Skip to main content

Evaluation of disinfectants to prevent mechanical transmission of viruses and a viroid in greenhouse tomato production



In recent years, a number of serious disease outbreaks caused by viruses and viroids on greenhouse tomatoes in North America have resulted in significant economic losses to growers. The objectives of this study were to evaluate the effectiveness of commercial disinfectants against mechanical transmission of these pathogens, and to select disinfectants with broad spectrum reactivity to control general virus and viroid diseases in greenhouse tomato production.


A total of 16 disinfectants were evaluated against Pepino mosaic virus (PepMV), Potato spindle tuber viroid (PSTVd), Tomato mosaic virus (ToMV), and Tobacco mosaic virus (TMV). The efficacy of each disinfectant to deactivate the pathogen’s infectivity was evaluated in replicate experiments from at least three independent experiments. Any infectivity that remained in the treated solutions was assessed through bioassays on susceptible tomato plants through mechanical inoculation using inocula that had been exposed with the individual disinfectant for three short time periods (0–10 sec, 30 sec and 60 sec). A positive infection on the inoculated plant was determined through symptom observation and confirmed with enzyme-linked immunosorbent assay (PepMV, ToMV, and TMV) and real-time reverse transcription-PCR (PSTVd). Experimental data were analyzed using Logistic regression and the Bayesian methodology.


Statistical analyses using logistic regression and the Bayesian methodology indicated that two disinfectants (2% Virkon S and 10% Clorox regular bleach) were the most effective to prevent transmission of PepMV, PSTVd, ToMV, and TMV from mechanical inoculation. Lysol all-purpose cleaner (50%) and nonfat dry milk (20%) were also effective against ToMV and TMV, but with only partial effects for PepMV and PSTVd.


With the broad spectrum efficacy against three common viruses and a viroid, several disinfectants, including 2% Virkon S, 10% Clorox regular bleach and 20% nonfat dry milk, are recommend to greenhouse facilities for consideration to prevent general virus and viroid infection on tomato plants.


Tomato (Solanum lycopersicum L.) is one of the world’s most economically important vegetables. According to the FAO statistics [1], a total of 162 million tons of tomatoes were produced worldwide in 2012. The top tomato producing countries are China, India, USA, and Turkey. Nearly 40% of fresh tomatoes sold in the U.S. supermarkets are produced in greenhouses [2]. Intensive crop manipulations in greenhouse tomato productions, such as grafting, bumblebee pollination, intercropping and deleafing, could lead to disease outbreaks from a number of mechanical transmitted viruses and viroids [3,4].

In the last decade, one of the most widespread viruses in greenhouse tomato productions in Europe and North America has been Pepino mosaic virus (PepMV), in the genus Potexvirus and family Alphaflexiviridae [5,6]. PepMV was discovered on pepino (Solanum muricatum) from Peru in 1980 [7]. It was first reported to infect greenhouse tomatoes in the Netherlands in 2000 [8] and has become endemic in Europe [915], Americas [1621], and beyond [2224].

In recent years, viroid disease outbreaks on tomatoes have been reported frequently both in Europe [25,26] and North America [4,2731]. These viroids include Potato spindle tuber viroid (PSTVd), Tomato chlorotic dwarf viroid (TCDVd), Mexican papita viroid (MPVd), Citrus exocortis viroid (CEVd), Columnea latent viroid (CLVd), and Tomato apical stunt viroid (TASVd). Symptoms incited by these pospiviroids on tomatoes include plant stunting, leaf chlorosis and necrosis, with smaller size fruits to no fruit at all.

In addition to the endemic PepMV and the emerging pospiviroids, two tobamoviruses in the family Virgaviridae, Tomato mosaic virus (ToMV) and Tobacco mosaic virus (TMV), are frequently observed in greenhouse tomatoes [3].

Grafting is a common practice in greenhouse tomato seedling production. Contaminated tomato seeds used as scion and/or rootstock for grafting could also be an important source of initial virus inoculum [20,32]. Once a virus is established inside a greenhouse, rapid spread of the disease could occur due to many hands-on activities in greenhouse tomato production, and the nature of mechanical transmission of these concerned viruses and viroids [4,6]. Therefore, efficient and effective sanitation and disinfection protocols should be implemented to prevent or minimize the spread of these viruses and viroids in greenhouse tomato productions.

