Search Results (166)

Early detection of cucumber mosaic virus (CMV) and potato virus X (PVX) infection at the pre-symptomatic stage is essential for timely disease management and for limiting viral spread. Conventional molecular assays are accurate, but they generally require destructive sampling and are time-consuming. To enable rapid and non-destructive identification of these two viruses before visible symptom development, Nicotiana benthamiana seedling leaves were used as experimental materials, and CMV and PVX were selected as target viruses. A hyperspectral dataset of healthy, CMV-infected, and PVX-infected pre-symptomatic samples was constructed and validated by RT-PCR. After spectral preprocessing, eight selected wavelengths were identified and used to develop a 1D-CNN model, a MobileNetV3 model, and a spectral–spatial dual-branch fusion model. The 1D-CNN achieved an accuracy of 0.9074, whereas MobileNetV3 achieved 0.6835. The feature-level fusion model performed best, with an accuracy of 0.944, a precision of 0.945, a recall of 0.944, and an F1-score of 0.944. These results suggest that spectral information provides the primary discriminative basis, while image information offers complementary spatial and textural features for early non-destructive detection of plant viruses. Full article

Plant viruses need to use many host factors to establish infection. During the viral cycle, intracellular transport is fundamental to reach the plasmodesmata to enable cell-to-cell transport. Cucumovirus CMV (cucumber mosaic virus, CMV) can infect plants from most economically important crops. To identify additional host proteins involved in CMV movement in melon, we used the MP as a bait to screen a Yeast two-hybrid cDNA library from CMV-infected plants and identified a Niemann-Pick C1 (NPC1) protein as a novel MP interactor. NPC1 is a transmembrane protein involved in cholesterol transport in animal cells, but also in the infection by several viruses of different families. The identified clone from the melon NPC1 gene spans from exons 25 to 28 and includes two introns. Notably, deletion of the two introns and exon 28 does not impair the interaction capacity of the remaining peptide. The identified CmNPC1 gene maps to chromosome 11. In addition, the melon genome encodes a second copy of NPC1 in chromosome 7 (CmNPC1-C7), highly similar. Functional assays revealed that the interaction domain of CmNPC1-C7 also interacts with CMV MP, suggesting that both genes could have a role in CMV infection. This study represents the first report linking NPC1 to the infection process of a plant virus, expanding our understanding of plant–virus interactions. Full article

Onion (Allium cepa) belongs to the genus Allium in the family Liliaceae and is widely cultivated worldwide for its nutritional and medicinal value. However, in Hohhot, Inner Mongolia, China, many onion plants exhibited severe virus-like symptoms, including yellow stripes and leaf distortion. Symptomatic plants were collected, and virus identification was conducted through mechanical inoculation of Nicotiana benthamiana and transmission electron microscopy. Two types of virus particles, rod-shaped and spherical, were observed. Mixed infection of Cucumber mosaic virus (CMV) and Cucumber green mottle mosaic virus (CGMMV) was confirmed by high-throughput sequencing and RT-PCR. The detection rates of CMV and CGMMV in the samples were 8/161 and 1/161, respectively. Recombination analysis indicated that no recombination events were detected in the CGMMV, whereas one recombination event was identified in CMV, occurring on RNA1 from nt 59 to 171. The major parent was CMV DSMZ PV-1255 (ON013910) in Greece, and the minor parent was CMV Am (JX993909) in China. This study reports, for the first time, the complete genome sequences of CMV infecting onions in China and CGMMV infecting onions worldwide. Full article

Plant defences are assumed to evolve in response to the negative effects of virus infection on plant fitness (virulence), and to drive plant–virus coevolution. However, viruses are not always antagonistic symbionts of plants, and the expression of defence traits is environment-dependent. Thus, understanding plant–virus interactions requires analysing the expression of defence traits in the host’s native habitat. Here we analyse the effect of cucumber mosaic virus (CMV) infection, and the expression of resistance and tolerance in the native habitat of a wild Arabidopsis thaliana population. Plants from ten genotypes from that population, which have been shown to differ in resistance and tolerance to CMV in a greenhouse, were inoculated with an Arabidopsis isolate of CMV and transplanted to their habitat. Resistance was rated based on virus accumulation in leaves, and tolerance was rated based on the effect of infection on plant fecundity relative to virus accumulation. Consistent with the greenhouse assays, virulence depended on the host genotype, and polymorphisms for resistance and tolerance were expressed in the field, supporting the validity of the conclusions from the greenhouse assays. Our results also support theoretical predictions on the relationships between pathogen multiplication and virulence and between resistance and tolerance. Full article

