159923724Island text2.2210433.067819.8164Neighbours41BLASTNIslandViewer 2587876.gbk
132933625*295770924085Island text1.7802434.630327.5818Neighbours41BLASTN+IslandViewer 2933625.gbk
143151344*317840127058Island text3.0229137.743520.2288Neighbours41BLASTN+IslandViewer 3151344.gbk
153383983340296018978Island text1.4957630.705931.569Neighbours41BLASTN+IslandViewer PAI DB3383983.gbk
163741708376309921392Island text2.2610432.069217.0283Neighbours41BLASTN+IslandViewer PAI DB3741708.gbk
173897000391653419535Island text1.737527.790626.9399Neighbours41BLASTN+3897000.gbk
183956465*398127224808Island text2.6303337.165616.6407Neighbours41BLASTNIslandViewer 3956465.gbk
194095016412229027275Island text1.6836538.967740.545Neighbours41BLASTN+IslandViewer 4095016.gbk
204530000455031620317Island text1.5357731.282823.177Neighbours41BLASTN+4530000.gbk