In recent years, several studies conducted to identify disinfectants that reduce the infectivity of plant viruses and viroids have been reported for ornamental plants [3335], cucurbits [36], and greenhouse tomatoes [37,38]. Several common disinfectants (i.e., bleach and nonfat dry milk) have been shown to be effective in preventing the spread of certain viruses. However, currently there is still no clear understanding as to the effectiveness of disinfectants against a range of viruses and viroids encountered in greenhouse tomato productions. In this study, we investigated the efficacy of 16 disinfectants against three viruses (TMV, ToMV, and PepMV) and one viroid (PSTVd) commonly identified in greenhouse tomato productions. This work is to identify the most effective disinfectant(s) to prevent infection by these viruses and viroid.

Results and discussion

PepMV infection with cut- and rub-inoculation

In experiments to assess the virus infectivity remained in the treated solutions, two different inoculation methods were applied, cut- and rub-inoculation. In the first two cut-inoculation experiments for PepMV, since expression of typical disease symptoms (mosaic) from PepMV-infected tomato plants was not obviously visible, ELISA was used to determine the PepMV infection. Preliminary data indicated that there was a significant delay in the onset of PepMV infection from the cut-inoculated plants because extra time was needed to regenerate side shoots on the test plants after the primary shoot was removed by cut-inoculation. It took approximately 5 weeks post inoculation for PepMV to be detectable by ELISA achieving a 100% infection rate in plants from the positive control. In comparison, it typically took approximately only 1–3 weeks for PepMV to be detectable by ELISA in rub-inoculated plants. Such delay in the onset of PepMV infection to test plants through cut-inoculation hindered evaluation efficiency. In addition, the first two cut-inoculation experiments generated a higher infection rate (>50%) on test plants from all disinfectant solutions (Table 1).

Table 1 Effectiveness of disinfectant solutions to deactivate pathogen infectivity as measured through experiments on tomato plants against Pepino mosaic virus (PepMV), Potato spindle tuber viroid (PSTVd), Tomato mosaic virus (ToMV), and Tobacco mosaic virus (TMV) infection

Consequently, rub-inoculation method was introduced in the following two experiments for PepMV. Data from the third experiment for PepMV showed that Virkon S (1% and 2%) completely deactivated the PepMV infection. Only 1 or 2 in a total of 9 test plants tested positive from disinfectant solutions in nonfat dry milk, Trisodium phosphate, Lysol all-purpose cleaner, or Clorox regular bleach. The data from experiments 3 and 4 were similar (Table 1), with Virkon S (1% and 2%), Lysol all-purpose cleaner, nonfat dry milk, and Clorox regular bleach offering complete deactivation to PepMV infection. The data obtained from the first two cut-inoculation experiments were not very convincing due to a long delay for the onset of a positive infection, combined data analysis using pooled number of infected plants from four experiments by Bayesian analysis did not show significant difference among disinfectants (Figure 1A). However, if considering datasets only in the last two experiments by rub-inoculation, four disinfectants: Virkon S (1% and 2%), Lysol all-purpose cleaner (50%), nonfat dry milk (20%), and Clorox regular bleach (10%), were the most promising disinfectants against PepMV infection (Table 1).