Weed control of solanaceous weeds growing with solanaceous crops is a constant challenge. Infected by viruses, they can also act as virus reservoirs, complicating this problem further. Viromes of annual Solanum nigrum, Datura stramonium, and Solanum dulcamara, a perennial climbing shrub, were investigated using RNA sequencing and validated using RT-PCR, revealing infection with nine viruses. Broad bean wilt virus 1 (BBWV1), cucumber mosaic virus (CMV), and potato virus M (PVM) were found to infect S. nigrum. Investigating only 46 plants revealed infection with Solanum dulcamara yellow fleck virus (SDYFV) not only in S. dulcamara but in a new host, D. stramonium, which also represents a new host of turnip yellows virus (TuYV). We described the first presence of a potato virus H (PVH)-like, and Oxybasis rubra mitovirus 1 (OxruMV1)-like virus in Europe, in S. dulcamara as a new host. Our results highlight the unexpected complexity of the viromes of solanaceous weeds, which should be considered during reliable and efficient plant protection strategies, in order to alleviate the virus reservoir role of the weeds. Full article

Saffron (Crocus sativus L.) is a high-value crop vulnerable to potyvirus infections threatening its yield and quality. In this study, we combined Oxford Nanopore long-read sequencing with exploratory transcriptomic profiling to characterize the saffron virome and to describe expression profiles associated with two distinct infection histories: (i) saffron plants experimentally inoculated with cucumber mosaic virus (CMV; Cucumovirus CMV) and turnip mosaic virus (TuMV; Potyvirus rapae) under controlled greenhouse conditions, and (ii) saffron plants naturally infected by diverse viruses. We identified six plant-infecting viral families in both conditions, including Potyviridae, Geminiviridae, Caulimoviridae, Tymoviridae, Aspiviridae, and Partitiviridae. Transcriptomic profiling revealed distinct expression profiles associated with each infection background. Given the limitations of the experimental design, gene expression differences are interpreted descriptively. We describe pathway enrichments associated with antiviral responses. Naturally infected plants exhibited a broad-spectrum, tolerance-based response characterized by the upregulation of photosynthesis-related genes, calcium-mediated signaling components, and stress-responsive transcription factors. In contrast, virus-inoculated plants activated a targeted antiviral program involving RNA silencing, autophagy, ubiquitin-mediated proteolysis, and hormonal regulation. Both GO and KEGG enrichment analyses supported these findings, highlighting photosynthesis and metabolic flexibility in naturally infected plants versus hypersensitive response, RNA surveillance, and lignin biosynthesis in virus-inoculated plants. This work provides a comprehensive view of the saffron virome and offers a hypothesis-generating overview of transcriptional responses associated with natural versus experimental virus infections. These findings advance the understanding of the saffron virome and provide a valuable resource for breeding virus-resistant cultivars. Full article

Viral diseases pose a major threat to tomato cultivation, mainly due to the lack of effective antiviral control methods. Plant growth-promoting microorganisms (PGPMs) represent a promising and sustainable strategy for virus disease management, as, in addition to plant growth, they can promote resistance to pathogens. In this study, we examined the antiviral potential of selected PGPMs against three economically important and genetically distinct tomato viruses, tomato spotted wilt virus (TSWV, Orthotospovirus tomatomaculae), cucumber mosaic virus (CMV, Cucumovirus CMV), and tomato brown rugose fruit virus (ToBRFV, Tobamovirus fructirugosum) under controlled greenhouse conditions. The efficacy of each PGPM was assessed by monitoring disease development via visual scoring and DAS-ELISA. Our results indicate a significant TSWV symptom attenuation upon the application of Paraburkholderia eburnea EP3 and the yeast isolate SRL248, though, without a respective reduction in virus accumulation. However, no antiviral effect was observed by any PGPM tested against CMV or ToBRFV. A targeted gene expression analysis revealed a PGPM-specific induction of salicylic acid-dependent defense and RNA silencing markers, indicating priming of host immune responses. Overall, this work increases our knowledge on the antiviral potential of PGPMs showing a strain- and virus-specific effect primarily associated with enhanced symptom tolerance. Full article

