Literature DB >> 26524490

Trinucleotide's quadruplet symmetries and natural symmetry law of DNA creation ensuing Chargaff's second parity rule.

Marija Rosandić1, Ines Vlahović2, Matko Glunčić2, Vladimir Paar1,2.   

Abstract

For almost 50 years the conclusive explanation of Chargaff's second parity rule (CSPR), the equality of frequencies of nucleotides A=T and C=G or the equality of direct and reverse complement trinucleotides in the same DNA strand, has not been determined yet. Here, we relate CSPR to the interstrand mirror symmetry in 20 symbolic quadruplets of trinucleotides (direct, reverse complement, complement, and reverse) mapped to double-stranded genome. The symmetries of Q-box corresponding to quadruplets can be obtained as a consequence of Watson-Crick base pairing and CSPR together. Alternatively, assuming Natural symmetry law for DNA creation that each trinucleotide in one strand of DNA must simultaneously appear also in the opposite strand automatically leads to Q-box direct-reverse mirror symmetry which in conjunction with Watson-Crick base pairing generates CSPR. We demonstrate quadruplet's symmetries in chromosomes of wide range of organisms, from Escherichia coli to Neanderthal and human genomes, introducing novel quadruplet-frequency histograms and 3D-diagrams with combined interstrand frequencies. These "landscapes" are mutually similar in all mammals, including extinct Neanderthals, and somewhat different in most of older species. In human chromosomes 1-12, and X, Y the "landscapes" are almost identical and slightly different in the remaining smaller and telocentric chromosomes. Quadruplet frequencies could provide a new robust tool for characterization and classification of genomes and their evolutionary trajectories.

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Keywords:  Chargaff’s second parity rule; DNA symmetries; Neanderthal genome; human genome; quadruplets of trinucleotides; trinucleotide frequencies

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Year:  2016        PMID: 26524490     DOI: 10.1080/07391102.2015.1080628

Source DB:  PubMed          Journal:  J Biomol Struct Dyn        ISSN: 0739-1102


  2 in total

1.  Noether's Theorem as a Metaphor for Chargaff's 2nd Parity Rule in Genomics.

Authors:  Yannis Almirantis; Astero Provata; Wentian Li
Journal:  J Mol Evol       Date:  2022-06-15       Impact factor: 3.973

Review 2.  Hyperbolic rules of the cooperative organization of eukaryotic and prokaryotic genomes.

Authors:  Sergey V Petoukhov
Journal:  Biosystems       Date:  2020-10-13       Impact factor: 1.973

  2 in total

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