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Rice sheath blight, caused by the soilborne fungus Rhizoctonia solani, causes severe yield losses worldwide. Elucidation of the pathogenic mechanism of R. solani is highly desired. However, the lack of a stable genetic transformation system has made it challenging to examine genes' functions in this fungus. Here, we present functional validation of pathogenicity genes in the rice sheath blight pathogen R. solani by a newly established tobacco rattle virus (TRV)–host‐induced gene silencing (HIGS) system using the virulent R. solani AG‐1 IA strain GD‐118. RNA interference constructs of 33 candidate pathogenicity genes were infiltrated into Nicotiana benthamiana leaves with the TRV‐HIGS system. Of these constructs, 29 resulted in a significant reduction in necrosis caused by GD‐118 infection. For further validation of one of the positive genes, trehalose‐6‐phosphate phosphatase (Rstps2), stable rice transformants harbouring the double‐stranded RNA (dsRNA) construct for Rstps2 were created. The transformants exhibited reduced gene expression of Rstps2, virulence, and trehalose accumulation in GD‐118. We showed that the dsRNA for Rstps2 was taken up by GD‐118 mycelia and sclerotial differentiation of GD‐118 was inhibited. These findings offer gene identification opportunities for the rice sheath blight pathogen and a theoretical basis for controlling this disease by spray‐induced gene silencing., Transgenic rice plants that overexpressed Rstps2 double‐stranded RNA had improved GD‐118 resistance compared to the wild type. GD‐118 isolated from the transgenic plants had reduced expression of Rstps2, virulence, and trehalose accumulation.

In addition to well-known roles in RNA metabolism, the nucleolus and Cajal bodies (CBs), both located within the nucleus, are involved in plant responses to biotic and abiotic stress. Previously we showed that plants in which expression of the CB protein coilin is downregulated are more susceptible to certain viruses including tobacco rattle virus (TRV), suggesting a role of coilin in antiviral defence. Experiments with coilin-deficient plants and the deletion mutant of the TRV 16K protein showed that both 16K and coilin are required for restriction of systemic TRV infection. The potential mechanisms of coilin-mediated antiviral defence were elucidated via experiments involving co-immunoprecipitation, use of NahG transgenic plants deficient in salicylic acid (SA) accumulation, measurement of endogenous SA concentrations and assessment of SA-responsive gene expression. Here we show that TRV 16K interacts with and relocalizes coilin to the nucleolus. In wild-type plants these events are accompanied by activation of SA-responsive gene expression and restriction of TRV systemic infection. By contrast, viral systemic spread was enhanced in NahG plants, implicating SA in these processes. Our findings suggest that coilin is involved in plant defence, responding to TRV infection by recognition of the TRV-encoded 16K protein and activating SA-dependent defence pathways.

Viral vectors provide a quick and effective way to express exogenous sequences in eukaryotic cells and to engineer eukaryotic genomes through the delivery of CRISPR/Cas components. Here, we present JoinTRV, an improved vector system based on tobacco rattle virus (TRV) that simplifies gene silencing and genome editing logistics. Our system consists of two mini T-DNA vectors from which TRV RNA1 (pLX-TRV1) and an engineered version of TRV RNA2 (pLX-TRV2) are expressed. The two vectors have compatible origins that allow their cotransformation and maintenance into a single Agrobacterium cell, as well as their simultaneous delivery to plants by a one-Agrobacterium/two-vector approach. The JoinTRV vectors are substantially smaller than those of any known TRV vector system, and pLX-TRV2 can be easily customized to express desired sequences by one-step digestion-ligation and homology-based cloning. The system was successfully used in Nicotiana benthamiana for launching TRV infection, for recombinant protein production, as well as for robust virus-induced gene silencing (VIGS) of endogenous transcripts using bacterial suspensions at low optical densities. JoinTRV-mediated delivery of single-guide RNAs in a Cas9 transgenic host allowed somatic cell editing efficiencies of ≈90%; editing events were heritable and >50% of the progeny seedlings showed mutations at the targeted loci.

MicroRNAs (miRNAs) play essential roles in plant development. There is increasing evidence that changed expression of miRNAs in virus-infected plants contributes to the development of viral symptoms. Here, we analysed the altered expression of miRNAs of Nicotiana benthamiana in response to Potato virus X (PVX) by Illumina Solexa sequencing. One of the 21 miRNAs significantly affected, nbe-miR166h-p5, was closely associated with viral symptoms. Using the Tobacco rattle virus-based miRNA suppression (VbMS) system, we found that the suppression of nbe-miR166h-p5 in plants caused leaves to turn dark green with increased chlorophyll. When PVX was inoculated on nbe-miR166h-p5-suppressed plants, the leaf yellowing symptom of PVX was largely attenuated with less reduction in chlorophyll content, and the accumulation of PVX was decreased. nbe-miR166h-p5 was also up-regulated in plants infected by Turnip mosaic virus (TuMV), and its suppression attenuated the leaf yellowing symptom of TuMV and decreased viral accumulation. Three potential targets of nbe-miR166h-p5 were identified. The results indicate the association of nbe-miR166h-p5 with symptoms of PVX and also with those of TuMV, providing useful information on the relationship between miRNA and viral infection.

HRT is a plant coiled-coil, nucleotide-binding and leucine-rich repeat (CC-NB-LRR) disease resistance protein that triggers the hypersensitive response (HR) on recognition of Turnip crinkle virus (TCV) coat protein (CP). The molecular mechanism and significance of HR-mediated cell death for TCV resistance have not been fully elucidated. To identify the genes involved in HRT/TCV CP-mediated HR in Nicotiana benthamiana, we performed virus-induced gene silencing (VIGS) of 459 expressed sequence tags (ESTs) of pathogen-responsive Capsicum annuum genes. VIGS of CaBLP5, which encodes an endoplasmic reticulum (ER)-associated immunoglobulin-binding protein (BiP), silenced NbBiP4 and NbBiP5 and significantly reduced HRT-mediated HR. The induction of ER stress-responsive genes and the accumulation of ER-targeted BiPs in response to HRT-mediated HR suggest that ER is involved in HR in N. benthamiana. BiP4/5 silencing significantly down-regulated HRT at the mRNA and protein levels, and affected SGT1 and HSP90 expression. Co-expression of TCV CP in BiP4/5-silenced plants completely abolished HRT induction. Transient expression of TCV CP alone induced selected ER stress-responsive gene transcripts only in Tobacco rattle virus (TRV)-infected plants, and most of these genes were induced by HRT/TCV CP, except for bZIP60, which was induced specifically in response to HRT/TCV CP. TCV CP-mediated induction of ER stress-responsive genes still occurred in BiP4/5-silenced plants, but HRT/TCV CP-mediated induction of these genes was defective. Tunicamycin, a chemical that inhibits protein N-glycosylation, inhibited HRT-mediated HR, suggesting that ER has a role in HR regulation. These results indicate that BiP and ER, which modulate pattern recognition receptors in innate immunity, also regulate R protein-mediated resistance.