Climate warming has facilitated the expansion of insect vectors and plant viral pathogens, leading to increased incidence of viral diseases in crops. Cucurbit crops, including cucumber (Cucumis sativus), melon (Cucumis melo), squash (Cucurbita pepo), and watermelon (Citrullus lanatus), are of major economic importance worldwide, but their production is severely threatened by viral infections. Among the most damaging viruses are zucchini yellow mosaic virus (ZYMV; genus Potyvirus), transmitted by aphids, and melon yellow spot virus (MYSV; genus Orthotospovirus), transmitted by thrips, both of which cause significant yield losses in Asia, including Taiwan. Previously, an attenuated ZYMV mutant, ZAC, was shown to confer effective cross-protection against ZYMV in several cucurbit species. In the present study, we engineered a recombinant virus, ZAC-MYnp, by inserting the nucleocapsid protein (NP) open reading frame of MYSV into the ZAC genome. ZAC-MYnp retained the attenuated phenotype of ZAC and remained effective in protecting against ZYMV infection, with protection rates of 70.4% and 87.0% in zucchini and muskmelon plants, respectively. In addition, under both mechanical and thrips-mediated challenge conditions, ZAC-MYnp significantly reduced MYSV symptom severity in muskmelon, with a protection rate of 66.7% and a protective efficacy of 79.0%, respectively. These results demonstrate that ZAC-derived recombinant viruses can function as a bivalent viral vaccine, offering dual protection against an aphid-borne potyvirus and a thrips-borne orthotospovirus. Our study highlights the feasibility of using a bivalent recombinant vaccine to manage two distinct insect-borne viruses in cucurbit crops. Full article

This study explores the virome of fifteen peanut cultivars in Korea. Through RNA sequencing, 305 viral contigs associated with cucumber mosaic virus (CMV), peanut mottle virus (PeMoV), bean common mosaic virus (BCMV), and brassica yellows virus (BrYV) were identified, with CMV notably prevalent across samples. Evaluation of viral abundance using viral reads and TPM values revealed CMV dominance in reads and PeMoV prominence in normalized values in select samples. Complete genomes of BCMV, PeMoV, BrYV, and CMV segments were assembled, enabling phylogenetic analysis that uncovered genetic relationships among viral isolates. RT-PCR confirmed BCMV, CMV, and PeMoV presence. Genetic diversity within BCMV was evident through single-nucleotide polymorphism (SNP) analysis, displaying diverse patterns and correlations with viral reads. This study discusses the implications for peanut cultivation, stressing the importance of ongoing research to manage viral diseases. It forms a foundational resource for future investigations into peanut virology, guiding strategies for disease management in peanut crops. Full article

Yam (Dioscorea spp.) is a major staple food, contributing significantly to food security and income generation for millions of people worldwide. In 2019, surveys were conducted across the seven agro-ecological zones (AEZs) of Côte d’Ivoire, the third highest producer of yam globally, to ascertain the current status of viral diseases. In the 324 fields surveyed, a total of 1242 yam leaf samples were collected and tested for the presence of Potyvirus yamtesselati (yam mosaic virus, YMV), Potyvirus yamplacidum (yam mild mosaic virus, YMMV), Cucumovirus CMV (cucumber mosaic virus, CMV), and the badnaviruses using PCR, RT-PCR, and RCA followed by Sanger or MinION sequencing. The incidence of yam viral disease varied across the AEZs, with the lowest mean incidence observed in yam farms within the AEZ VII (71.95%) and the highest in AEZ V (88.15%). Viral disease symptom severity was moderate across the country, with more severe symptoms identified in AEZs II and VI. The virus screening revealed a potyvirus detection rate of 35.83% in all the AEZs. YMMV infection (25.12%) is the most prevalent in the samples, followed by YMV infection (15.61%). RCA-MinION sequencing revealed the presence of badnaviruses belonging to the T15 episomal groups K8, K9, and K5. Also, the use of this technique enabled the amplification and sequencing of four full-length episomal badnaviruses, namely Dioscorea bacilliform AL virus in group K8 and Dioscorea bacilliform RT virus in group K5. CMV was not detected in all the samples. It is noteworthy that 22.13% of mixed infections were detected in asymptomatic samples. This study revealed the first occurrence of YMMV in all the AEZs of Côte d’Ivoire. Of the yam species, Dioscorea alata was more widespread (78.03%) than Dioscorea cayenensis-rotundata (21.92%) in the visited fields. Also, D. alata had a highest incidence of YMMV (23.67%) infection than Dioscorea cayenensis-rotundata, while D. cayenensis-rotundata registered the highest incidence of YMV (15.84%) infection compared to D. alata. Phylogenetic analysis of representative of the various viruses detected in the country revealed that the sequences have high diversity for each virus species. This study revealed that viruses infecting yam are widespread and occur in mixed infection, which poses a real threat to yam production in Côte d’Ivoire. Full article

