Unsupervised statistical identification of genomic islands using oligonucleotide distributions with application to Vibrio genomes
IR@IICB: CSIR-Indian Institute of Chemical Biology, KolkataView Archive Info
Unsupervised statistical identification of genomic islands
using oligonucleotide distributions with application to
Molecular & Human Genetics
Vibrio cholerae, Vibrio vulnificus, Vibrio parahaemolyticus and several other related Vibrio species show distinctly similar two-chromosomal genome organization. However, the modes of pathogenicity are very different among these
species, and this is largely attributed to externally acquired genetic elements. We develop some statistical methods to determine these external genetic elements
or genomic islands in genomes based on their differential oligonucleotide usage patterns compared to the rest of the genome. Genomic islands identified by these unsupervised statistical methods include integron and pathogenicity islands. After statistical determination of the genomic islands, we investigate their gene contents and their possible association with the pathogenic behaviour of the corresponding Vibrio species. These investigations lead to observations that are of evolutionary and biological significance.
Nag, Sanjay and Chatterjee, Raghunath and Chaudhuri, Keya and Chaudhuri, Probal (2006) Unsupervised statistical identification of genomic islands using oligonucleotide distributions with application to Vibrio genomes. Sadhana , 31. pp. 105-115.