The one-third of plant viruses are seed transmitted, and this has significant economic consequences. Tobacco rattle virus (TRV), belonging to the genus Tobravirus and family Virgaviridae, has one of the widest host range of any known plant viruses. TRV infects vegetative organ and effects seed and pollen development that results in a decrease in crop yield. The mechanisms by which Tobravirus is transmissible to seeds are still poorly understood. The presence of the virus in pollen grains and inside ovaries is linked with seed transmission and can have effects on virus particles' transport during the pollination and fertilization process. This paper focuses on the significant impact of TRV on pepper and tobacco anthers and ultrastructure changes in ovaries. The presence of two types of TRV particles in ovary wall parenchyma and vascular tissues as well as in placenta cells was demonstrated via ultrastructural analysis. For the first time, the regular inclusion of virus particles was reported in both ovule integuments and nucellus parenchyma cells. Immunolocalization of TRV capsid proteins indicated the deposition of TRV CP epitope in ovary vascular bundles and in placenta cells. Moreover, the presence of virus particles was demonstrated inside pepper seeds in endothelium and integument parenchyma layers as well as on the embryo cell wall. Virus particles were found not only on the surface of pollen grains but also inside pepper pollen protoplasts in mature anthers. Also, this is the first time where TRV particles are reported in both differentiated endothecium cells and the remaining tapetum cells. Moreover, the detection of TRV capsid protein epitope in tobacco and pepper vascular anther tissues as well as in tapetum and endothecium cells was correlated with TRV distribution in infected anthers. Demonstrated analyses indicated that pollen grains and ovaries with ovules as well as could be a natural source of TRV transmission.

Viral infections cause plant chlorosis, stunting, necrosis or other symptoms. The down-regulation of chloroplast-related genes (ChRGs) is assumed to be responsible for chlorosis. We identified the differentially expressed genes (DEGs) in Rice stripe virus (RSV)-infected Nicotiana benthamiana, and examined the contribution of 75 down-regulated DEGs to RSV symptoms by silencing them one by one using Tobacco rattle virus (TRV)-induced gene silencing. Silencing of 11 of the 75 down-regulated DEGs caused plant chlorosis, and nine of the 11 were ChRGs. Silencing of a down-regulated DEG encoding the eukaryotic translation initiation factor 4A (eIF4A) caused leaf-twisting and stunting that were visible on RSV-infected N. benthamiana. A region of RSV RNA4 was complementary to part of eIF4A mRNA and virus-derived small interfering (vsiRNAs) from that region were present in infected N. benthamiana. When expressed as artificial microRNAs, those vsiRNAs could target NbeIF4A mRNA for regulation. We provide experimental evidence supporting the association of ChRGs with chlorosis and show that eIF4A is involved in RSV symptom development. This is also the first report demonstrating that siRNA derived directly from a plant virus can target a host gene for regulation.

Catharanthus roseus constitutes the unique source of several valuable monoterpenoid indole alkaloids, including the antineoplastics vinblastine and vincristine. These alkaloids result from a complex biosynthetic pathway encompassing between 30 and 50 enzymatic steps whose characterisation is still underway. The most recent identifications of genes from this pathway relied on a tobacco rattle virus-based virus-induced gene silencing (VIGS) approach, involving an Agrobacterium-mediated inoculation of plasmids encoding the two genomic components of the virus. As an alternative, we developed a biolistic-mediated approach of inoculation of virus-encoding plasmids that can be easily performed by a simple bombardment of young C. roseus plants. After optimisation of the transformation conditions, we showed that this approach efficiently silenced the phytoene desaturase gene, leading to strong and reproducible photobleaching of leaves. This biolistic transformation was also used to silence a previously characterised gene from the alkaloid biosynthetic pathway, encoding iridoid oxidase. Plant bombardment caused down-regulation of the targeted gene (70%), accompanied by a correlated decreased in MIA biosynthesis (45-90%), similar to results obtained via agro-transformation. Thus, the biolistic-based VIGS approach developed for C. roseus appears suitable for gene function elucidation and can readily be used instead of the Agrobacterium-based approach, e.g. when difficulties arise with agro-inoculations or when Agrobacterium-free procedures are required to avoid plant defence responses.

Summary Virus infections in plants cause changes in host gene expression that are common to other environmental stresses. In this work, we found extensive overlap in the transcriptional responses between Arabidopsis thaliana plants infected with Tobacco rattle virus (TRV) and plants undergoing senescence. This is exemplified by the up-regulation during infection of several senescence-associated Dark-inducible (DIN) genes, including AtDIN1 (Senescence 1, SEN1), AtDIN6 (Asparagine synthetase 1, AtASN1) and AtDIN11. DIN1, DIN6 and DIN11 homologues were also activated in Nicotiana benthamiana in response to TRV and Potato virus X (PVX) infection. Reduced TRV levels in RNA interference (RNAi) lines targeting AtDIN11 indicate that DIN11 is an important modulator of susceptibility to TRV in Arabidopsis. Furthermore, low accumulation of TRV in Arabidopsis protoplasts from RNAi lines suggests that AtDIN11 supports virus multiplication in this species. The effect of DIN6 on virus accumulation was negligible in Arabidopsis, perhaps as a result of gene or functional redundancy. However, TRV-induced silencing of NbASN, the DIN6 homologue in N. benthamiana, compromises TRV and PVX accumulation in systemically infected leaves. Interestingly, NbASN inactivation correlates with the appearance of morphological defects in infected leaves. We found that DIN6 and DIN11 regulate virus multiplication in a step prior to the activation of plant defence responses. We hypothesize on the possible roles of DIN6 and DIN11 during virus infection.

Rice stripe virus (RSV) is the type species of the genus Tenuivirus and represents a major viral pathogen affecting rice production in East Asia. In this study, RSV p2 was fused to yellow fluorescent protein (p2-YFP) and expressed in epidermal cells of Nicotiana benthamiana. p2-YFP fluorescence was found to move to the nucleolus initially, but to leave the nucleolus for the cytoplasm forming numerous distinct bright spots there at later time points. A bimolecular fluorescence complementation (BiFC) assay showed that p2 interacted with fibrillarin and that the interaction occurred in the nucleus. Both the nucleolar localization and cytoplasmic distribution of p2-YFP fluorescence were affected in fibrillarin-silenced N. benthamiana. Fibrillarin depletion abolished the systemic movement of RSV, but not that of Tobacco mosaic virus (TMV) and Potato virus X (PVX). A Tobacco rattle virus (TRV)-based virus-induced gene silencing (VIGS) method was used to diminish RSV NS2 (encoding p2) or NS3 (encoding p3) during RSV infection. Silencing of NS3 alleviated symptom severity and reduced RSV accumulation, but had no obvious effects on virus movement and the timing of symptom development. However, silencing of NS2 abolished the systemic movement of RSV. The possibility that RSV p2 may recruit or manipulate nucleolar functions to promote virus systemic infection is discussed.

ummary The establishment of alternative methods to chemical treatments for growth retardation and pathogen protection in ornamental plant production has become a major goal in recent breeding programmes. This study evaluates the effect of manipulating MAP kinase 4 nuclear substrate 1 (MKS1) expression in Kalanchoe blossfeldiana and Petunia hybrida. The Arabidopsis thaliana MKS1 gene was overexpressed in both species via Agrobacterium-mediated transformation, resulting in dwarfed phenotypes and delayed flowering in both species and increased tolerance to Pseudomonas syringae pv. tomato in transgenic Petunia plants. The lengths of the stems and internodes were decreased, while the number of nodes in the transgenic plants was similar to that of the control plants in both species. The transgenic Kalanchoe flowers had an increased anthocyanin concentration, and the length of the inflorescence stem was decreased. The morphology of transgenic Petunia flowers was not altered. The results of the Pseudomonas syringae tolerance test showed that Petunia plants with one copy of the transgene reacted similarly to the nontransgenic control plants; however, plants with four copies of the transgene exhibited considerably higher tolerance to bacterial attack. Transgene integration and expression was determined by Southern blot hybridization and RT-PCR analyses. MKS1 in wild-type Petunia plants was down-regulated through a virus-induced gene silencing (VIGS) method using tobacco rattle virus vectors. There were no significant phenotypic differences between the plants with silenced MKS1 genes and the controls. The relative concentration of the MKS1 transcript in VIGS-treated plants was estimated by quantitative RT-PCR.

