Genomic islands (GI) are formerly mobile genetic elements that have been integrated into an organism's genome. They encode a variety of different functions that depend largely on the environment of the organism, and can be involved in symbiosis or pathogenesis. Often, they confer on an organism fitness to occupy a particular ecological niche. (Hentschel et al., Microbes Infect. 2001 Jun;3(7):545-8.). A single mobile element can be found in many distantly related species. The lateral gene transfer of mobile elements occurs between different organisms and strains in a variety of ways: Transformation, Conjugation, and Transduction. Base Composition Analysis (G+C content, genome signature, codon usage) can be used to identify laterally transferred genes. Base composition analyses methods established by Samuel Karlin (Trends Microbiol. 2001 Jul;9(7):335-43.) were used to find atypical genes.

The following table contains records of GIs that have been identified in Prevotella intermedia using base composition analyses and BLAST taxonomy data. The genome coordinates, the value of each parameter and a measure of its deviation is provided for each island. The skew is the number of standard deviations from the genome mean value of the quantity measured. The Genomic Island ID is hyperlinked to a annotated GI record that contains more detailed information.

Gen. Island ID Start Stop %GC GC Skew Genome Signature Skew Codon Bias (Genome) Skew Codon Bias (Ribosomal) Skew Description 2 234613 259850 49.21 1.12 118 -0.34 386 -0.31 661 0.74 Bacteriodes conjugative transposon-related island (tra gene cluster) 3 271973 277884 37.95 -1.08 200 0.78 529 0.62 643 0.62 uncharacterized genomic island 4 305979 328165 48.17 0.92 126 -0.23 393 -0.27 585 0.24 uncharacterized genomic island 5 364569 372586 36.81 -1.30 68 -1.03 285 -0.97 544 -0.03 uncharacterized genomic island with integrases 6 458881 471592 38.04 -1.06 113 -0.41 383 -0.33 564 0.10 mobilization gene cluster with fic-related gene 7 659401 677274 47.65 0.81 136 -0.10 415 -0.12 635 0.57 membrane protein gene and ABC transport gene cluster 8 1022327 1049410 35.03 -1.65 114 -0.40 313 -0.79 546 -0.02 glycosyltransferase gene cluster 10 1546922 1565774 49.83 1.24 115 -0.38 392 -0.27 624 0.50 N-acetylmuramoyl-L-alanine amidase containing cluster 11 1918153 1951196 38.67 -0.94 148 0.07 446 0.08 584 0.23 uncharacterized genomic island 12 1180881 1216171 41.43 -0.40 139 -0.05 418 -0.10 529 -0.13 ATP synthase and glycosyltransferase gene clusters

Total Records: 10