Figure 1
figure 1

Assessing the effectiveness of various disinfectants against virus infection. Statistical analysis using the Bayesian method was used to evaluate the effect of different disinfectants against infectivity through mechanical inoculation on tomato plants of four viral and viroid pathogens, including A). Pepino mosaic virus (PepMV), B). Potato spindle tuber viroid (PSTVd), C). Tomato mosaic virus (ToMV), and D). Tobacco mosaic virus (TMV). In Bayesian analysis with a credibility interval (CI) of 1 representing 100% infection rate, meaning there was no effect in that treatment, whereas CI of 0 representing zero infection rate, meaning a full protection of treated plants by that disinfectant. The lower the CI value, the better effect that disinfectant against that pathogen. The higher the CI value, more plants were infected, thus the efficacy of that disinfectant was lower. Variable effects of each disinfectant are represented with a range of CI values generated from different replications. Those disinfectants with CI values not in overlap indicates significant differences between them. POS: positive control with pathogen only (PepMV, PSTVd, ToMV and TMV) without treatment; GG: Greenhouse Guardian (1.1 g/L); BS: BioSide (0.78 mL/L); GS: Green-Shield (5.20 mL/L); VOR: Vortexx (1.95 mL/L); SD: SaniDate (3.82 mL/L); DOG-0.1: DES-O-GERM (1 mL/L); DOG-0.2: DES-O-GERM (2 mL/L); KG: KleenGrow (4 mL/L); MF: Menno Florades (30 mL/L); MTF: Menno-Ter forte (10 mL/L); SO: StorOx (9.77 mL/L); OCT: Octave (7.81 mL/L); VS-0.5: Virkon S (5 g/L); TSP: Trisodium phosphate (100 mL saturated solution/L); LYSOL: Lysol all-purpose cleaner (500 ml/L); CLOROX: Clorox regular-bleach (100 mL/L); NFDM: Nonfat dry milk (200 g/L); VS-1.0: Virkon S (10 g/L); VS-2.0: Virkon S (20 g/L); NEG: negative control with inoculation buffer only.

Efficacy of disinfectants against PSTVd

From a panel of 16 disinfectants used for PSTVd test, distinguishable effects to PSTVd infection were observed on the test tomato plants (Table 1). Due to consistent and high infection rates (30%) generated in the first two experiments, six disinfectants were excluded. The remaining 10 disinfectants that were used in the experiment 3 were Greenhouse Guardian, BioSide, Green-Shield, SaniDate, Menno-Ter Forte, StorOx, Octave, Lysol all-purpose cleaner, Clorox regular bleach, Nonfat dry milk, Virkon S (1% and 2%). After evaluation in three independent experiments, only two chemicals (10% Clorox regular bleach and 2% Virkon S) were able to completely deactivate PSTVd infectivity (Figure 1B, Table 1). Besides those two disinfectants with full effects, 20% nonfat dry milk and 50% Lysol also deactivated the PSTVd infectivity (Table 1). The Bayesian analysis supported such conclusions (Figure 1B).

Efficacy of disinfectants against ToMV

ToMV infection on tomato seedlings of ‘VTV’ hybrid was so severe that a positive infection resulted in plant death. Mosaic and necrotic lesions to the upper leaves were observed within one week post inoculation. In two weeks post inoculation, symptom expression was so obvious that some severely infected plants began to die. Thus, scoring of plant infection was easily done through symptom observation. Data sets on the efficacy tests of 16 disinfectants against ToMV were consistent among three experiments (Table 1). The most effective disinfectants against ToMV were 10% Clorox regular bleach, 2% Virkon S, and 50% Lysol all-purpose cleaner (Table 1). Only a small proportion (<10%) of plants in treatments with 20% nonfat dry milk or 1% Virkon S resulted in infection (Table 1). Three other chemicals (3% Menno-Florades, 1% Menno-Ter Forte, and 10% Trisodium phosphate) prevented 30% plants from infection. The Bayesian statistical analysis supported above conclusions (Figure 1C).

Efficacy of disinfectants against TMV

TMV infection on the tomato ‘VTV’ plants was also very severe without treatment, similar to those by ToMV, which resulted in plant death. The treatment effects were consistent in all 3 experiments (Table 1). Three disinfectants with full effects against TMV infection were 10% Clorox regular bleach, 2% Virkon S, and 20% nonfat dry milk. The 50% Lysol all-purpose cleaner was also effective in deactivating TMV infectivity, only 1 of 9 plants infected in one of the three experiments (Table 1). Another disinfectant, 1% Menno-Ter Forte, had partial effect which resulted in less than 9 of 27 test plants infected from three experiments. The results from Bayesian analysis also supported the above conclusion (Figure 1D).