Catharanthus roseus (periwinkle) contains abundant alkaloids and is the only commercial source of two cancer drugs, vinblastine and vincristine. The plant is also used as an experimental host for phytoplasmas because it can be infected by most phytoplasmas and shows distinctive symptoms. Abundant gene sequences for periwinkle have become available through high-throughput transcriptome sequencing, so periwinkle has become an ideal model for studies of alkaloid metabolism and plant–phytoplasma interactions. Tobacco rattle virus (TRV)-based virus-induced gene silencing (VIGS) for functional genomics studies has been established, but the duration of the system was too short for plant–phytoplasma interaction studies. To improve the system, several factors were analysed, including culture temperature, plant age, leaf age, organ preferences and virus distribution, for their effects on VIGS efficacy. A new agroinfiltration method was also used for inoculating entire seedlings. High temperature (30°C) strongly inhibited VIGS, but low temperature (16°C) inhibited plant growth. VIGS efficacy was reduced in old leaves but was not affected by plant age. VIGS occurred in all examined organs, including roots, stems, leaves and flowers, but was most effective in leaves and flowers. The TRV-based system required the existence of TRV2 to maintain gene silencing, so TRV2 concentration may be used as an indicator of successful gene silencing. The optimized VIGS system was useful for studies of plant–phytoplasma interactions and conferred gene silencing for more than 6 months.

Potato tuber necrosis in the form of spraing symptoms is caused by infection with Potato mop-top virus (PMTV) or Tobacco rattle virus (TRV); spraing has become more important in the Swedish potato crop production. In this study, the presence in Sweden of three potato-infecting viruses associated with necrotic symptoms in tubers was demonstrated: PMTV, TRV and Tobacco necrosis virus (TNV). This study shows that both PMTV and TRV are frequent in Swedish potato fields. PMTV was found in all Swedish counties, except the two most northern ones. TRV was present at several locations in southern and up to the central parts of Sweden. Both viruses were found further north than observed in earlier surveys. PMTV and TRV were analysed in tubers with spraing symptoms and it was not possible to decide visually if the symptoms were caused by either PMTV or TRV. Furthermore, a high occurrence of symptomless tuber infections was observed for several potato cultivars. A unique observation from this study was a mixed infection of both PMTV and TRV in tubers of cv. Berber, where no visual differences on symptom development were detectable for these tubers compared to single infections. During the survey, tubers of cv. Melody were found to display necrotic symptoms in the skin that are characteristic for the ABC disease. This suggested infection by TNV, which also could be confirmed.

Eggplant (Solanum melongena) is an economically important vegetable requiring investigation into its various genomic functions. The current limitation in the investigation of genomic function in eggplant is the lack of effective tools available for conducting functional assays. Virus-induced gene silencing (VIGS) has played a critical role in the functional genetic analyses. In this paper, TRV-mediated VIGS was successfully elicited in eggplant. We first cloned the CDS sequence of PDS (PHYTOENE DESATURASE) in eggplant and then silenced the PDS gene. Photo-bleaching was shown on the newly-developed leaves four weeks after agroinoculation, indicating that VIGS can be used to silence genes in eggplant. To further illustrate the reliability of VIGS in eggplant, we selected Chl H, Su and CLA1 as reporters to elicit VIGS using the high-pressure spray method. Suppression of Chl H and Su led to yellow leaves, while the depletion of CLA1 resulted in albino. In conclusion, four genes, PDS, Chl H, Su (Sulfur), CLA1, were down-regulated significantly by VIGS, indicating that the VIGS system can be successfully applied in eggplant and is a reliable tool for the study of gene function.

The plant receptor-like kinase somatic embryogenesis receptor kinase 3 (SERK3)/brassinosteroid insensitive 1-associated kinase 1 (BAK1) is required for pathogen-associated molecular pattern (PAMP)-triggered immunity (PTI). Here we show that a distinct member of the SERK family, SERK1, is required for the full functioning of Mi-1, a nucleotide binding leucine-rich repeat (NB-LRR) resistance protein. Mi-1 confers resistance to Meloidogyne spp. (root-knot nematodes, RKNs) and three phloem-feeding insects, including Macrosiphum euphorbiae (potato aphid). SERK1 was identified in a tobacco rattle virus (TRV)-based virus-induced gene silencing (VIGS) screen in Nicotiana benthamiana. The screen was based on the suppression of a pest-independent hypersensitive response triggered by a constitutively active form of Mi-1, Mi-DS4. To assess the role of SERK1 in Mi-1-mediated resistance, Solanum lycopersicum (tomato) SlSERK genes were cloned. Three SlSERK members were identified with homologies to Arabidopsis AtSERK1 or AtSERK3/BAK1, and were named SlSERK1, SlSERK3A and SlSERK3B. SlSERK1 is ubiquitously expressed in tomato. Reducing SlSERK1 transcript levels in resistant plants, using gene-specific TRV-SERK1 VIGS, revealed a role for SlSERK1 in Mi-1-mediated resistance to potato aphids, but not to RKNs. In addition, Mi-1-dependent SlWRKY72 gene regulation was compromised in SlSERK1-silenced plants, placing SlSERK1 in the Mi-1 signaling pathway. Silencing SlSERK1 in a susceptible tomato background did not reduce the susceptibility to aphids, indicating that SlSERK1 is unlikely to be an essential virulence target. SlSERK1 is an active kinase, mainly localized at the plasma membrane. This work identifies a critical early component of Mi-1 signaling, and demonstrates a role for SlSERK1 in NB-LRR-mediated immunity.

Virus-induced gene silencing (VIGS) is one of the commonly used RNA silencing methods in plant functional genomics. It is widely known that VIGS can occur for about 3 weeks. A few reports show that duration of VIGS can be prolonged for up to 3 months. Increasing the duration of endogenous gene silencing and developing a method for nonintegration-based persistent VIGS in progeny seedlings will widen the application of VIGS. We used three marker genes that provoke visible phenotypes in plants upon silencing to study persistence and transmittance of VIGS to progeny in two plant species, Nicotiana benthamiana and tomato. We used a Tobacco rattle virus (TRV)-based VIGS vector and showed that the duration of gene silencing by VIGS can occur for more than 2 years and that TRV is necessary for longer duration VIGS. Also, inoculation of TRV-VIGS constructs by both Agrodrench and leaf infiltration greatly increased the effectiveness and duration of VIGS. Our results also showed transmittance of VIGS to progeny seedlings via seeds. A longer silencing period will facilitate detailed study of target genes in plant development and stress tolerance. Further, the transmittance of VIGS to progeny will be useful in studying the effect of gene silencing in young seedlings. Our results provide a new dimension for the application of VIGS in plants.

Summary Arable weeds are believed to sustain disease outbreaks of the potato crop pathogen Tobacco Rattle Virus (TRV), which is particularly well-known for the costly damage it may cause to potato tubers. We describe a TRV-specific TaqManbased molecular-diagnostic quantitative RT-PCR method which showed that ecotypes of the widespread and common weed Cap- sella bursa-pastoris (shepherds purse) are highly sus- ceptible to TRV infection and may be suitable as indicator species of TRV presence in situ. Soils from two sites (S1 and S2), previously diagnosed as harbour- ing high levels of TRV, were the subjects of infection tests using C. bursa-pastoris and the susceptible model bait species Petunia x hybrida. TRV infection was only detected in all S1-soil, but in none of the plants grown in S2-soil. S1 soil had been treated annually with nemati- cide and herbicide, whilst continuing to cultivate TRV susceptible crops. S2 soil had been farmed for 5 years without the application of synthetic pesticides according to organic standards and had been sown with non-TRV susceptible crops in three out of the 5 years of the rotation. Our observations led us to question the current recommendations that: Weed control is important. Organic practices and set-aside may facilitate the re-introduction of TRV and ⁄ or the increase the distri- bution of the virus within a field. We suggest that more effective and less environmentally damaging crop pro- tection can be achieved using rotations that employ non- susceptible crops, in concert with management strategies that encourage crop-weed co-existence.

