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_002971: Coxiella burnetii RSA 493, complete genome

NCBI: NC_002971

Host Lineage: Coxiella burnetii; Coxiella; Coxiellaceae; Legionellales; Proteobacteria; Bacteria

General Information: Causes Q-fever. This organism is widely distributed in nature and can cause infections in reptiles, birds, and mammals. It causes Q fever, or 'query' fever, an atypical pneumonia first associated with abattoir workers in Australia. Transmission may be through insect vectors such as ticks that have bitten an infected wild or domesticated animal, or through an aerosol produced by domesticated animals such as sheep or cattle. The presence of a plasmid is believed to be associated with virulence and pathogenicity, however C. burnetii isolates containing plasmid QpDG are avirulent in guinea pigs and plasmidless isolates have been associated with endocarditis in humans. Coxiella burnetii has a developmental life cycle, and can grow vegetatively through binary fission, or asymmetrically and produce a spore-like cell. The spore-like cell may enable the organism to exist extracellularly for small amounts of time. This bacterium is an obligate intracellular pathogen. It is endocytosed by a host cell, a macrophage for example, and lives and replicates inside the phagolysozome, a unique property of this organism. The genome encodes proteins that have a higher than average pI, which may enable adaptation to the acidic environment of the phagolysozome. The chromosome also contains genes for a number of detoxification and stress response proteins such as dismutases that allow growth in the oxidative environment. The type IV system is similar to the one found in Legionella, which may be important for intracellular survival. This organism produces numerous ankyrin-repeat proteins that may be involved in interactions with the host cell. The genome has 83 pseudogenes, which may be a result of the typical genome-wide degradation observed with other intracellular organisms and also has a group I intron in the 23S ribosomal RNA gene.

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
1211331*24286731537Island text1.6226534.237348.0109Neighbours35BLASTN+211331.gbk
261935564709927745Island text1.6122723.280719.242Neighbours21BLASTNIslandViewer 619355.gbk
378050280263022129Island text2.0415523.065222.1165Neighbours21BLASTN+780502.gbk
4951102*97443323332Island text1.545325.036513.0284NeighboursBLASTN951102.gbk
51379567*140286123295Island text1.4851125.376945.2552Neighbours35BLASTN1379567.gbk
61523065*154336920305Island text1.5206723.002840.3856Neighbours35BLASTN+1523065.gbk
71545924*156802322100Island text2.0677424.929720.6633Neighbours21BLASTNIslandViewer 1545924.gbk