Impact of application rate on efficacy

The effect of disinfection is also dependent on the application rate. When comparing Virkon S in three concentrations (0.5%, 1% and 2%), the impact of application rate to TMV infection were observed (Figure 2). In general, 0.5% Virkon S had little effect to slow down virus or viroid transmission (Table 1). Partial protection to TMV was observed when 1% Virkon S was used (Figure 2). However, when 2% Virkon S solution was used, full protection from TMV infection was observed (Figure 2). Taken together, 2% Virkon S achieved the most consistent effects against four tomato virus and viroid pathogens: PepMV, PSTVd, TMV, and ToMV (Table 1 and Figure 1).

Figure 2
figure 2

Effects of various concentrations of Virkon S in deactivating Tobacco mosaic virus (TMV) infectivity as assessed in bioassays through rub-inoculation upon exposure for 30 sec using Virkon S at 0.5% (left) with no protection, at 1% (middle) with partial protection, and at 2% (right) with full protection.

Efficacy of selected disinfectants upon storage

To address concerns over the stability of disinfectants in prolong storage, the two most effective disinfectants (10% Clorox regular bleach and 2% Virkon S) were examined against TMV infection. Each treatment was performed through mixing an equal volume of TMV inoculum with a 2X stock solution of a respective disinfectant. In the case of Clorox regular bleach, the 2X stock solution (20% Clorox regular bleach) was stored at room temperature (20-30°C) for 30 days. Virkon S, 4% stock solution (2X) was prepared and stored for two time periods, 10 days and 30 days. At each storage time point, treatments were carried out by mixing an equal volume of a prepared virus inoculum with a 2X stock solution for 30 seconds just before used for a bioassay. Results showed that in comparison to that of a freshly prepared solution, the ability to deactivate TMV infectivity of Clorox regular bleach in storage for over 30 days was equally effective (Figure 3A). Virkon S, stock solutions (2X) in storage for 10 days or 30 days were equally effective to deactivate TMV infectivity in comparison to those of a freshly prepared solution. While all the test plants in the positive control without treatment were severely infected and dying, plants treated with a freshly prepared solution or those solutions in storage for 10 days and 30 days were fully protected from TMV infection (Figure 3B).

Figure 3
figure 3

Stability of prepared disinfectants in prolong storage for their effect in deactivating Tobacco mosaic virus (TMV) infectivity. A). Comparative effectiveness of freshly prepared 10% Clorox® bleach solution (Fresh) and a similarly prepared solution in storage at room temperature (20–30°C) for 30 days. The positive control (TMV only) without treatment was used to assess the TMV infectivity in the inoculum. B). Comparative effectiveness of 2% Virkon S solutions from a freshly prepared (Fresh), those in storage for 10 days (10 days) and 30 days (30 days) after preparation at room temperature (20–30°C). A positive control (TMV only) was used to assess TMV infectivity in the inoculum.

A total of 16 disinfectants were evaluated for their effectiveness in preventing transmission of three major tomato viruses (PepMV, ToMV, and TMV) and one viroid (PSTVd) through mechanical inoculation on tomato seedlings. This study demonstrated consistently the broad spectrum effects from two common disinfectants (2% Virkon S and 10% Clorox regular bleach) in deactivating the infectivity of PepMV, PSTVd, ToMV, and TMV (Table 1). Four other disinfectants (1% Virkon S, 50% Lysol all-purpose cleaner, 20% nonfat dry milk, and 1% Menno-Ter Forte) also had promising efficacy in deactivating certain target pathogens (Table 1, Figure 1).

The three exposure times (0–10 sec, 30 sec, or 60 sec) in treatment of inocula by disinfectants were selected to mimic the short time intervals in cutting tissues between plants during tomato crop work in a greenhouse, such as grafting, deleafing, or fruit harvesting. However, there were no significant differential responses observed among the three time intervals. These results suggested that the effects of those effective disinfectants against virus and viroid infectivity were immediate upon mixing and exposure. With such swift action from the effective disinfectants, there is no need to wait after dipping for a disinfectant to achieve its full function.

