Dinucleotide relative abundance extremes: a genomic signature

作者：Samuel Kariin, Chris Burge · 发表于：Trends in Genetics · 年份：1995 · DOI：10.1016/s0168-9525(00)89076-9 · 被引用次数：716 · 研究领域：DNA and Nucleic Acid Chemistry、DNA Repair Mechanisms、RNA and protein synthesis mechanisms

Early biochemical experiments established that the set of dinucleotide odds ratios or 'general design' is a remarkably stable property of the DNA of an organism, which is essentially the same in protein-coding DNA, bulk genomic DNA, and in different renaturation rate and density gradient fractions of genomic DNA in many organisms. Analysis of currently available genomic sequence data has extended these earlier results, showing that the general designs of disjoint samples of a genome are substantially more similar to each other than to those of sequences from other organisms and that closely related organisms have similar general designs. From this perspective, the set of dinucleotide odds ratio (relative abundance) values constitute a signature of each DNA genome, which can discriminate between sequences from different organisms. Dinucleotide-odds ratio values appear to reflect not only the chemistry of dinucleotide stacking energies and base-step conformational preferences, but also the species-specific properties of DNA modification, replication and repair mechanisms.