In silico identification and characterization of a diverse subset of conserved microRNAs in bioenergy crop Arundo donax L
| Autor: | Giorgio Bertorelle, Claudio Varotto, Gaurav Sablok, Mingai Li, Wuhe Jike |
|---|---|
| Přispěvatelé: | External Funding, Embryophylo, Biosciences |
| Jazyk: | angličtina |
| Rok vydání: | 2018 |
| Předmět: |
0106 biological sciences
0301 basic medicine Settore BIO/01 - BOTANICA GENERALE lcsh:Medicine pri-miRNA TRANSCRIPTOME-WIDE IDENTIFICATION 01 natural sciences Economica Transcription (biology) Gene Expression Regulation Plant Gene expression lcsh:Science 1183 Plant biology microbiology virology Phylogeny COMPUTATIONAL PREDICTION 2. Zero hunger Regulation of gene expression Multidisciplinary MicroRNA ARABIDOPSIS pre-miRNA MIRNAS RNA editing RNA Plant EXPRESSION Gene Expression Regulation Plant Lipid Metabolism MicroRNAs Phylogeny Poaceae RNA Plant GO functional classes In silico PLANT MICRORNA Computational biology Biology Poaceae Article 03 medical and health sciences IMPROVED BIOMASS microRNA TARGET GENES Gene MIR169 Giant reed lcsh:R RNA Ambientale Plant Lipid Metabolism MicroRNAs 030104 developmental biology Gene Expression Regulation lcsh:Q Transcriptome miRNA targets Expression network 010606 plant biology & botany |
| Zdroj: | Scientific Reports Scientific Reports, Vol 8, Iss 1, Pp 1-13 (2018) |
| Popis: | MicroRNAs (miRNAs) are small non-coding RNA molecules involved in the post-transcriptional regulation of gene expression in plants. Arundo donax L. is a perennial C3 grass considered one of the most promising bioenergy crops. Despite its relevance, many fundamental aspects of its biology still remain to be elucidated. In the present study we carried out the first in silico mining and tissue-specific characterization of microRNAs and their putative targets in A. donax. We identified a total of 141 miRNAs belonging to 14 families along with the corresponding primary miRNAs, precursor miRNAs and a total of 462 high-confidence predicted targets and novel target sites were validated by 5′-race. Gene Ontology functional annotation showed that miRNA targets are constituted mainly by transcription factors, but three of the newly validated targets are enzymes involved in novel functions like RNA editing, acyl lipid metabolism and post-Golgi trafficking. Folding variability of pre-miRNA loops and phylogenetic analyses indicate variable selective pressure acting on the different miRNA families. The set of miRNAs identified in this study will pave the road to further miRNA research in Arundo donax and contribute towards a better understanding of miRNA-mediated gene regulatory processes in other bioenergy crops. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|