Growers are concerned about how long a diluted disinfectant could be stored in a greenhouse without losing its efficacy. Our tests demonstrated that there was no major reduction in the effect of a disinfectant in deactivating TMV infectivity when those ready-to-use solutions of Virkon S and Clorox regular bleach were stored for more than 30 days. It is not surprising given the long shelf life of these highly stable products. However, caution should be considered when using disinfectants with high amount of organic matter, such as a large quantity of leaf sap, which could compromise the disinfectant activity [37].

Results obtained in screening of 16 disinfectants against three viruses in tomato were consistent with some conclusions achieved in previous studies from other plant-virus systems. Hu et al. (33) found that undiluted skim milk inactivated Cymbidium mosaic virus (CyMV) on a local lesion host and commercial bleach inactivated both CyMV and Odontoglossum ringspot virus (ORSV) at 10% or 20% concentration. Kamenova and Adkins [34] reported that in experiments mimicking plant propagation and pruning, 10% bleach solution and 20% nonfat dry milk completely prevented Hibiscus latent Fort Pierce virus infection in hibiscus. In searching for effective disinfectants in ornamental production to control TMV transmission during propagation, Lewandowski et al. [35] discovered that several common disinfectants including 20% nonfat dry milk or 10% household bleach completely eliminated TMV transmission to petunias. They also showed that treatment of contaminated tools with 1% Virkon S solution or 20% nonfat dry milk (7% protein) also significantly reduced the incidence of TMV-infected petunias. Coutts et al. [36] examined 13 disinfectants for their effectiveness in inactivating ZYMV in cucurbits. They discovered that none of test plants became infected when nonfat dry milk (20% w/v) or bleach solution (42 g/L NaOCl, diluted 1:4) was used. Matsuura et al. [37] found that active component NaOCl at a concentration of 0.5% (10% bleach solution) or more was the most effective in disinfecting Tomato chlorotic dwarf viroid (TCDVd)-contaminated scalpels. Wintermantel [38] demonstrated that 0.5% sodium hypochlorite treatment for two seconds was sufficient for inactivation of potyviruses during pruning operations and superior to quaternary ammonium solution. Although the virus-plant systems tested were different, the general effective role of three disinfectants, 1% or 2% Virkon S, 10% Clorox regular bleach (containing 0.525% NaOCl), and nonfat dry milk (containing 7% protein), were consistently able to deactivate virus infection. This is the first time in this study to show that nonfat dry milk can also suppress the viroid infectivity. The possible mode of action for nonfat dry milk against viroid infectivity is awaiting further study. Taken together, it is reasonable to believe that these disinfectants could be generally applied to other virus/viroid-plant systems. In addition, Virkon S and Clorox regular bleach have been shown to be effective against some common bacterial and fungal pathogens on tomato [39].


With their broad spectrum effects against infection on treated tomato plants for three viruses and a viroid, 2% Virkon S, 10% Clorox regular bleach and 20% nonfat dry milk could be recommended to greenhouse vegetable growers to protect plants from virus infection in various crop work activities, including grafting, deleafing, and fruit harvesting. A suitable disinfectant for greenhouse tomato production should satisfy several criteria, including: short contact time, broad efficacy against viruses and viroids or even other plant pathogens, safe for workers, not corrosive to infrastructure, not phytotoxic to plants, and economic. Although Virkon S is relatively expensive and also corrosive, it is the most promising disinfectant and has already been proven effective against human and animal viral pathogens [40,41]. Clorox regular bleach is widely used at home for killing common household germs; however, the strong corrosive effect to the greenhouse structure and tools and the potential phytotoxic effect on tomato plants might not be welcomed by greenhouse tomato growers. Nonfat dry milk, the third most efficient disinfectant, is safe for application, economic to use, and seems to satisfy the above disinfectant criteria. By rotating the application of several effective disinfectants with different mode of actions, the risk of a virus and viroid outbreak on greenhouse tomatoes may be brought under control.