SUMMARY The tobraviruses, Tobacco rattle virus (TRV), Pea early-browning virus (PEBV) and Pepper ringspot virus (PepRSV), are positive-strand RNA viruses with rod-shaped virus particles that are transmitted between plants by trichodorid nematodes. As a group, these viruses infect many plant species, with TRV having the widest host range. Recent studies have begun to dissect the interaction of TRV with potato, currently the most commercially important crop disease caused by any of the tobraviruses. As well as being successful plant pathogens, these viruses have become widely used as vectors for expression in plants of nonviral proteins or, more frequently, as initiators of virus-induced gene silencing (VIGS). Precisely why tobraviruses should be so effective as VIGS vectors is not known; however, molecular studies of the mode of action of the tobravirus silencing suppressor protein are shedding some light on this process.

Optical plant characteristics are important cues to plant-feeding insects. In this article, we demonstrate for the first time that silencing the phytoene desaturase (PDS) gene, encoding a key enzyme in plant carotenoid biosynthesis, affects insect oviposition site selection behaviour. Virus-induced gene silencing employing tobacco rattle virus was used to knock down endogenous PDS expression in three plant species (Arabidopsis thaliana, Brassica nigra and Nicotiana benthamiana) by its heterologous gene sequence from Brassica oleracea. We investigated the consequences of the silencing of PDS on oviposition behaviour by Pieris rapae butterflies on Arabidopsis and Brassica plants; first landing of the butterflies on Arabidopsis plants (to eliminate an effect of contact cues); first landing on Arabidopsis plants enclosed in containers (to eliminate an effect of volatiles); and caterpillar growth on Arabidopsis plants. Our results show unambiguously that P. rapae has an innate ability to visually discriminate between green and variegated green-whitish plants. Caterpillar growth was significantly lower on PDS-silenced than on empty vector control plants. This study presents the first analysis of PDS function in the interaction with an herbivorous insect. We conclude that virus-induced gene silencing is a powerful tool for investigating insect-plant interactions in model and nonmodel plants.

A Tobacco rattle virus (TRV)-based virus-induced gene silencing (VIGS) system was employed to investigate the role of the tomato ethylene receptor ETR4. By comparing wilting symptoms of verticillium wilt in wild-type, ethylene-insensitive Never ripe (Nr) mutant tomato plants and ETR4-silenced plants, it was demonstrated that disease severity in the Nr and ETR4-silenced plants was statistically reduced compared to wild-type plants. Disease incidence and severity were reduced by 11 and 20%, respectively, in the Nr plants compared to the wild-type plants, at 33 days post-inoculation (d.p.i.). In the ETR4-silenced plants, disease incidence and severity were reduced by 14 and 15%, respectively, compared to the TRV-only-inoculated plants, at 37 d.p.i. Quantification of Verticillium dahliae by qPCR revealed that the reduction in symptom severity in the Nr plants was associated with significant reduction of growth of the pathogen in the vascular tissues of the Nr plants compared to that in the wild-type plants, suggesting that impaired perception of ethylene via the Never-ripe receptor results in increased disease resistance. Fungal reduction was evident at each sampling day in the Nr plants, ranging from 1·5 to 1·75 times less than that in the wild-type plants. Fungal quantification in the ETR4-silenced and TRV-only-inoculated plants showed similar levels of fungal biomass.

A multiplex reverse transcriptase polymerase chain reaction (RT-PCR) assay was developed using published primers to simultaneously detect three viruses infecting potato (Potato yellow vein virus, Tomato infectious chlorosis virus and Tobacco rattle virus), including an internal amplification control. The characteristics of the published primers were analysed to see if they could be used for multiplex RT-PCR. Amplification of the three target viruses and a plant internal control was then optimized by adding bovine serum albumin during cDNA synthesis, increasing the PCR extension time, reducing the PCR extension temperature and optimizing the concentration of each pair of primers. This optimization produced a multiplex assay with a detection sensitivity of the same order as simplex RT-PCR. This approach provides a simple and convenient way to develop multiplex assays using published primers directly rather than designing new primers. The multiplex RT-PCR is a sensitive and cost-effective method for detecting multiple viruses in potato and can be used for quarantine and certification programmes.

Virus vectors carrying host-derived sequence inserts induce silencing of the corresponding genes in infected plants. This virus-induced gene silencing (VIGS) is a manifestation of an RNA-mediated defence mechanism that is related to post-transcriptional gene silencing (PTGS) in transgenic plants. Here we describe an infectious cDNA clone of tobacco rattle virus (TRV) that has been modified to facilitate insertion of non-viral sequence and subsequent infection to plants. We show that this vector mediates VIGS of endogenous genes in the absence of virus-induced symptoms. Unlike other RNA virus vectors that have been used previously for VIGS, the TRV construct is able to target host RNAs in the growing points of plants. These features indicate that the TRV vector will have wide application for gene discovery in plants.

A xyloglucan-specific endo-beta-1,4-glucanase inhibitor cDNA, NbXEGIP1, was amplified from diseased leaves of Nicotiana benthamiana. The sequence was similar to the tomato xyloglucan-specific endo-beta-1,4-glucanase inhibitor (XEGIP) and tobacco nectarin IV genes that have been described as binding and inactivating fungal Family 12 xyloglucan-specific endo-beta-1,4-glucanases. Expression of NbXEGIP1 was not detected in healthy leaves, but the gene was induced during the later stages of infection by the fungi Colletotrichum destructivum and C. orbiculare. Induction of NbXEGIP1 also occurred during disease development by the bacterium Pseudomonas syringae pv. tabaci and during the hypersensitive response produced by P. syringae pv. tabaci expressing avrPto. A portion of NbXEGIP1 was cloned into a tobacco rattle virus vector for virus-induced gene silencing in N. benthamiana. Silencing NbXEGIP1 did not affect the interactions with either Colletotrichum species but did significantly reduce population levels of P. syringae pv. tabaci in the compatible interaction and P. syringae pv. tabaci expressing avrPto in the incompatible interaction. In the susceptible response to P. syringae pv. tabaci, silencing of NbXEGIP1 also resulted in visibly wilted leaves several hours prior to necrosis, which was not observed in control plants. This was related to a significantly higher level of electrolyte leakage and higher expression of a defensin gene from infected NbXEGIP1-silenced leaves compared with control leaves. Silencing appeared to be specific as it did not affect expression of a related gene, NbXEGIP2. NbXEGIP1 may act as an inhibitor of a bacterial enzyme that degrades the xyloglucan-cellulose plant cell-wall network, and degradation of the cell wall results in host membrane disruption and signalling of defence responses.

