Abstract
Mango is a major tropical fruit in the world and is known as the king of fruits because of its flavor, aroma, taste, and nutritional values. Although various regulatory roles of microRNAs (miRNAs) and long non-coding RNAs (lncRNAs) have been investigated in many plants, there is yet an absence of such study in mango. This is the first study to provide information on non-coding RNAs (ncRNAs) of mango with the aims of identifying miRNAs and lncRNAs and discovering their potential functions by interaction prediction of the miRNAs, lncRNAs, and their target genes. In this analysis, about a hundred miRNAs and over 7,000 temperature-responsive lncRNAs were identified and the target genes of these ncRNAs were characterized. According to these results, the newly identified mango ncRNAs, like other plant ncRNAs, have a potential role in biological and metabolic pathways including plant growth and developmental process, pathogen defense mechanism, and stress-responsive process. Moreover, mango lncRNAs can target miRNAs to reduce the stability of lncRNAs and can function as molecular decoys or sponges of miRNAs. This paper would provide information about miRNAs and lncRNAs of mango and would help for further investigation of the specific functions of mango ncRNAs through wet lab experiments.
Highlights
Non-coding ribonucleic acid (RNA) are RNA molecules that have no or little protein-coding potential and are not translated into proteins they are transcribed from DNA
Most of the plant miRNAs are evolutionarily conserved from species to species (Dezulian et al, 2005; Weber, 2005), and this indicates the powerful strategy for the identification of new miRNAs by using the already known miRNAs (Zhang et al, 2006b)
Unigene is a unique transcript that is transcribed from a genome, and many miRNAs have been identified from the unigenes of many plant species such as Artemisia annua (Pérez-Quintero et al, 2012), coconut (Naganeeswaran et al, 2015), litchi fruit (Yao et al, 2015), and black pepper (Asha et al, 2016)
Summary
Non-coding RNAs (ncRNAs) are RNA molecules that have no or little protein-coding potential and are not translated into proteins they are transcribed from DNA. The miRNAs are small (18–24 nt), endogenous, and regulatory RNA molecules derived from their long self-complementary precursor sequences which can fold into hairpin secondary structures (Ambros et al, 2003). In plants, these long primary precursor miRNAs are transcribed by RNA polymerase II or RNA polymerase III and processed by dicer-like 1 enzyme (DCL1) into miRNA/miRNA∗ duplex which is the mature miRNA sequence and its opposite miRNA strand (miRNA∗) (Kurihara and Watanabe, 2004; Panda et al, 2014). MiRNAs play a fundamental role in almost all biological and metabolic processes including plant growth, development, signal transduction, and various stress responses by binding to their target genes (Rhoades et al, 2002)
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