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Special Issue "Regulations by Small RNA in Plant Development and Beyond"

A special issue of International Journal of Molecular Sciences (ISSN 1422-0067). This special issue belongs to the section "Molecular Plant Sciences".

Deadline for manuscript submissions: 31 July 2019

Special Issue Editors

Guest Editor
Dr. Giorgio Gambino

Istituto per la Protezione Sostenibile delle Piante, Consiglio Nazionale delle Ricerche, Torino, Italy
Website | E-Mail
Interests: small RNAs; virus; grapevine; plant-pathogen interaction; genetic transformation; functional genomics; methylation; biotic stress
Guest Editor
Dr. Chiara Pagliarani

Istituto per la Protezione Sostenibile delle Piante, Consiglio Nazionale delle Ricerche, Torino, Italy
Website | E-Mail
Interests: miRNA signalling; grapevine; transcriptional changes; genotype-environment interaction; molecular mechanisms of stress responses; drought stress

Special Issue Information

Dear Colleagues,

Plants are subjected to several environmental stimuli during their lifetime and a fine transcriptome reprogramming is needed to allow the balance between the plant response to numerous stress factors and processes of plant growth and development. In this context, non-coding RNAs (ncRNAs) are fundamental players in the transcriptional and epigenetic regulatory mechanisms involved in the development and environmental adaptation of plants. Basing on their biogenesis, small RNAs are classified in different categories, such as miRNAs, siRNAs, and long ncRNAs, each exerting specific functions in gene regulation that often overlap with hormonal signalling cascades. Although in the last decade there was a real explosion of studies on plant small RNAs, many elements of RNA signalling pathways are still unsolved.

Papers submitted to this Special Issue should report novel and timely results unveiling key aspects of small RNA functions and the related silencing machinery in plants, including DNA methylation. Particular attention is directed to research studies concerning significant advances in small RNA-mediated signalling pathways crucial for the understanding of plant development, and of physiological and molecular responses to abiotic and biotic stress. Groundbreaking insights shedding new light on MIRNA genes and/or the diversification of miRNA biogenesis and functionality in plants are welcome as well.

Dr. Giorgio Gambino
Dr. Chiara Pagliarani
Guest Editors

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All papers will be peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. International Journal of Molecular Sciences is an international peer-reviewed open access semimonthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 1800 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • small non-coding RNAs
  • plant development
  • stress response
  • small RNA signalling
  • DNA methylation
  • environmental adaptation
  • miRNA targets
  • gene-silencing networks

Published Papers (2 papers)

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Research

Open AccessArticle
Development-Related miRNA Expression and Target Regulation during Staggered In Vitro Plant Regeneration of Tuxpeño VS-535 Maize Cultivar
Int. J. Mol. Sci. 2019, 20(9), 2079; https://doi.org/10.3390/ijms20092079
Received: 28 March 2019 / Revised: 24 April 2019 / Accepted: 25 April 2019 / Published: 27 April 2019
PDF Full-text (4797 KB) | HTML Full-text | XML Full-text | Supplementary Files
Abstract
In vitro plant regeneration addresses basic questions of molecular reprogramming in the absence of embryonic positional cues. The process is highly dependent on the genotype and explant characteristics. However, the regulatory mechanisms operating during organ differentiation from in vitro cultures remain largely unknown. [...] Read more.
In vitro plant regeneration addresses basic questions of molecular reprogramming in the absence of embryonic positional cues. The process is highly dependent on the genotype and explant characteristics. However, the regulatory mechanisms operating during organ differentiation from in vitro cultures remain largely unknown. Recently, miRNAs have emerged as key regulators during embryogenic callus induction, plant differentiation, auxin responses and totipotency. Here, we explored how development-related miRNA switches the impact on their target regulation depending on physiological and molecular events taking place during maize Tuxpeño VS-535 in vitro plant regeneration. Three callus types with distinctive regeneration potential were characterized by microscopy and histological preparations. The embryogenic calli (EC) showed higher miRNA levels than non-embryogenic tissues (NEC). An inverse correlation for miR160 and miR166 targets was found during EC callus induction, whereas miR156, miR164 and miR394 displayed similar to their targets RNA accumulation levels. Most miRNA accumulation switches took place early at regenerative spots coincident with shoot apical meristem (SAM) establishment, whereas miR156, miR160 and miR166 increased at further differentiation stages. Our data uncover particular miRNA-mediated regulation operating for maize embryogenic tissues, supporting their regulatory role in early SAM establishment and basipetala growth during the in vitro regeneration process. Full article
(This article belongs to the Special Issue Regulations by Small RNA in Plant Development and Beyond)
Figures