Virus-induced gene silencing (VIGS) is a useful technique for rapid plant gene function analysis. We recently reported a new VIGS vector modified from Tomato yellow leaf curl China virus (TYLCCNV) DNAβ (DNAmβ). In this study we compared in detail DNAmβ-induced gene silencing in four Nicotiana species including N. benthamiana, N. glutinosa, N. tabacum and N. paniculata. We found that DNAmβ-induced gene silencing in the four species was distinct in developing dynamics, tissue specificity, efficiency, and constancy in the plant life span. It was most efficient in N. benthamiana, where development of VIGS was most rapid, without tissue specificity and nearly 100% efficient. DNAmβ-induced gene silencing in N. glutinosa was also efficient despite being slightly less than in N. benthamiana. It initially occurred in veins, later was scattered to mesophyll, finally led to complete silencing in whole leaves. In both species, VIGS constantly expressed until the plants died. However, DNAmβ-mediated VIGS in the other two Nicotiana species, N. tabacum and N. paniculata, was significantly less efficient. It was strictly limited within the veins of the silenced leaves, and constantly occurred only over 3–4 weeks. The upper leaves that emerged later stopped showing the silencing phenotype. DNAmβ-induced gene silencing in N. benthamiana and N. glutinosa was not significantly influenced by the growth stage when the plants were agro-inoculated, and was not sensitive to high growth temperature up to 32 °C. Our results indicate that this system has great potential as a versatile VIGS system for routine functional analysis of genes in some Nicotiana species.

Non-host resistance is the most general form of disease resistance in plants because it is effective against most phytopathogens. The importance of hypersensitive responses (HRs) in non-host resistance of Nicotiana species to the oomycete Phytophthora is clear. INF1 elicitin, an elicitor obtained from the late-blight pathogen Phytophthora infestans, is sufficient to induce a typical HR in Nicotiana species. The molecular mechanisms that underlie the non-host resistance component of plant defence responses have been investigated using differential-display polymerase chain reaction (PCR) in a model HR system between INF1 elicitin and tobacco BY-2 cells. Differential-display PCR has revealed that Cdc27B is down-regulated in tobacco BY- 2 cells after treatment with INF1 elicitin. Cdc27B is one of 13 essential components of the anaphase- promoting complex or cyclosome ( APC/ C)-type E3 ubiquitin ligase complex in yeast. This APC/C-type E3 ubiquitin ligase complex regulates G2-to-M phase transition of the cell cycle by proteolytic degradation. In this study, we investigated the roles of this gene, NbCdc27B, in plant defence responses using virus-induced gene silencing. Suppression of NbCdc27B in Nicotiana benthamiana plants induced defence responses and a gain of resistance to Colletotrichum lagenarium fungus. Elicitin-induced hypersensitive cell death (HCD) was inhibited mildly in plants silenced with tobacco rattle virus:: Cdc27B. Cdc27B could manage the signalling pathways of plant defence responses as a negative regulator without HCD.

Prohibitins, highly conserved mitochondrial proteins, have been shown to play important roles in cell cycling and senescence in animals and yeast. Sequences with high similarity to prohibitins have been identified in a number of plant species, but their function has not yet been demonstrated. The deduced amino acid sequences of PhPHB1 and PhPHB2, sequences that we identified in a petunia floral expressed sequence tag (EST) database, show high similarity to those of prohibitin-1 and prohibitin-2 proteins, respectively, reported from yeast, animals and plants. Southern analysis suggested that these genes were members of small gene families with at least two prohibitin-1 homologs and four prohibitin-2 homologs. When we downregulated expression of prohibitin-1 using a Tobacco rattle virus-based (TRV), virus-induced gene silencing system (VIGS), we observed plants with smaller and distorted leaves and flowers. Cells in silenced flowers were larger than in control flowers, indicating a substantial reduction in the number of cell divisions that took place during corolla development. The life of silenced flowers was shorter than that of controls, whether on the plant or detached. The respiration of silenced flowers was higher than that of controls, and we observed a marked increase in the abundance of transcripts of a catalase and a small heat-shock protein in the silenced flowers. Our data indicate that prohibitins play a key role in plant development and senescence.

Virus-induced gene silencing (VIGS) is an attractive method for assaying gene function in species that are resistant to conventional genetic approaches. However, VIGS has been shown to be effective in only a few, closely related plant species. Tobacco rattle virus (TRV), a bipartite RNA virus, has a wide host range and so in principle could serve as an efficient vector for VIGS in a diverse array of plant species. Here we show that a vector based on TRV sequences is effective at silencing the endogenous phytoene desaturase (PapsPDS) gene in Papaver somniferum (opium poppy). We show that this vector does not compromise the growth or reproduction of poppy and the plants did not display viral symptoms. The silencing of PapsPDS resulted in a significant reduction in PapsPDS mRNA and a concomitant photobleached phenotype. The ability to rapidly assay gene function in P. somniferum will be valuable in manipulation of the opiate pathway in this pharmaceutically important species. We suggest that our vacuum infiltration method used to deliver TRV-based vectors into poppy is a promising approach for expanding VIGS to diverse angiosperm species in which traditional delivery methods fail to induce VIGS. Furthermore, these studies demonstrate the utility of TRV-VIGS for probing gene function in a basal eudicot species that is phylogenetically distant from model plant species.

Virus-induced gene silencing (VIGS) is a powerful tool for the study of gene function in plants. Here we report that either by syringe-infiltrating the tobacco rattle virus (TRV)-vector into the surface, stem or carpopodium of a tomato fruit attached to the plant or by vacuum-infiltrating into a tomato fruit detached from the plant, TRV can efficiently spread and replicate in the tomato fruit. Although VIGS can be performed in tomato fruit by all of the means mentioned above, the most effective method is to inject the TRV-vector into the carpopodium of young fruit attached to the plant about 10 days after pollination. Several reporter genes related to ethylene responses and fruit ripening, including LeCTR1 and LeEILs genes, were also successfully silenced by this method during fruit development. In addition, we found that the silencing of the LeEIN2 gene results in the suppression of tomato fruit ripening. The results of our study indicate that the application of VIGS techniques by the described methods can be successfully applied to tomato fruit and is a valuable tool for studying functions of the relevant genes during fruit developing.

Infection of several commercially important potato cultivars with Tobacco rattle virus (TRV) can result in systemic infection with M-type virus, which persists through generations of vegetative propagation, although spraing symptoms in the tubers rarely develop. In field trials of nine such cultivars it was shown that TRV infection can delay plant emergence and retard subsequent growth, reduce tuber yield and mean tuber weight, increase tuber numbers and the proportion of small tubers, increase the incidence of growth cracks and misshapen tubers, diminish dry matter content, and exacerbate after-cooking blackening. Each cultivar was affected differently, showing different combinations and degrees of these effects. Virus concentration in leaf extracts from individual plants was also highly variable. These, and other potato cultivars similarly susceptible to TRV, are grown on large areas of UK and European potato land. The implications of growing such cultivars for the seed, ware and processing sectors of the potato industry are discussed.

Summary Virus-induced gene silencing (VIGS) is an extremely powerful tool for plant functional genomics. We used Tobacco rattle virus (TRV)-derived VIGS vectors expressed from binary vectors within Agrobacterium to induce RNA silencing in plants. Leaf infiltration is the most common method of agroinoculation used for VIGS but this method has limitations as it is laborious for large-scale screening and some plants are difficult to infiltrate. Here we have developed a novel and simple method of agroinoculation, called 'agrodrench', where soil adjacent to the plant root is drenched with an Agrobacterium suspension carrying the TRV-derived VIGS vectors. By agrodrench we successfully silenced the expression of phytoene desaturase (PDS), a 20S proteasome subunit (PB7) or Mg-protoporphyrin chelatase (Chl H) encoding genes in Nicotiana benthamiana and in economically important crops such as tomato, pepper, tobacco, potato, and Petunia, all belonging to the Solanaceae family. An important aspect of agrodrench is that it can be used for VIGS in very young seedlings, something not possible by the leaf infiltration method, which usually requires multiple fully expanded leaves for infiltration. We also demonstrated that VIGS functioned to silence target genes in plant roots. The agrodrench method of agroinoculation was more efficient than the leaf infiltration method for VIGS in roots. Agrodrench will facilitate rapid large-scale functional analysis of cDNA libraries and can also be applied to plants that are not currently amenable to VIGS technology by conventional inoculation methods.

