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Genome-wide identification of alternate bearing-associated microRNAs (miRNAs) in olive (Olea europaea L.)

DOI: 10.1186/1471-2229-13-10

Keywords: High-throughput small RNA sequencing, MicroRNA, Olive, Periodicity

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Abstract:

Six olive (Olea europaea L. cv. Ayvalik variety) small RNA libraries were constructed from fruits (ripe and unripe) and leaves (”on year” and ”off year” leaves in July and in November, respectively) and sequenced by high-throughput Illumina sequencing. The RNA was retrotranscribed and sequenced using the high-throughput Illumina platform. Bioinformatics analyses of 93,526,915 reads identified 135 conserved miRNA, belonging to 22 miRNA families in the olive. In addition, 38 putative novel miRNAs were discovered in the datasets. Expression of olive tree miRNAs varied greatly among the six libraries, indicating the contribution of diverse miRNA in balancing between reproductive and vegetative phases. Predicted targets of miRNA were categorized into 108 process ontology groups with significance abundance. Among those, potential alternate bearing-associated processes were found, such as development, hormone-mediated signaling and organ morphogenesis. The KEGG analyses revealed that the miRNA-targeted genes are involved in seven main pathways, belonging to carbohydrate metabolism and hormone signal-transduction pathways.A comprehensive study on olive miRNA related to alternate bearing was performed. Regulation of miRNA under different developmental phases and tissues indicated that control of nutrition and hormone, together with flowering processes had a noteworthy impact on the olive tree alternate bearing. Our results also provide significant data on the miRNA-fruit development interaction and advance perspectives in the miRNA profile of the olive tree.The olive tree (Olea europaea L.) belongs to the Oleaceae family and is an evergreen plant native to the Mediterranean Basin. It is one of the most economically important fruit crops in the world. Interestingly, the olive oil has been declared as a healthy medicine for cardiovascular protection (“qualified health claim”) by the internationally recognized Food and Drug Administration (FDA) of the United States of America (

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