Graphical abstract

Open AccessArticle
MicroRNAome Profile of Euphorbia kansui in Response to Methyl Jasmonate
Int. J. Mol. Sci. 2019, 20(6), 1267; https://doi.org/10.3390/ijms20061267
Received: 14 January 2019 / Revised: 7 March 2019 / Accepted: 8 March 2019 / Published: 13 March 2019
PDF Full-text (4365 KB) | HTML Full-text | XML Full-text | Supplementary Files
Abstract
miRNAs play vital regulatory roles in different plant developmental stages and in plant response to biotic and abiotic stresses. However, information is limited on the miRNA regulatory mechanism to methyl jasmonate (MeJA). In this study, we used the microRNAome profile to illustrate the [...] Read more.
miRNAs play vital regulatory roles in different plant developmental stages and in plant response to biotic and abiotic stresses. However, information is limited on the miRNA regulatory mechanism to methyl jasmonate (MeJA). In this study, we used the microRNAome profile to illustrate the relevant regulatory mechanisms of Euphorbia kansui in response to methyl jasmonate (MeJA) through Illumina RNA-Seq. As a result, we identified 875 miRNAs corresponding to 11,277 target mRNAs, among them, 168 known miRNA families representing 6019 target mRNAs sequences were obtained. 452 miRNA-mRNA pairs presented an anti-correlationship (Cor < −0.50 and p-value of correlation ≤ 0.05). The miRNA with a fold change ≥ 2 and a p (p-Value) < 0.05 in pairwise comparison were identified as significant differentially expressed miRNAs (DEMs). The DEMs in MeJA treatment of 0, 24, 36 and 48 h were compared by using Short Time Expression Miner (STEM) cluster and 4 significant gene profiles (p-value ≤ 0.02) were identified. Through the kyoto encyclopedia of genes and genomes (KEGG) pathway and gene ontology (GO) enrichment analysis on all miRNA targets, we identified 33 mRNAs in terpenoid biosynthesis, which were regulated by miRNAs under MeJA treatment, so the miRNA maybe involved in the response of E. kansui plant to exogenous MeJA and the results would provide very useful information on illustrating the regulatory mechanism of E. kansui and also provide an overall view of the miRNAs response to MeJA stress of a non-model plant. Full article
(This article belongs to the Special Issue Regulations by Small RNA in Plant Development and Beyond)
Figures

Figure 1

Planned Papers

The below list represents only planned manuscripts. Some of these manuscripts have not been received by the Editorial Office yet. Papers submitted to MDPI journals are subject to peer-review.

Title: Small RNA: a cross-kingdom trafficking effector between different plant species and pathogens
Authors:
Chen Zhu, Ting Liu and Cheng-Guo Duan
Abstract: Small RNA is a small but powerful agent that regulate development, abiotic and biotic stress resistance during plant adaptation in constant challenging living environment. Recent discoveries of small RNA bi-directional trafficking between fungi-plant and parasite-plant opened a new gate but also raised many interesting questions. The following demonstration of exosome mediated plant immunity introduced a possible tool in further investigating how plant uses small RNA as weapon in anti-fungal war. This review will focus on discussing the role of small RNA during plant immunity in 3 aspects: first, biogenesis of anti-fungal or parasite small RNA in plant; second, the transportation and working mechanism of these small RNA; third, the contribution of these small RNA in plant immunity.

Title: Comparative study of transcriptomes of Nicotiana benthamiana reveal activation of RNAi by sequences homologous and heterologous to Pepper golden mosaic virus
Author: Diana Medina Hernandez
Abstract: The efficiency of interfering RNA (RNAi) as a protection system used in constructions with sequences homologous to the challenged begomovirus is widely documented, demonstrating an efficiency of up to 100% in the control of the disease.  However, because mixed infections are common in nature and some research has focused on evaluating the efficiency of RNAi as a protection system when the sequences are not homologous to the begomovirus that causes the disease or in the presence of different begomoviruses. This study compares the transcriptional changes and analyzes some genes that belong to the gene-silencing pathway, using sequences that are heterologous to the challenged begomovirus.  Transcriptome analysis revealed that genes associated with RNAi and methylation, were induced by both constructs.  Results of this study demonstrate that the RNAi mechanisms do not require the activation sequence be 100% identical to the target sequence and that it is possible to obtain a protective effect in Nicotiana benthamiana plants using heterologous RNAi constructs.

 

Int. J. Mol. Sci. EISSN 1422-0067 Published by MDPI AG, Basel, Switzerland RSS E-Mail Table of Contents Alert
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