Virus-induced gene silencing (VIGS) has been used routinely in Nicotiana benthamiana to assess functions of candidate genes and as a way to discover new genes required for diverse pathways, especially disease resistance signalling. VIGS has recently been shown to work in Arabidopsis thaliana and in tomato. Here, we report that VIGS using the tobacco rattle virus (TRV) viral vector can be used in several Solanum species, although the choice of vector and experimental conditions vary depending on the species under study. We have successfully silenced the phytoene desaturase (PDS) gene in the diploid wild species Solanum bulbocastanum and S. okadae, in the cultivated tetraploid S. tuberosum and in the distant hexaploid relative S. nigrum (commonly known as deadly nightshade). To test whether the system could be utilised as a rapid way to assess gene function of candidate resistance (R) genes in potato and its wild relatives, we silenced R1 and Rx in S. tuberosum and RB in S. bulbocastanum. Silencing of R1, Rx and RB successfully attenuated R-gene-mediated disease resistance and resulted in susceptible phenotypes in detached leaf assays. Thus, the VIGS system is an effective method of rapidly assessing gene function in potato.

The tobacco N gene, a member of the Toll-interleukin 1 homology region/nucleotide binding site/leucine-rich repeat (TIR-NBS-LRR) class of resistance (R) genes, confers resistance to tobacco mosaic virus (TMV). We used a candidate gene approach to identify known defense genes that were also involved in N signaling. The requirement for these genes was determined by downregulating their expression using the well-established tobacco rattle virus (TRV)-based virus-induced gene silencing (VIGS). Silencing of genes encoding a mitogen-activated protein kinase (MAPK) NTF6/NRK1, or an MAPK kinase (MAPKK) MEK1/NQK1, attenuated N-mediated resistance to TMV. We also found that N resistance is compromised in plants in which expression of WRKY1-WRKY3 and MYB1 transcription factors were downregulated. In addition, suppression of jasmonic acid (JA) signaling component COI1 ortholog affected N function. However, downregulation of expression of CTR1 ortholog leads to more rapid hypersensitive response (HR). The involvement of these genes in N- and other R-gene-mediated defense provides further evidence for the convergence of downstream signaling pathways of different R genes.

An isolate of Tobacco rattle virus (TRV) obtained from a site in the Netherlands induced symptoms of spraing disease in tubers of the potato variety Bintje, which is generally considered to be resistant to infection by TRV. The isolate contained two phenotypically distinguishable RNA-1 variants, one of which was shown to carry the determinant for the ability to cause spraing in cv. Bintje. The nucleotide sequence of the coding region of this RNA-1 was determined and found to differ at 5.2–5.4% of positions from other TRV RNA-1 sequences in the database. The amino acid sequences of the predicted translation products were between 92 and 99% identical to those of a TRV RNA-1 that did not cause spraing in cv. Bintje, with P1b being the most divergent and the replicase read-through domain the least.

Several Paratrichodorus and Trichodorus (trichodorid) nematode species are natural vectors of Tobacco rattle virus (TRV) and cause economically important diseases, especially in potato and ornamental bulbous crops. Identification of trichodorid species based on morphological characters is laborious, time-consuming, and requires the services of highly trained personnel. Molecular diagnostics for trichodorid nematodes, using the ribosomal DNA repeat unit, were successfully developed to distinguish two Paratrichodorus and two Trichodorus species. The complete sequences of the 18S genes and the ITS-1 regions for these species were obtained and species-specific primers successfully designed for them. An RT-PCR assay was developed utilizing isolate-specific primers that amplify serologically distinguishable strains of TRV in individual trichodorid nematodes. The primers were based on the highly conserved RNA-1 segment of the bipartite genome and also on different parts of the RNA-2 segment of the virus genome.

Summary Early studies of the tobravirus Tobacco rattle virus (TRV) described two types of virus isolate with apparently different disease characteristics. M-type isolates, which contain both viral genomic RNAs and form virus particles, could be passaged by mechanical inoculation and produced rapid but shortlived systemic symptoms. In contrast, NM-type isolates, which contain only RNA1 and do not form virus particles, were difficult to passage by mechanical inoculation and were very slow to produce systemic symptoms. From the early observations on such isolates made in the 1960s, it has become accepted that M isolates with encapsidated TRV particles move rapidly through the vascular system whereas NM isolates containing only unencapsidated TRV RNA1 move only slowly via plasmodesmata from cell to cell and take many weeks to reach the upper parts of plants. However, we show that NM isolates of TRV and another tobravirus Pea early-browning virus (PEBV) move into systemic tissue of TV. benthamiana and N. clevelandii by 6 days post inoculation, suggesting that this rapid movement occurs via the vasculature. The systemic movement of TRV and PEBV mutants lacking functional coat protein that have been modified to express the green fluorescent protein were examined by confocal microscopy. This confirmed that the tobraviruses do not require the CP for long distance movement via the phloem, a property that is shared with only a small group of plant viruses.

We have previously demonstrated that a tobacco rattle virus (TRV)-based vector can be used in virus-induced gene silencing (VIGS) to study gene function in Nicotiana benthamiana. Here we show that recombinant TRV infects tomato plants and induces efficient gene silencing. Using this system, we suppressed the PDS, CTR1 and CTR2 genes in tomato. Suppression of CTR1 led to a constitutive ethylene response phenotype and up-regulation of an ethylene response gene, CHITINASE B. This phenotype is similar to Arabidopsis ctr1 mutant plants. We have constructed a modified TRV vector based on the GATEWAY recombination system, allowing restriction- and ligation-free cloning. Our results show that tomato expressed sequence tags (ESTs) can easily be cloned into this modified vector using a single set of primers. Using this vector, we have silenced RbcS and an endogenous gene homologous to the tomato EST cLED3L14. In the future, this modified vector system will facilitate large-scale functional analysis of tomato ESTs.

The tobacco N gene confers resistance to tobacco mosaic virus (TMV) and encodes a Toll-interleukin-1 receptor/nucleotide binding site/leucine-rich repeat (TIR-NBS-LRR) class protein. We have developed and used a tobacco rattle virus (TRV) based virus induced gene silencing (VIGS) system to investigate the role of tobacco candidate genes in the N-mediated signalling pathway. To accomplish this we generated transgenic Nicotiana benthamiana containing the tobacco N gene. The transgenic lines exhibit hypersensitive response (HR) to TMV and restrict virus spread to the inoculated site. This demonstrates that the tobacco N gene can confer resistance to TMV in heterologous N. benthamiana. We have used this line to study the role of tobacco Rar1-, EDS1-, and NPR1/NIM1- like genes in N-mediated resistance to TMV using a TRV based VIGS approach. Our VIGS analysis suggests that these genes are required for N function. EDS1-like gene requirement for the N function suggests that EDS1 could be a common component of bacterial, fungal and viral resistance signalling mediated by the TIR-NBS-LRR class of resistance proteins. Requirement of Rar1- like gene for N-mediated resistance to TMV and some powdery mildew resistance genes in barley provide the first example of converging points in the disease resistance signalling pathways mediated by TIR-NBS-LRR and CC-NBS-LRR proteins. The TRV based VIGS approach as described here to study N-mediated resistance signalling will be useful for the analysis of not only disease resistance signalling pathways but also of other signalling pathways in genetically intractable plant systems.

