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_010322: Pseudomonas putida GB-1 chromosome, complete genome

NCBI: NC_010322

Host Lineage: Pseudomonas putida; Pseudomonas; Pseudomonadaceae; Pseudomonadales; Proteobacteria; Bacteria

General Information: Pseudomonas putida strain GB-1, a fresh water, Gram-negative gamma-proteobacterium, is a genetically tractable, robust manganese (Mn) oxidizer, and as such, is an ideal model for unraveling the catalytic mechanism for, and the molecular regulation of Mn(IV) oxide production and its eventual accumulation on the cell surface at the onset of stationary phase. Since its isolation from Green Bay nearly 20 years ago by Ken Nealson’s group (then at the Center for Great Lakes Studies, Univ. Wisconsin-Milwaukee, USA), it has been the non spore-forming, model organism (along with the closely-related strain MnB1) for molecular genetic studies of Mn(II) oxidization, protein transport and biofilm formation and for biochemical studies on protein purification and Mn(III)-pyoverdine binding. Bacteria belonging to the Pseudomonas group are common inhabitants of soil and water and can also be found on the surfaces of plants and animals. Pseudomonas bacteria are found in nature in a biofilm or in planktonic form. Pseudomonas bacteria are renowned for their metabolic versatility as they can grow under a variety of growth conditions and do not need any organic growth factors. As they are metabolically versatile, and well characterized, it makes them great candidates for biocatalysis, bioremediation and other agricultural applications. Certain strains have been used in the production of bioplastics.

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
11*1959919599Island text1.9173729.653523.6819Neighbours11BLASTN+IslandViewer 1.gbk
2299836649436512Island text2.0015826.85726.0739Neighbours11BLASTN+IslandViewer 29983.gbk
358384262090237061Island text2.7318328.396543.5206Neighbours11BLASTN+IslandViewer 583842.gbk
4768849*79323724389Island text2.9572629.154345.5131Neighbours11BLASTN+IslandViewer 768849.gbk
51336231135602319793Island text3.0850734.813730.7936Neighbours11BLASTN+1336231.gbk
61520973*156226241290Island text2.7358127.303141.6086Neighbours11BLASTNIslandViewer 1520973.gbk
71623599164512021522Island text2.3564328.022935.7856BLASTN1623599.gbk
81817598*186867951082Island text1.4950724.08239.7064Neighbours11BLASTN+IslandViewer 1817598.gbk
93084834310853723704Island text2.0940931.837538.1427Neighbours11BLASTN+3084834.gbk
103315024334356628543Island text1.6075324.461339.3379Neighbours11BLASTN+IslandViewer 3315024.gbk
113831444385013818695Island text3.9698442.101734.2412Neighbours11BLASTN+IslandViewer 3831444.gbk
124623867467259948733Island text2.6276829.041444.7153Neighbours113BLASTN+IslandViewer 4623867.gbk
135293652532664832997Island text1.7497725.434735.7815Neighbours11BLASTN+IslandViewer 5293652.gbk
145349000540314454145Island text1.8055126.137321.8444Neighbours11BLASTN+IslandViewer 5349000.gbk
156037566*607453536970Island text1.7004323.419332.9029Neighbours11BLASTN+IslandViewer 6037566.gbk