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Pattern of locally positioned dinucleotides correlates with MicroRNA abundance in plants

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Abstract

MicroRNA (miRNA), short single-stranded RNA, can bind to eukaryotic mRNA and cause its degradation or inhibit its translation. We have analyzed the correlation between context characteristics of Arabidopsis thaliana mature miRNA sequences and the experimental data on miRNA abundance in the main types of plant tissue. Two correlations between the context pattern and miRNA abundance have been found: (i) concurrent presence of dinucleotides CA at positions 14–16 and CC at 18–19 relative to the miRNA 5′-end is characteristic of miRNA with low abundance in seedling and inflorescence tissues, whereas the absence of both dinucleotides correlates with high miRNA abundance; (ii) presence of UG at positions 5–10 combined with the absence of CC at positions 18–19 correlates with high miRNA abundance in the inflorescence, whereas the absence of UG and presence of CC correlates with miRNA low abundance.

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Authors and Affiliations

  1. Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences, pr. akademika Lavrent’eva 10, Novosibirsk, 630090, Russia

    I. V. Khomicheva, V. G. Levitsky, N. A. Omelyanchuk & N. A. Kolchanov

  2. Novosibirsk State University, ul. Pirogova 2, Novosibirsk, 630090, Russia

    V. G. Levitsky & S. A. Savinskaya

Authors
  1. I. V. Khomicheva
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  2. V. G. Levitsky
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  3. N. A. Omelyanchuk
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  4. S. A. Savinskaya
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  5. N. A. Kolchanov
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Khomicheva, I.V., Levitsky, V.G., Omelyanchuk, N.A. et al. Pattern of locally positioned dinucleotides correlates with MicroRNA abundance in plants. BIOPHYSICS 51 (Suppl 1), 7–10 (2006). https://doi.org/10.1134/S0006350906070025

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  • DOI: https://doi.org/10.1134/S0006350906070025

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