Hypersensitive reactions to plant diseases are typically mediated by R genes. Many R genes that have been cloned only confer resistance to a particular pathogen. However, Chenopodium spp. have multivirus hypersensitive resistance, thus making the understanding of this broad-spectrum resistance mechanism attractive. Using tobacco mosaic virus (TMV) tagged with green fluorescent protein to follow infection over time, cDNA-AFLP to find genes up-regulated during virus infection in C. amaranticolor and quantitative RT-PCR to accurately measure gene expression at different time points, the first dissection of this significant defense response pathway is presented. The detected disease-expressed sequences in C. amaranticolor (DESCA) are similar to those that encode p450 monooxegenases, hypersensitivity-related genes, cellulases, ABC transporters, receptor-like kinases, serine/threonine kinases, phosphoribosylanthranilate transferases and hypothetical R genes, many of which are associated with pathogen defense in other plants. The expressions of these DESCA genes are also induced by infection with the taxonomically distinct tobacco rattle virus (TRV) in C. amaranticolor. In particular, DESCA1, one of the gene fragments from C. amaranticolor that lacks similarity to any other sequence in the GenBank database, is induced at least 200 fold 4 d after infection (dai) by both TMV and TRV. The potential role of DESCA genes in a C. amaranticolor multivirus defense response with regard to their levels and time of gene expression is discussed.

The RNA2 of the tobacco rattle virus (TRV) isolate ‘Rostock’ (TRV-R), and the coat protein gene (CP) of TRV isolate ‘Mirow’ (TRV-M) were sequenced. Both were isolated from potato. Sequence analysis revealed a 5′ noncoding-region (NCR) and a CP gene, which are among the shortest of any tobravirus RNA2 sequenced so far. Downstream of the CP open reading frame (ORF) there was an ORF for a 8 k protein, that is probably a truncated 9 k protein, followed by an ORF for a 16 k protein and the 3′ NCR. The 16 k protein and the 3′ NCR showed a considerable sequence identity with the 3′ end of TRV RNA1 and RNA2 from other TRV isolates. The high identity in the amino acid sequences of the CPs from TRV-R and TRV-M as well as other TRV isolates suggested that they are related to the TCM group of the genus Tobravirus and belong serologically to the RQ-serotype. This could be confirmed using a rabbit antiserum that was prepared against recombinant TRV-R CP expressed in bacteria. This serum was found to be suitable for differentiation of TRV-isolates.

Tobacco rattle virus (TRV) was detected by PCR in potato tubers and in root samples. Oligonucleotide primers were synthesized to nucleotides of the 16 k protein gene of RNA-1 of the TRV strain ‘SYM’. After phenol extraction of the total nucleic acids of the samples and reverse transcription. the PCR reaction mixture was subjected to 25 cycles and the amplification product was detected by electrophoresis. TRV RNA was found in roots and in freshly harvested tubers in September, as well as in tubers which were stored until March. This indicates that there was no elimination of TRV during the storage period. The field samples of potato cv. Desiree tested in September were symptomlessly infected. whereas the stored tubers of various cultivars showed, internal symptoms. Nucleic acids extracts of latently-infected and spraing-affected tubers inoculated on tobacco plants led to local necrotic rings. Nucleic acids from infected tobacco cv. Samsun plants led to systemic symptoms as well. TRV was identified by ISEM and ELISA only in the systemically-infected tobacco plants, but not in the locally infected tobacco plants. This suggests the presence of the ‘NM’ type of TRV in tubers, which produces only RNA-1 but no complete virus particles.

Summary Virus transmission bait tests with single trichodorid nematodes from England, the Netherlands, Scotland or Sweden showed that a substantial degree of specificity occurs between trichodorid vector species and tobravirus serotypes. This specificity was more apparent with associations between Paratrichodorus vector species and tobravirus serotypes than with those between Trichodorus species and tobravirus serotypes. P. pachydermus transmitted PRN-serotype tobacco rattle virus (TRV) isolates, P. teres ORE-serotype isolates and P. anemones TRV isolates which did not react with any of the antisera used, but which could be distinguished from all other isolates by their symptomatology in Chenopodium test plants. T. viruliferus, T. primitivus and T. cylindricus transmitted RQ-serotype isolates and the latter species also transmitted TRV isolates reacting with TCB2 and pea early-browning SP5-antisera. Several TRV isolates transmitted by T. cylindricus failed to react with any of the antisera used.

Systemic acquired resistance (SAR) was induced in asparagus bean following inoculation with tobacco necrosis virus (TNV) or tobacco rattle virus (TRV), viruses that produce a hypersensitive reaction in this plant. SAR was expressed against challenge by TNV as reduction in lesion size, but not as inhibition of viral antigen accumulation. Systemic stimulation of ethylene-forming enzyme (EFA) activity, in the absence of any ethylene increase or 1-aminocyclopropane-1-carboxylic acid (ACC) accumulation, was associated with SAR. Formation of local necrotic lesions was necessary for both induction of SAR and stimulation of EFA, because early removal of inducer leaves prevented both events. SAR was expressed at rather constant level between 7 and 12 days after inducing infection. EFA stimulation declined with time and was no longer detected 7 days after inducing infection. SAR was not expressed against cucumber mosaic virus, that infect asparagus bean systemically. Prior inoculation with TNV or TRV was ineffective to reduce CMV antigen content or to minimize the pathogenic effect of this virus in systemically infected leaves.

Virus-induced gene silencing (VIGS) is a fast but transient method for knocking down expression of endogenous genes in plants. Replicating plant viruses activate a defense mechanism called post-transcriptional gene silencing (PTGS), which protects the plant by silencing viral transcripts. VIGS of endogenous genes is accomplished by inserting a gene of interest into a viral vector. When the virus replicates in the plant, PTGS silences both the viral genome and the corresponding endogenous gene. The most robust and widely implemented VIGS system uses tobacco rattle virus (TRV) vectors and N. benthamiana as the plant host. This unit will explain how to introduce TRV-based VIGS vectors into N. benthamiana plants by two methods: syringe infiltration or the Agrobacterium drench method. Furthermore, it will provide two alternate protocols optimized for VIGS in tomato plants: spray inoculation and vacuum infiltration.

Freesias are popular garden plants in the family Iridaceae. Freesia spp. have been reported to be infected by various viruses: Bean yellow mosaic virus , Freesia mosaic virus , Cucumber mosaic virus , Tobacco rattle virus (Brunt, 1995) and ophioviruses (Vaira et al ., 2006). In April 2007, leaf samples showing chlorotic streaks were collected from Kangra region of Northern India. These samples were tested for the presence of potyviruses using an indirect ELISA kit (Agdia) as per the manufacturer’s instructions. A positive result was obtained from one of the ten collected samples. Total RNA was extracted from this positive leaf sample using RNAqueous® RNA isolation kit (Ambion). RT-PCR was performed with a degenerate potyvirus primer pair (P9502 & CPUP), which amplifies the partial coat protein (CP) gene and 3 ′ -UTR region of the viral genome (Van der Vlugt et al ., 1999). An amplicon of ~650 bp was obtained, which was cloned into pGEM®-T Easy vector (Promega) and sequenced. Analysis showed that the sequence shared 98% identity with the only sequence of the tentativelynamed Spiranthes mosaic virus 2 (SpMV2; GenBank Accession No. AY685219), reported from Spiranthes cernua in USA (Guaragna et al ., 2006). In order to sequence the full CP gene, primers were designed using the available SpMV2 sequence. The complete CP gene and 3 ′ -UTR was amplified, cloned and sequenced. A sequence of 1026 bp was submitted to the EMBL Database (Accession No. AM748701). This sequence showed 97% identity with a partial sequence (429 bp) of Freesia mosaic virus (FreMV; EF203688) obtained from a Dutch Freesia isolate, this short sequence is the only one available for FreMV. The Indian isolate showed less than 86% homology at the amino acid level with any other potyvirus. A host range study using the Indian isolate was carried out using Freesia and Spiranthes spp. The isolate could not be transmitted to the orchid; but it did infect Freesia , showing mild chlorotic symptoms, typical of FreMV infection. Based on the biological and sequence data, the present isolate has been identified as FreMV. This study also supports the case that SpMV2 is in fact an isolate/strain of FreMV, rather than being a distinct virus. This is the first report of FreMV in India.

