Discovering Structural Motifs in miRNA Precursors from the Viridiplantae Kingdom
Autor: | Marta Szachniuk, Joanna Miskiewicz |
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Rok vydání: | 2018 |
Předmět: |
0301 basic medicine
Pharmaceutical Science Computational biology MiRBase Analytical Chemistry lcsh:QD241-441 03 medical and health sciences lcsh:Organic chemistry Drug Discovery microRNA Viridiplantae Physical and Theoretical Chemistry DCL1 Structural motif Protein secondary structure Organism miRNA biogenesis biology Organic Chemistry biology.organism_classification 030104 developmental biology Chemistry (miscellaneous) biology.protein Molecular Medicine structural patterns Biogenesis Dicer |
Zdroj: | Molecules Volume 23 Issue 6 Molecules, Vol 23, Iss 6, p 1367 (2018) |
ISSN: | 1420-3049 |
Popis: | A small non-coding molecule of microRNA (19&ndash 24 nt) controls almost every biological process, including cellular and physiological, of various organisms&rsquo lives. The amount of microRNA (miRNA) produced within an organism is highly correlated to the organism&rsquo s key processes, and determines whether the system works properly or not. A crucial factor in plant biogenesis of miRNA is the Dicer Like 1 (DCL1) enzyme. Its responsibility is to perform the cleavages in the miRNA maturation process. Despite everything we already know about the last phase of plant miRNA creation, recognition of miRNA by DCL1 in pre-miRNA structures of plants remains an enigma. Herein, we present a bioinformatic procedure we have followed to discover structure patterns that could guide DCL1 to perform a cleavage in front of or behind an miRNA:miRNA* duplex. The patterns in the closest vicinity of microRNA are searched, within pre-miRNA sequences, as well as secondary and tertiary structures. The dataset consists of structures of plant pre-miRNA from the Viridiplantae kingdom. The results confirm our previous observations based on Arabidopsis thaliana precursor analysis. Hereby, our hypothesis was tested on pre-miRNAs, collected from the miRBase database to show secondary structure patterns of small symmetric internal loops 1-1 and 2-2 at a 1&ndash 10 nt distance from the miRNA:miRNA* duplex. |
Databáze: | OpenAIRE |
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