On the nature of the domination of oligomeric (dA:dT)n tracts in the structure of eukaryotic genomes

• Published in: Biophysics (Oxford) 2016-11, Vol.61 (6), p.813-824
• Main Authors: Samchenko, A. A., Kiselev, S. S., Kabanov, A. V., Kondratjev, M. S., Komarov, V. M.
• Format: Article
• Language: English
• Subjects: Arabidopsis thaliana; Biological and Medical Physics; Biophysics; Caenorhabditis elegans; Dictyostelium discoideum; Drosophila melanogaster; Gallus gallus; Leishmania major; Molecular Biophysics; Physics; Physics and Astronomy
• ISSN: 0006-3509; 1555-6654
• DOI: 10.1134/S0006350916060233

The comparative analysis of the frequency of oligomeric W- and S-tracts was conducted in the genomes of different eukaryotic species that differ in their GC-composition. The domination of mononucleotide and mixed (A/T) n -sequences compared with (G/C) n -sequences was detected in the studied eukaryotic genomes, including Dictyostelium discoideum (GC ~ 25.7%), Caenorhabditis elegans (GC ~ 36.9%), Arabidopsis thaliana (GC ~ 38.0%), Drosophila melanogaster (GC ~ 38.8%), Homo sapiens (GC ~ 40.0%), Gallus gallus (GC ~ 50.0%), Leishmania major (GC ~ 59.1%). Using the results of quantum–chemical calculations, a theoretical rationale of the important role of existing differences in the initial hidden structural polymorphism of the hydrogen bonding of the Watson–Crick AT and GC pairs in the development of this phenomenon is given. It is concluded that a decreased structural polymorphism of AT pairs compared with the high fourfold polymorphism of the main state of GC pairs may be the most probable source of the preference and reliability of the “use” of AT pairs by nature in genomic DNA of many species.