Adzuki bean (Vigna angularis), a major grain legume in Asia, is susceptible to infection by cucumber mosaic virus (CMV), which threatens crop productivity. Here, we characterized the CMV-Pa3 isolate from adzuki bean and investigated the role of specific amino acid residues in the viral 2a protein influencing systemic infection of legumes. Phylogenetic analysis demonstrated that CMV-Pa3 is genetically distinct from other legume-infecting isolates. Inoculation assays revealed that CMV-Pa3 causes systemic infection in adzuki bean, cowpea, soybean, and pea, whereas the control isolate CMV-Rs1 is restricted to inducing local necrotic lesions in cowpea and adzuki bean. Site-directed mutagenesis targeted two conserved amino acid positions (631 and 641) in the 2a protein of CMV-Rs1. Functional analysis showed that residue 631 (Tyr) facilitates systemic infection across all tested legumes, while alteration at position 641 (Ser) alone enables systemic infection in cowpea and pea. These findings identify amino acid determinants in the CMV 2a protein critical for overcoming host restrictions and mediating systemic infection in various leguminous species. This work offers new insights into the molecular mechanisms underlying CMV pathogenicity and host specificity. Full article

The tomato zonate spot virus (TZSV) poses a significant threat to agriculture. Therefore, the elucidation of the functional roles and interactions of its encoded proteins is crucial for the development of effective control strategies. The aim of this study was to investigate the interaction network between the TZSV nucleocapsid (N), the non-structural M-segment (NSm) and the non-structural S-segment (NSs) proteins, with a focus on the functional characterization of the NSm protein. Yeast two-hybrid (Y2H) analysis indicated that both the N protein (N-N) and the NSm protein (NSm-NSm) exhibit self-interaction in vitro, with successful expression of all fusion proteins confirmed by Western blotting. Subsequently, we used bimolecular fluorescence complementation (BiFC) and luciferase complementation imaging (LCI) assays in epidermal cells of Nicotiana benthamiana to confirm that N and NSm proteins self-interact. In addition, heterologous interactions between NSs-N, N-NSm and NSs-NSm were also detected. BiFC and co-localization experiments with fusion proteins elucidated the interaction place of the cell: N-N and NSm-N interactions occurred in both the cytoplasm and nucleus, with NSm-NSm interaction occurring in the nucleus, whereas NSs-N and NSs-NSm interactions only occurred in the cytoplasm. Subcellular localization studies showed that the N protein is distributed in both the cytoplasm and the nucleus, whereas the NSm and NSs proteins are predominantly localized in the cytoplasm. In particular, NSm was found to specifically target plasmodesmata (PD) and co-localize with the known PD marker protein PDLP8. Interestingly, TZSV NSm was demonstrated to mediate the cell-to-cell movement of a cucumber mosaic virus mutant (ΔCMV-GFP) lacking its native movement protein (3a). This was evidenced by the spread of approximately 50 fluorescent foci to neighboring cells observed at 6 dpi. This study comprehensively describes the intricate interaction network between the N, NSm and NSs proteins of TZSV and clarifies their subcellular localizations within plant cells. Crucially, we provide conclusive evidence that the NSm protein of TZSV is a functional movement protein essential for facilitating viral intercellular transport which promotes viral spread within the host during systemic infection. These findings offer important insights into the infection mechanism of TZSV and provide potential targets for the control of TZSV. Full article

