Plant Reproduction

, Volume 26, Issue 3, pp 209–229

Computational identification of conserved microRNAs and their putative targets in the Hypericum perforatum L. flower transcriptome

  • Giulio Galla
  • Mirko Volpato
  • Timothy F. Sharbel
  • Gianni Barcaccia
Original Article

DOI: 10.1007/s00497-013-0227-6

Cite this article as:
Galla, G., Volpato, M., Sharbel, T.F. et al. Plant Reprod (2013) 26: 209. doi:10.1007/s00497-013-0227-6

Abstract

MicroRNAs (miRNAs) have recently emerged as important regulators of gene expression in plants. Many miRNA families and their targets have been extensively studied in model species and major crops. We have characterized mature miRNAs along with their precursors and potential targets in Hypericum to generate a comprehensive list of conserved miRNA families and to investigate the regulatory role of selected miRNAs in biological processes that occur in the flower. St. John’s wort (Hypericum perforatum L., 2n = 4x = 32), a medicinal plant that produces pharmaceutically important metabolites with therapeutic activities, was chosen because it is regarded as an attractive model system for the study of apomixis. A computational in silico prediction of structure, in combination with an in vitro validation, allowed us to identify 7 pre-miRNAs, including miR156, miR166, miR390, miR394, miR396, and miR414. We demonstrated that H. perforatum flowers share highly conserved miRNAs and that these miRNAs potentially target dozens of genes with a wide range of molecular functions, including metabolism, response to stress, flower development, and plant reproduction. Our analysis paves the way toward identifying flower-specific miRNAs that may differentiate the sexual and apomictic reproductive pathways.

Keywords

miRNAHypericumperforatumReproductive organsApomixis

Supplementary material

497_2013_227_MOESM1_ESM.doc (23 kb)
Supplementary material 1 (DOC 23 kb)
497_2013_227_MOESM2_ESM.doc (42 kb)
Supplementary material 2 (DOC 41 kb)
497_2013_227_MOESM3_ESM.xlsx (26 kb)
Supplementary material 3 (XLSX 26 kb)

Copyright information

© Springer-Verlag Berlin Heidelberg 2013

Authors and Affiliations

  • Giulio Galla
    • 1
  • Mirko Volpato
    • 1
  • Timothy F. Sharbel
    • 2
  • Gianni Barcaccia
    • 1
  1. 1.Laboratory of Genetics and Genomics, DAFNAEUniversity of PadovaLegnaroItaly
  2. 2.Apomixis Research GroupLeibniz Institute of Plant Genetics and Crop Plant Research (IPK)GaterslebenGermany