SGT1 associates with suppressor of kinetochore protein (Skp1)-Cullin-F-box (SCF)–ubiquitin-ligase complexes playing important roles in controlling developmental processes and defense responses in plants, yeast, and human. In this study, full-length cDNAs of Sgt1 and Skp1 orthologues were isolated from pepper (Capsicum annuum L.) to characterize their functions. Protein sequences of CaSgt1 and CaSkp1 showed high degrees of similarities with their homologues in other plant species. Southern blot analyses revealed that CaSgt1 was a single copy gene in the pepper genome, whereas CaSkp1 corresponded to multi copy genes. Levels of CaSgt1 and CaSkp1 mRNAs increased in pepper leaves in response to incompatible pathogen challenge or salicylic acid treatment. Silencing of CaSgt1 or CaSkp1 using Tobacco rattle virus-based virus-induced gene-silencing (VIGS) system resulted in severe dwarfism and final damping-off symptom in the greenhouse. To identify factors determining damping-off symptom in CaSgt1- or CaSkp1-silenced plants, we employed VIGS under sterile conditions. Under such conditions, damping-off symptom was not observed suggesting that CaSgt1 and CaSkp1 play an essential role in plant growth and development as well as basal disease resistance in pepper plant.

Gladiolus ( Gladiolus grandiflorous ) is cultivated for its cut flowers in many countries worldwide, including India, where plants are commonly infected with Bean yellow mosaic virus (BYMV) and/or Cucumber mosaic virus (CMV). Also reported in gladiolus in different parts of the world, but limited in distribution, are Tobacco ringspot virus (TobRSV), Tomato ringspot virus (TomRSV), Tomato black ring virus (TBRV), Arabis mosaic virus (ArMV), Strawberry latent ringspot virus (SLRV), Tobacco rattle virus (TRV) and Tomato spotted wilt virus (TSWV) (Stein, 1995). During a survey for viruses infecting gladiolus in Palampur, some plants of 22 cultivars exhibited flower colour-break symptoms, whereas others were symptomless. When indexed by ELISA using specific antibodies to BYMV (obtained from Sanofi, France) (Katoch et al ., 2002), these plants were shown to be infected with BYMV. However, symptomless plants of gladiolus cv. Yellow Supreme, when indexed by DAS-ELISA using antibodies to TobRSV (obtained from Agdia Inc, Elkhart, IN, USA), were shown to be infected with TobRSV. Sap from these symptomless TobRSV-infected gladioli induced necrotic local lesions 7‐10 days after inoculation followed by systemic leaf malformation characteristic of TobRSV (Brunt et al. , 1996) in mechanically inoculated Nicotiana clevelandii and Vigna unguiculata seedlings. The presence of TobRSV in these plants was confirmed by DAS-ELISA.

SUMMARY A virus obtained from soil in which potato plants had shown severe spraing symptoms induced symptoms on indicator plants typical of tobacco rattle virus (TRY). Purified virus preparations of a local-lesion isolate contained particles of two modal lengths, 192 nm and 94 nm containing RNA molecules of mol. wt 2.4 × 106 and 1.23 × 106. Virus coat protein had a mol. wt of c. 21 500. The virus was serologically distantly related to TRY (SYM) and pea early browning virus (PEBV) SP5, but did not react with TRY (CAM) or TRY (PRN) antisera. However, cDNA hybridisation indicated that the virus was more closely related to TRY (PRN) than either TRY (SYM) or PEBV (SP5). The virus isolate has been designated TRY (NI).

Localized infections produced by tobacco necrosis virus (TNV) or tomato mosaic virus (ToMV) in White Burley tobacco induced a systemic acquired resistance in upper, uninoculated leaves. This resistance was effective against challenge infection by TNV or ToMV but not by potato virus Y, necrotic strain (PVYn), tobacco mosaic virus (TMV) or tobacco rattle virus (TRV), viruses giving systemic infections. Systemic acquired resistance against TNV or ToMV was expressed as a reduction in lesion size but not in viral antigen content of the resulting necrotic local lesions. The acquisition of resistance was concurrent with an increased capacity of the resistant leaves to convert 1-aminocyclopropane-1-carboxylic acid into ethylene. Systemic acquired resistance was ineffective to contrast or minimize in whatever way the systemic challenge infection produced by PVYN, TMV or TRV. Severity of symptoms and virus multiplication did not differ in resistant leaves from controls. This result does not allow any optimistic promise on possible application of the systemic acquired resistance against severe viral diseases of crops. Zusammenfassung Systemisch erworbene Resistenz von Tabakpflanzen induziert durch eine lokalisierte Virusinfektion verleiht keinen Schutz gegen Viren, die systemisch infizieren Lokalisierte Infektionen, die durch das tobacco necrosis virus (TNV) oder tomato mosaic virus (ToMV) im White Burley Tabak verursacht wurden, induzierten eine systemisch erworbene Resistenz in nicht inokulierten Blattern oberer Etagen. Diese Resistenz wirkte gegen eine TNV- oder ToMVInfektion aber nicht gegen potato vims Y, necrotic strain (PVYN), Tabakmosaik Virus (TMV) oder tobacco rattle vims (TRV), Viren die systemische Infektionen vemrsachen. Systetnisch erworbene Resistenz gegen TNV oder ToMV wurde durch eine Reduziertmg der Lasionengrose, aber nicht durch den Virusantigengehalt der entstandraien nekrotische lokalisierten Lasionen ausgedruckt. Die Erwerbung einer Resistenz geschieht gleichzeitig mit einer verstarkten Kapazitat der resistenten Blatter l-Aminocyclopropan-l-carboxylsaure in Ethylen umzuwandeln. Systetnisch erworbene Resistenz war unwirksam gegen die systetnische Infekdon, die von PVYN, TMV oder TRV verursacht wurde. Die Scharfe der Symptome und die Virusvermehrung in resistenten und unbehandelten Blattem liesen sich nicht unterscheiden. Diese Beobachtung last keine optimistische Hoffnung auf die eventuelle Anwendung der systemisch erworbenen Resistenz gegen schwere Viruskrankheiten bei Nutzpflanzen.

SUMMARY Field trials on sites infested with trichodorid nematodes in Scotland tested the effects of dichloropropene-dichloropropane mixture (D-D), thiofanox, and granules and foliar sprays of oxamyl on the incidence of spraing disease in potato (cv. Pentland Dell) tubers. D-D was effective in controlling spraing on all three sites, thiofanox was ineffective on the one site tested. On two sites oxamyl granules and sprays, alone and together, significantly decreased the amount of spraing. Those treatments including a spray were more effective than granules alone. At the third site different rates and times of application of sprays were tested.