Discovery and annotation of novel microRNAs in the porcine genome by using a semi-supervised transductive learning approach

Abstract

 Motif search improved pre-miRNA reconstruction from mature microRNA sequences.  Semi-supervised methods outperformed canonical supervised classification algorithms.  The presence of multiple isomiRs in the porcine muscle miRNA repertoire was uncovered.  A total of 47 novel microRNA genes were identified in the porcine genome.  RT-qPCR analyses allowed us to confirm the existence of three novel porcine microRNAs.

Variability in porcine microRNA genes and its association with mRNA expression and lipid phenotypes

“…These authors described both sequence motifs located around the miRNA precursor hairpins and assessed their contribution to the miRNA maturation process [9]. Additional surveys further reported other motifs affecting the expression of miRNAs [10] and analyzed the structural specifications of RNA-protein interactions between miRNAs and protein subunits in the Microprocessor complex [77–79], as well as the influence of such processing motifs in miRNA prediction analyses [80]. Particularly relevant was the study by Fernandez et al (2017) [13], where they described a mutation in the apical loop of hsa-miR-30c (G/A) that creates a steric disruption of the pri-miRNA folding structure of the hairpin, hence creating a bulge around the CNNC motif that facilitates the SRSF3 factor accessibility to the RNA sequence.…”