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Doublet frequencies in sequenced nucleic acids.

R A Elton

    Journal of Molecular Evolution
    |March 24, 1975
    PubMed
    Summary
    This summary is machine-generated.

    Analyzing nucleic acid sequences, this study reveals distinct doublet frequency patterns in vertebrate RNAs compared to DNA. Bacterial RNAs show closer resemblance, while bacteriophage MS2 RNA regions vary, offering insights into molecular evolution.

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    Area of Science:

    • Molecular Biology
    • Bioinformatics
    • Genomics

    Background:

    • Nucleic acid sequences can be analyzed by examining the frequency of two-base sequences, known as doublets.
    • Comparing these doublet frequencies provides insights into sequence composition and potential evolutionary pressures.

    Purpose of the Study:

    • To develop and apply statistical methods for comparing nucleic acid doublet frequencies.
    • To investigate variations in doublet frequencies across different types of RNA and DNA.
    • To explore the evolutionary implications of observed doublet frequency patterns.

    Main Methods:

    • Calculation of doublet frequency counts from experimentally determined nucleic acid sequences.
    • Statistical comparison of observed doublet frequencies against random expectations, homologous sequences, and whole DNA patterns.

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  • Application of these methods to vertebrate ribosomal RNA (rRNA), transfer RNA (tRNA), bacterial rRNA and tRNA, and bacteriophage MS2 RNA.

    • Main Results:

    • Vertebrate ribosomal and transfer RNAs exhibit significant deviations from vertebrate DNA, particularly in CG doublet frequency.
    • Bacterial rRNA and tRNA show less divergence from their respective total DNA doublet frequencies.
    • Translated regions of bacteriophage MS2 RNA resemble host E. coli patterns, while intercistronic regions differ markedly.

    Conclusions:

    • Nucleic acid doublet frequency analysis reveals distinct evolutionary signatures in different RNA types and organisms.
    • Significant differences, especially in CG frequency, suggest selective pressures acting on vertebrate RNAs.
    • Comparative analysis of viral RNA regions provides insights into host-pathogen interactions and genome evolution.