Transcriptome-wide analysis of dynamic variations in regulation modes of grapevine microRNAs on their target genes during grapevine development

Transcriptome-wide analysis of dynamic variations in regulation modes of grapevine microRNAs on... MicroRNAs (miRNAs) play critical regulatory roles mainly through cleaving their target mRNAs or repressing gene translation during plant development. Grapevines are among the most economically important fruit crops with available whole genome sequences. Studies on grapevine miRNAs (Vv-miRNAs) are also widely available. However, studies on the regulation mode of Vv-miRNAs on their target mRNAs during grapevine development have not been studied well, especially at the transcriptome-wide level. Here, six small RNA and mRNA libraries from various grapevine tissues were constructed for Illumina and Degradome sequencing. Subsequently, we systematically analyzed the spatiotemporal variations in the regulation of the target genes of regulation of Vv-miRNAs. In total, 242 known and 132 novel Vv-miRNAs and 193 target mRNAs were identified, including 103 target mRNAs for known and 90 target mRNAs for novel miRNAs, were validated in one or more of the tissues examined. More than 50 % of novel miRNAs were expressed exclusively in the flowers and berries, where they cleaved their target genes in a tissue-specific manner, especially, the breadth of their cleavage sites in flower tissues. Moreover, six novel miRNAs in berries responded to exogenous gibberellin and/or ethylene under a quantitative real time RT-PCR analysis, which confirmed their regulatory functions during berry development. Up to 93.6 % of the known miRNAs were highly conserved in various tissues, where their expression levels exhibited dynamic variations during grapevine development. Significantly, some Vv-miRNA families had one key member that acted as the main regulator of their target genes during grapevine development. Plant Molecular Biology Springer Journals

Transcriptome-wide analysis of dynamic variations in regulation modes of grapevine microRNAs on their target genes during grapevine development

Loading next page...
Springer Netherlands
Copyright © 2013 by Springer Science+Business Media Dordrecht
Life Sciences; Plant Sciences; Biochemistry, general; Plant Pathology
Publisher site
See Article on Publisher Site


  • Endogenous siRNA and miRNA targets identified by sequencing of the Arabidopsis degradome
    Addo-Quaye, C; Eshoo, TW; Bartel, DP; Axtell, MJ
  • MicroRNA maturation: stepwise processing and subcellular localization
    Lee, Y; Jeon, K; Lee, JT; Kim, S; Kim, VN
  • MicroRNA-directed regulation of Arabidopsis AUXIN RESPONSE FACTOR17 is essential for proper development and modulates expression of early auxin response genes
    Mallory, AC; Bartel, DP; Bartel, B
  • Criteria for annotation of plant MicroRNAs
    Meyers, BC; Axtell, MJ; Bartel, B; Bartel, DP; Baulcombe, D; Bowman, JL; Cao, XF; Carrington, JC; Chen, XM; Green, PJ; Griffiths-Jones, S; Jacobsen, SE; Mallory, AC; Martienssen, RA; Poethig, RS; Qi, YJ; Vaucheret, H; Voinnet, O; Watanabe, Y; Weigel, D; Zhu, JK
  • Identification of grapevine microRNAs and their targets using high-throughput sequencing and degradome analysis
    Pantaleo, V; Szittya, G; Moxon, S; Miozzi, L; Moulton, V; Dalmay, T; Burgyan, J
  • Assumption-free analysis of quantitative real-time polymerase chain reaction (PCR) data
    Ramakers, C; Ruijter, JM; Deprez, RH; Moorman, AF
  • Microarray analysis of postictal transcriptional regulation of neuropeptides
    Wilson, DN; Chung, H; Elliott, RC; Bremer, E; George, D; Koh, S
  • Identification, characterization and expression analysis of MicroRNAs and their targets in the potato (Solanum tuberosum)
    Xie, FL; Frazier, TP; Zhang, BH

You’re reading a free preview. Subscribe to read the entire article.

DeepDyve is your
personal research library

It’s your single place to instantly
discover and read the research
that matters to you.

Enjoy affordable access to
over 12 million articles from more than
10,000 peer-reviewed journals.

All for just $49/month

Explore the DeepDyve Library

Unlimited reading

Read as many articles as you need. Full articles with original layout, charts and figures. Read online, from anywhere.

Stay up to date

Keep up with your field with Personalized Recommendations and Follow Journals to get automatic updates.

Organize your research

It’s easy to organize your research with our built-in tools.

Your journals are on DeepDyve

Read from thousands of the leading scholarly journals from SpringerNature, Elsevier, Wiley-Blackwell, Oxford University Press and more.

All the latest content is available, no embargo periods.

See the journals in your area

Monthly Plan

  • Read unlimited articles
  • Personalized recommendations
  • No expiration
  • Print 20 pages per month
  • 20% off on PDF purchases
  • Organize your research
  • Get updates on your journals and topic searches


Start Free Trial

14-day Free Trial

Best Deal — 39% off

Annual Plan

  • All the features of the Professional Plan, but for 39% off!
  • Billed annually
  • No expiration
  • For the normal price of 10 articles elsewhere, you get one full year of unlimited access to articles.



billed annually
Start Free Trial

14-day Free Trial