Materials and methods

Sources of viruses and viroid and their maintenance

The PepMV isolate (TX10-01) was isolated from a diseased tomato plant collected in Texas in 2010 and determined by sequence analysis to be genotype CH2 [6]. ToMV (isolate V13-07) and TMV (isolate U1) were provided by Heinz Co. and Monsanto, respectively. PSTVd (isolate NC12-01) was isolated from North Carolina in 2012 [4]. Active cultures of each individual virus and viroid were maintained through rub-inoculation on tomato cultivars ‘Rutgers’ or ‘Moneymaker’ and kept separately inside an insect-proof bug-dome in a greenhouse. Those symptomatic tomato leaves from plants inoculated 4–8 weeks prior and confirmed to be infected by a particular virus or viroid were collected as inoculum sources to assess the efficacy of disinfection.

Plant preparation and growth

Certified healthy tomato seeds (cv. VTV, F1 hybrid indeterminate Saladette tomato) were provided by Monsanto. Experiments were conducted in a greenhouse (temperature of 25-30°C, a natural sun-light period of 14 hours). For each replicated experiment (one virus or a viroid treated with 16 disinfectants and controls), over 220 seeds were individually sowed in 5-inch pots filled with soil-less potting mix (Sunshine mix, SunGro Horticulture) in a greenhouse. The test plants were maintained in each individual pot on trays to keep them separated in space to prevent potential cross contamination. Normal plant maintenance activities, including daily watering, weekly fertilizing and occasional spraying to control insects, were performed.


A total of 16 products were selected for evaluation in this study, their active ingredients and application rates are listed in Table 2. Product concentrations were determined based either on the labeled rates, earlier studies by others with different plant-virus systems [3338], or from grower experiences. Each product with 2× stock of application rate was prepared within 1 hour before use in the same day.

Table 2 List of disinfectants and their application rates used to evaluate their efficacy as disinfectants against three tomato viruses and one viroid

Preparation of virus inoculum

The virus and viroid sources were maintained on tomato plants in individual insect-proof domes in a greenhouse. Virus inoculum was prepared by grinding symptomatic tomato leaves (1:5 w/v) in a plastic bag containing saline phosphate buffer, pH 7.0 (140 mM NaCl, 8 mM Na2HPO4.12H20, 1.5 mM KH2PO4, 2.7 mM KCl and 0.8 mM Na2SO3) using a Homex-6 tissue homogenizer (BioReba AG, Switzerland). PSTVd inoculum was prepared using the above listed saline phosphate buffer or 1× TE buffer (10 mM Tris–HCl and 1 mM EDTA, pH 8.0). The freshly prepared virus or viroid inoculum was maintained on ice prior to use.

Virus inoculation

The processed virus/viroid inoculum was kept on ice in a 50-mL gamma irradiation-sterilized conical crew cap centrifuge tube (USA Scientific) prior to use. Equal volumes (0.3 ml) of the prepared disinfectant stock solution and virus/viroid inoculum were mixed in a 1.5 mL Eppendorf tube. Each disinfectant and inoculation combination was left at room temperature for 0–10 sec, 30 sec or 60 sec prior to use for inoculation.

For PepMV only, the first 2 experiments were done using cut-inoculation, which simulated to the deleafing process. The cut-inoculation was done by dipping a clean surgical blade to the treated solutions as stated above and cut off a leaf or a shoot on 3 tomato seedlings at each exposure time intervals (0–10 sec, 30 sec and 60 sec).

Rub-inoculation was conducted by rubbing gently with a cotton-swab (Q-tip) soaked in the treated solution onto 3 tomato seedlings lightly dusted with Carborundum (320-grit, Fisher Scientific) at 2–3 leaf stage. Each treated inoculum was inoculated on 3 tomato seedlings for each exposure time period (0–10 sec, 30 sec or 60 sec). In each experiment, 3 plants at each time point were inoculated with the same virus or viroid inoculum that were mixed with an equal volume of water as positive controls. Same number of mock-inoculated plants with the inoculation buffer were served as negative controls. The entire process from inoculum preparation to the completion of an inoculation experiment took 2–3 hours. As a control, the infectivity of a virus inoculum that remained in the solution at the end of each experiment was tested by inoculating 3 additional tomato seedlings to confirm symptom expression. The virus/disinfectant solution was washed off gently with tap water from the inoculated plants after application.

