Prediction and characterization of Tomato leaf curl New Delhi virus (ToLCNDV) responsive novel microRNAs in Solanum lycopersicum

Pradhan, Bhubaneswar; Naqvi, Afsar Raza; Saraf, Shradha; Mukherjee, Sunil Kumar; Dey, Nrisingha

doi:10.1016/j.virusres.2014.09.001

Cited by 43 publications

(27 citation statements)

References 57 publications

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“…The advent of NGS technique has expanded the list of miRNAs discovered in plant and their differential expression in different plants exposed to various biotic stresses. These studies also include analysis of tomato miRNA regulation during biotrophic pathogen interaction, such as tomato–cucumber mosaic virus and tomato-ToLCNDV 17 ; and necrotrophic interactions, such as tomato- Botrytis cineria 4 and tomato- Fusarium 18 . Essential role of tomato miRNAs targeting NB-domain protein in conferring resistance to Fusarium fungal attack 18 has been established.…”

Section: Discussionmentioning

confidence: 99%

Integrated miRNA and mRNA expression profiling reveals the response regulators of a susceptible tomato cultivar to early blight disease

et al. 2017

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Early blight, caused by the fungus Alternaria solani, is a devastating foliar disease of tomatoes, causes massive yield loss each year worldwide. Molecular basis of the compatible host–pathogen interaction was elusive. We adopted next generation sequencing approach to decipher miRNAs and mRNAs that are differentially expressed during Alternaria-stress in tomato. Some of the interesting findings were also validated by alternative techniques. Our analysis revealed 181 known-miRNAs, belonging to 121 miRNA families, of which 67 miRNAs showed at least 2-fold change in expression level with the majority being downregulated. Concomitantly, 5,450 mRNAs were significantly regulated in the same diseased tissues. Differentially expressed genes were most significantly associated with response to stimulus process, photosynthesis, biosynthesis of secondary metabolites, plant–pathogen interaction and plant hormone signal transduction pathways. GO term enrichment-based categorization of gene-functions further supported this observation, as terms related to pathogen perception, disease signal transduction, cellular metabolic processes including oxidoreductase and kinase activity were over represented. In addition, we have discovered 102 miRNA–mRNA pairs which were regulated antagonistically, and careful study of the targeted mRNAs depicted that multiple transcription factors, nucleotide-binding site leucine-rich repeats, receptor-like proteins and enzymes related to cellular ROS management were profoundly affected. These studies have identified key regulators of Alternaria-stress response in tomato and the subset of genes that are likely to be post-transcriptionally silenced during the infection.

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Section: Discussionmentioning

confidence: 99%

Integrated miRNA and mRNA expression profiling reveals the response regulators of a susceptible tomato cultivar to early blight disease

et al. 2017

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“…RNAi constructs targeting ToLCNDV AC1, AC2, AC4, AV1 and AV2 (Mubin et al, 2007;Sharma V et al, 2015;Vu et al, 2013) show efficiently reduced virus accumulation by up to 90% (Sharma V et al, 2015). However, profiling of the miRNA complements of healthy and ToLCNDV-infected tomato plants has revealed several novel miRNAs that probably function in ToLCNDV resistance (Naqvi et al, 2010;Pradhan et al, 2015), some of which could potentially be utilized to design virus resistance strategies.…”

Section: Virus Control Strategiesmentioning

confidence: 99%

Tomato leaf curl New Delhi virus: a widespread bipartite begomovirus in the territory of monopartite begomoviruses

Zaidi

Martin

Amin

et al. 2016

Molecular Plant Pathology

121

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“…Certain sRNAs have been shown to be involved in the establishment of tolerance and resistance responses to PVY infection in potato and tobacco plants [13,28]. Additionally, several studies have reported that, similar to other plant hosts, tomato responds to viral pathogens by generating infection-responsive sRNAs of different classes including miRNAs and phasiRNAs [29][30][31][32][33]. In this study, we examined PVY-tomato interactions, looking into the complexity and diversity of defense pathways involving sRNAs.…”

Section: Introductionmentioning

confidence: 99%

Potato Virus Y Infection Alters Small RNA Metabolism and Immune Response in Tomato

Prigigallo

Križnik

Paola³

et al. 2019

Viruses

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Potato virus Y (PVY) isolate PVYC-to induces growth reduction and foliar symptoms in tomato, but new vegetation displays symptom recovery at a later stage. In order to investigate the role of micro(mi)RNA and secondary small(s)RNA-regulated mechanisms in tomato defenses against PVY, we performed sRNA sequencing from healthy and PVYC-to infected tomato plants at 21 and 30 days post-inoculation (dpi). A total of 792 miRNA sequences were obtained, among which were 123 canonical miRNA sequences, many isomiR variants, and 30 novel miRNAs. MiRNAs were mostly overexpressed in infected vs. healthy plants, whereas only a few miRNAs were underexpressed. Increased accumulation of isomiRs was correlated with viral infection. Among miRNA targets, enriched functional categories included resistance (R) gene families, transcription and hormone factors, and RNA silencing genes. Several 22-nt miRNAs were shown to target R genes and trigger the production of 21-nt phased sRNAs (phasiRNAs). Next, 500 phasiRNA-generating loci were identified, and were shown to be mostly active in PVY-infected tissues and at 21 dpi. These data demonstrate that sRNA-regulated host responses, encompassing miRNA alteration, diversification within miRNA families, and phasiRNA accumulation, regulate R and disease-responsive genes. The dynamic regulation of miRNAs and secondary sRNAs over time suggests a functional role of sRNA-mediated defenses in the recovery phenotype.

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Prediction and characterization of Tomato leaf curl New Delhi virus (ToLCNDV) responsive novel microRNAs in Solanum lycopersicum

Cited by 43 publications

References 57 publications

Integrated miRNA and mRNA expression profiling reveals the response regulators of a susceptible tomato cultivar to early blight disease

Integrated miRNA and mRNA expression profiling reveals the response regulators of a susceptible tomato cultivar to early blight disease

Tomato leaf curl New Delhi virus: a widespread bipartite begomovirus in the territory of monopartite begomoviruses

Potato Virus Y Infection Alters Small RNA Metabolism and Immune Response in Tomato

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