miRVine: a microRNA expression atlas of grapevine based on small RNA sequencing
| Author(s) | Belli Kullan, Jayakumar | |
| Author(s) | Paim Pinto, Daniela Lopes | |
| Author(s) | Bertolini, Edoardo | |
| Author(s) | Fasoli, Marianna | |
| Author(s) | Zenoni, Sara | |
| Author(s) | Battista Tornielli, Giovanni | |
| Author(s) | Pezzotti, Mario | |
| Author(s) | Meyers, Blake C. | |
| Author(s) | Farina, Lorenzo | |
| Author(s) | Pè, Mario Enrico | |
| Author(s) | Mica, Erica | |
| Ordered Author | Jayakumar Belli Kullan, Daniela Lopes Paim Pinto, Edoardo Bertolini, Marianna Fasoli, Sara Zenoni, Giovanni Battista Tornielli, Mario Pezzotti, Blake C. Meyers, Lorenzo Farina, Mario Enrico Pè and Erica Mica. | |
| UD Author | Meyers, Blake C. | en_US |
| Date Accessioned | 2015-12-09T18:55:04Z | |
| Date Available | 2015-12-09T18:55:04Z | |
| Copyright Date | Copyright ©2015 Belli Kullan et al.; licensee BioMed Central. | en_US |
| Publication Date | 2015-05-16 | |
| Description | Publisher's PDF. | en_US |
| Abstract | Background miRNAs are the most abundant class of small non-coding RNAs, and they are involved in post-transcriptional regulations, playing a crucial role in the refinement of genetic programming during plant development. Here we present a comprehensive picture of miRNA regulation in Vitis vinifera L. plant during its complete life cycle. Furthering our knowledge about the post-transcriptional regulation of plant development is fundamental to understand the biology of such an important crop. Results We analyzed 70 small RNA libraries, prepared from berries, inflorescences, tendrils, buds, carpels, stamens and other samples at different developmental stages. One-hundred and ten known and 175 novel miRNAs have been identified and a wide grapevine expression atlas has been described. The distribution of miRNA abundance reveals that 22 novel miRNAs are specific to stamen, and two of them are, interestingly, involved in ethylene biosynthesis, while only few miRNAs are highly specific to other organs. Thirty-eight miRNAs are present in all our samples, suggesting a role in key regulatory circuit. On the basis of miRNAs abundance and distribution across samples and on the estimated correlation, we suggest that miRNA expression define organ identity. We performed target prediction analysis and focused on miRNA expression analysis in berries and inflorescence during their development, providing an initial functional description of the identified miRNAs. Conclusions Our findings represent a very extensive miRNA expression atlas in grapevine, allowing the definition of how the spatio-temporal distribution of miRNAs defines organ identity. We describe miRNAs abundance in specific tissues not previously described in grapevine and contribute to future targeted functional analyses. Finally, we present a deep characterization of miRNA involvement in berry and inflorescence development, suggesting a role for miRNA-driven hormonal regulation. | en_US |
| Department | University of Delaware. Department of Plant and Soil Sciences. | en_US |
| Citation | Belli Kullan et al. BMC Genomics (2015) 16:393 DOI 10.1186/s12864-015-1610-5 | en_US |
| DOI | 10.1186/s12864-015-1610-5 | en_US |
| ISSN | 1471-2164 | en_US |
| URL | http://udspace.udel.edu/handle/19716/17293 | |
| Language | en_US | en_US |
| Publisher | BioMed Central Ltd. | en_US |
| dc.rights | CC-BY 1.0 ; https://creativecommons.org/licenses/by-sa/1.0/ | en_US |
| dc.source | BMC Genomics | en_US |
| dc.source.uri | http://www.biomedcentral.com/bmcgenomics/ | en_US |
| Title | miRVine: a microRNA expression atlas of grapevine based on small RNA sequencing | en_US |
| Type | Article | en_US |
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