Work

Why is CpG suppressed in the genomes of virtually all small eukaryotic viruses but not in those of large eukaryotic viruses?

Year: 1994

Type: article

Abstract: Dinucleotide over- and underrepresentation is evaluated in all available completely sequenced DNA or RNA viral genomes, ranging in size from 3 to 250 kb (available RNA viruses fall into the small-virus category). The dinucleotide CpG is statistically underrepresented (suppressed) in all but four of the small viruses (more than 75 with lengths of < 30 kb) but has normal relative abundances in most large viruses (> or = 30 kb). Most retrotransposons in eukaryotic species also show low CpG relative abundances. Interpretations, especially in some cases of DNA viruses or viruses with a DNA intermediate, might relate to methylation effects and modes of viral integration and excision. Other possible contributing factors relate to dinucleotide stacking energies, special mutation mechanisms, and evolutionary events.

Source: Journal of Virology

DOI: 10.1128/jvi.68.5.2889-2897.1994

Authors: S Karlin, W Doerfler, L R Cardon

Institution: Stanford University

Language: English

Topic: Fractal and DNA sequence analysis

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: bronze

Funders: National Human Genome Research Institute, National Institute of General Medical Sciences

Awards: G1292572563, MOLECULAR SEQUENCE DATA, G3220975918, G4011889783, Gene Expression Levels Across Diverse Genomes