ArticleBMC genomics2015
Identification of Nicotiana benthamiana microRNAs and their targets using high throughput sequencing and degradome analysis.
Article in BMC genomics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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Who cites it
29 citing papers in PubMed.
- Cross-kingdom RNAi induced by a beneficial endophytic fungus to its host requires transitivity and amplification of silencing signals.Plant biology (Stuttgart, Germany) · 2025Article
- Syn-tasiR-VIGS: virus-based targeted RNAi in plants by synthetic trans-acting small interfering RNAs derived from minimal precursors.Nucleic acids research · 2025Article
- An intron-split microRNA mediates cleavage of the mRNA encoded by low phosphate root in Solanaceae.Planta · 2025Article
- A novel ilarvirus protein CP-RT is expressed via stop codon readthrough and suppresses RDR6-dependent RNA silencing.PLoS pathogens · 2024Article
- A multi-omic Nicotiana benthamiana resource for fundamental research and biotechnology.Nature plants · 2023Article
- Small RNA profiling reveals the involvement of microRNA-mediated gene regulation in response to symbiosis in raspberry.Frontiers in microbiology · 2022Article
- Multiple cellular compartments engagement in Nicotiana benthamiana-peanut stunt virus-satRNA interactions revealed by systems biology approach.Plant cell reports · 2021Article
- Degradome Analysis of Tomato andInternational journal of molecular sciences · 2021Article
- Effect of RNA silencing suppression activity of chrysanthemum virus B p12 protein on small RNA species.Archives of virology · 2020Article
- Suppression of NB-LRR genes by miRNAs promotes nitrogen-fixing nodule development in Medicago truncatula.Plant, cell & environment · 2020Article
- Suppression of nbe-miR1919c-5p Expression inViruses · 2020Article
- Genome-Wide microRNA Profiling Using Oligonucleotide Microarray Reveals Regulatory Networks of microRNAs inViruses · 2020Article
- miRNA-mRNA Integrated Analysis Reveals Roles for miRNAs in a Typical Halophyte,Plants (Basel, Switzerland) · 2020Article
- Article
- Quantitative expression of microRNAs in Brassica oleracea infected with Xanthomonas campestris pv. campestris.Molecular biology reports · 2019Article
- DCL-suppressed Nicotiana benthamiana plants: valuable tools in research and biotechnology.Molecular plant pathology · 2019Article
- Article
- Heterologous Expression ofInternational journal of molecular sciences · 2018Article
- Evolutionary and expression analysis of CAMTA gene family in Nicotiana tabacum yielded insights into their origin, expansion and stress responses.Scientific reports · 2018Article
- The nonstop decay and the RNA silencing systems operate cooperatively in plants.Nucleic acids research · 2018Article
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Authors and funding
8 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundNicotiana benthamiana is a widely used model plant species for research on plant-pathogen interactions as well as other areas of plant science. It can be easily transformed or agroinfiltrated, therefore it is commonly used in studies requiring protein localization, interaction, or plant-based systems for protein expression and purification. To discover and characterize the miRNAs and their cleaved target mRNAs in N. benthamiana, we sequenced small RNA transcriptomes and degradomes of two N. benthamiana accessions and validated them by Northern blots.
resultsWe used a comprehensive molecular approach to detect and to experimentally validate N. benthamiana miRNAs and their target mRNAs from various tissues. We identified 40 conserved miRNA families and 18 novel microRNA candidates and validated their target mRNAs with a genomic scale approach. The accumulation of thirteen novel miRNAs was confirmed by Northern blot analysis. The conserved and novel miRNA targets were found to be involved in various biological processes including transcription, RNA binding, DNA modification, signal transduction, stress response and metabolic process. Among the novel miRNA targets we found the mRNA of REPRESSOR OF SILENCING (ROS1). Regulation of ROS1 by a miRNA provides a new regulatory layer to reinforce transcriptional gene silencing by a post-transcriptional repression of ROS1 activity.
conclusionsThe identified conserved and novel miRNAs along with their target mRNAs also provides a tissue specific atlas of known and new miRNA expression and their cleaved target mRNAs of N. benthamiana. Thus this study will serve as a valuable resource to the plant research community that will be beneficial well into the future.
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