Chitarra Walter, Pagliarani Chiara, Abbà Simona, Boccacci Paolo, Birello Giancarlo, Rossi Marika, Palmano Sabrina, Marzachì Cristina, Perrone Irene, Gambino Giorgio
Institute for Sustainable Plant Protection, National Research Council of Italy, Turin, Italy.
Viticultural and Enology Research Centre, Council for Agricultural Research and Economics, Conegliano, Italy.
Front Plant Sci. 2018 Jul 17;9:1034. doi: 10.3389/fpls.2018.01034. eCollection 2018.
Micro(mi)RNAs play crucial roles in plant developmental processes and in defense responses to biotic and abiotic stresses. In the last years, many works on small RNAs in grapevine ( spp.) were published, and several conserved and putative novel grapevine-specific miRNAs were identified. In order to reorganize the high quantity of available data, we produced "miRVIT," the first database of all novel grapevine miRNA candidates characterized so far, and still not deposited in miRBase. To this aim, each miRNA accession was renamed, repositioned in the last version of the grapevine genome, and compared with all the novel and conserved miRNAs detected in grapevine. Conserved and novel miRNAs cataloged in miRVIT were then used for analyzing plants infected by (FD), one of the most severe phytoplasma diseases affecting grapevine. The analysis of small RNAs from healthy, recovered (plants showing spontaneous and stable remission of symptoms), and FD-infected "Barbera" grapevines showed that FD altered the expression profiles of several miRNAs, including those involved in cell development and photosynthesis, jasmonate signaling, and disease resistance response. The application of miRVIT in a biological context confirmed the effectiveness of the followed approach, especially for the identification of novel miRNA candidates in grapevine. miRVIT database is available at http://mirvit.ipsp.cnr.it. The application of the newly produced database of grapevine novel miRNAs to the analysis of plants infected by reveals key roles of miRNAs in photosynthesis and jasmonate signaling.
微小（mi）RNA在植物发育过程以及对生物和非生物胁迫的防御反应中发挥着关键作用。在过去几年中，发表了许多关于葡萄（葡萄属）中小RNA的研究，并且鉴定出了几种保守的和假定的新型葡萄特异性miRNA。为了整合大量可用数据，我们创建了“miRVIT”，这是第一个关于迄今已鉴定出的所有新型葡萄miRNA候选物的数据库，且尚未存入miRBase。为此，每个miRNA登录号都进行了重新命名，在葡萄基因组的最新版本中重新定位，并与在葡萄中检测到的所有新型和保守miRNA进行比较。然后，将miRVIT中编目的保守和新型miRNA用于分析受葡萄黄化病（FD）感染的植物，葡萄黄化病是影响葡萄的最严重的植原体病害之一。对健康、恢复（症状自发且稳定缓解的植物）和受FD感染的“巴贝拉”葡萄的小RNA分析表明，FD改变了几种miRNA的表达谱，包括那些参与细胞发育和光合作用、茉莉酸信号传导以及抗病反应的miRNA。miRVIT在生物学背景下的应用证实了所采用方法的有效性，特别是在鉴定葡萄中新的miRNA候选物方面。miRVIT数据库可在http://mirvit.ipsp.cnr.it获取。新生成的葡萄新型miRNA数据库在受葡萄黄化病感染植物分析中的应用揭示了miRNA在光合作用和茉莉酸信号传导中的关键作用。