Sweetpotato (Ipomoea batatas) is a staple crop of strategic importance in West Africa, particularly in Côte d’Ivoire. However, its productivity is increasingly under threat due to viral diseases. Given the lack of updated epidemiological data over the past three decades, a nationwide survey was conducted in September 2023 across 94 fields in 83 locations covering seven agroecological zones of the country. A total of 221 symptomatic and asymptomatic leaf samples were analyzed using PCR for DNA viruses and RT-PCR for RNA viruses. The overall viral incidence rate calculated was 65.61%, with significant regional variations (35–97.18%, p < 0.001) and notable differences in the severity of symptoms (p = 0.0095). Agroecological zone I was the most affected, while agroecological zones IV and V were the least impacted. Four viruses were identified: cucumber mosaic virus (CMV), sweet potato leaf curl virus (SPLCV), sweet potato feathery mottle virus (SPFMV), and sweet potato chlorotic stunt virus (SPCSV). No badnaviruses were found. CMV was the most common virus found in single infections (43.44%), followed by SPLCV (5.43%). SPFMV and SPCSV were only observed in mixed infections, particularly CMV/SPLCV (14.03%) and CMV/SPFMV (1.81%). Two triple infections were also detected: SPFMV/SPCSV/CMV and SPFMV/SPLCV/CMV. In total, 34 partial coat protein sequences were obtained (28 SPLCV, 4 SPFMV, 1 CMV, 1 SPCSV). Phylogenetic analysis revealed a high similarity between SPLCV isolates characterized in Côte d’Ivoire and those from Burkina Faso, Europe (Spain, Italy), and the Americas (USA, Puerto Rico) with nucleotide identity values ranging from 98% to 100%. The Côte d’Ivoire SPCSV sequence showed 97.92% nucleotide identity with European isolates, whereas SPFMV sequences exhibited greater diversity (77–89% identity) but clustered within the West African lineage. Sweetpotato viral diseases were detected mostly in mixed-cropping fields (66.85%). This work provides the first epidemiological update on sweetpotato viral diseases since 1987 and the first molecular evidence of the nationwide presence of SPLCV and SPCSV in Côte d’Ivoire. Full article

This article provides a comprehensive analysis of Virus-Induced Gene Silencing (VIGS), which is an effective tool for studying the functional genomics of organisms that are poorly amenable to genomic editing. The VIGS method is grounded in the plant’s post-transcriptional gene silencing (PTGS) machinery and utilizes recombinant viral vectors to trigger systemic suppression of endogenous plant gene expression, leading to visible phenotypic changes that enable gene function characterization. This article details the application of VIGS in model organisms (Arabidopsis thaliana, Nicotiana benthamiana) and a wide range of crops, with a special focus on the Solanaceae family, particularly pepper (Capsicum annuum L.). This review analyzes the design and structural elements of viral vectors used for VIGS, such as Tobacco Rattle Virus (TRV), Broad Bean Wilt Virus 2 (BBWV2), Cucumber Mosaic Virus (CMV), geminiviruses (CLCrV, ACMV), and satellite virus-based systems. It also critically examines the key factors that determine silencing efficiency. These factors encompass insert design, agroinfiltration methodology, plant developmental stage, agroinoculum concentration, plant genotype, and environmental factors (temperature, humidity, photoperiod). Particular attention is given to optimization strategies, such as the use of viral suppressors of RNA silencing (VSRs). This article concludes with the achievements in using VIGS to identify pepper genes governing fruit quality (color, biochemical composition, pungency), resistance to biotic (bacteria, oomycetes, insects) and abiotic (temperature, salt, osmotic stress) factors, as well as genes regulating plant architecture and development. The results obtained demonstrate the advantages and limitations of VIGS, alongside future perspectives for its integration with multi-omics technologies to accelerate breeding and advance functional genomics studies in pepper. Full article

Cucumber mosaic virus (CMV), a representative species of the genus Cucumvirus in the family Bromoviridae, is globally distributed and infects over 1200 monocot and dicot plants. 14-3-3 proteins serve as molecular adaptors that bind phosphorylated target proteins and play significant roles in multiple signaling pathways, including plant growth and development, hormone signaling, and responses to abiotic and biotic stimuli. Although an increasing body of evidence supports the prominent roles of 14-3-3 proteins in regulating plant immunity, their specific roles in plant responses to CMV infection remain unclear. Here, we demonstrate that 14-3-3λ and 14-3-3κ knockout Arabidopsis plants display enhanced tolerance to CMV infection, with significantly suppressed viral replication compared to wild-type (WT) plants. Additionally, we conducted transcriptomics analysis by comparing the CMV-infected 14-3-3λ 14-3-3κ (14-3-3λ/κ) double mutant to the WT using RNA-seq. The KEGG (Kyoto Encyclopedia of Genes and Genomes) enrichment and differentially expressed gene (DEG) results mainly suggest that plant hormone signaling, transcription factor activity, and the autophagy pathway are significantly involved in 14-3-3-mediated CMV tolerance in Arabidopsis. This study reveals new functions and potential molecular mechanisms of 14-3-3 proteins in regulating plant response to CMV infection and provides valuable insights into agricultural production. Full article