A Novel Construction of Genome Space with Biological Geometry

Yu, Chenglong; Liang, Qian; Yin, Changchuan; He, Rong L.; Yau, Stephen S.-T.

A novel construction of genome space with biological geometry [Vol. 17, represent different points but have very close distance. Large-scale genomic rearrangements in closely related organisms make the genome sequences very different from the original genome sequences. Although the moment vectors of the original and rearranged DNA sequences are different, if we treat double DNA genomes as two single-stranded genomes to get two n-dimensional moment vectors for these two single-stranded sequences and take the average to get a general moment vector (M 1 , M 2 , . . . , M n ), the computed distances among related species by gene rearrangements will be small. The genome spaces constructed by the moment vector have advantages over the gene order phylogenetic analysis since the genome spaces do not depend on gene orders and are capable of using all gene families. We will apply the moment vector method on the detailed phylogenetic analysis using the large-scale genomic rearrangement data.