Tests on PSTVd, ToMV and TMV, consisted of 3 repeat experiments and were done using the rub-inoculation method. For PepMV, 2 experiments were done with the cut-inoculation method and 2 experiments were done with the rub-inoculation method. The data from two inoculation methods were compared for PepMV. The inoculated plants were randomized on a bench and maintained in a greenhouse for 4–6 weeks post inoculation for symptom observation. ELISA for virus detection and qRT-PCR for PSTVd were performed as described in the following to confirm each virus or viroid infection. The experimental plant materials were bagged, autoclaved, and disposed of after completion of each experiment. For each pathogen, the experiment to each disinfectant was repeated for 3 times. Due to the limitation in greenhouse space and to prevent potential cross contamination, only plants inoculated by the same type of pathogen at each time were placed in the same greenhouse. The entire experiments were carried out from April 2012 to June 2013 in an environmental controlled greenhouse.

Efficacy of selected disinfectants in storage

To assess the efficacy of selected disinfectants in storage, 2X stock solutions of Clorox regular bleach (20%) were stored at room temperature (25°C) for 30 days and then used to treat the TMV inoculum with an exposure time for 30 sec. In comparison, a freshly prepared 20% Clorox regular bleach was used as a control and a non-treated TMV inoculum was used to assess the virus infectivity in the inoculum. For Virkon S, the 2X stock solution (4%) was assessed after storage for 10 to 30 days, in comparison with a freshly prepared stock solution to treat the TMV inoculum with a 30 sec exposure. A non-treated TMV inoculum was included as a positive control. Preparation and maintenance of plants for inoculation and the method on rub-inoculation were described as above.

Enzyme-linked immunosorbent assay (ELISA)

To assess virus infection on the test plants for PepMV, TMV, and ToMV, a standard ELISA method was used following the manufacturer’s instructions (Agdia, USA) with minor modifications. For sample processing, a small leaf tissue (ca. 150 mg) was collected from individual inoculated plant in a plastic bag. After addition of 2.0 ml 1X tissue extraction buffer (General) (BioReba, Switzerland) into each bag, the tissue was grounded thoroughly with a Homex-6 homogenizer (BioReba, Switzerland). The ELISA plate was pre-coated with 100 μl of primary antibody for PepMV (catalog no. 13001, Agdia, USA), ToMV (catalog no. 35400, Agdia, USA) or TMV (catalog no 57400, Agdia, USA) in suitable dilution in the coating buffer overnight at 4°C. After washing with 1x PBS-Tween buffer for 3–4 times, the above prepared leaf crude extract (100 μl) was added to the wells of the antibody-coated plate and incubated for 2 h at 37°C or overnight at 4°C. A positive control (virus-infected), negative control (not virus-infected), and non-template control (extraction buffer only) were included in each plate. After rigorous washing, the plate was filled with 100 μl of secondary antibody-Alkaline phosphatase enzyme conjugate (1:200 dilution in the conjugate buffer) and incubated for 2 h at 37°C. Color development was generated by incubation with 100 μl of p-nitrophenyl phosphate (PNP) substrate and absorbent readings were measured at 405 nm with an ELISA plate reader (SpectraMAX PLUS 384, Molecular Devices, USA). Absorbance values at least twice over that of the negative control were considered positive.

Real-time RT-PCR

Real-time RT-PCR reaction was used to determine the infection of PSTVd and carried out using a Takara One Step Ex Taq qRT-PCR kit (Clontech Laboratories, USA) on an Mx3000P qPCR machine (Stratagene/Agilent Technologies, USA). RNA template was prepared with a simple dilution of crude tissue extract method [42]. Approximately 150 mg leaf tissue was ground in a plastic bag filled with 1.5 ml of 0.1 M Tris–HCl buffer (pH 8.0). The crude extract was diluted 1:100 with diethylpyrocarbonate (DEPC)-treated water and 0.5 μl of diluted extract was added to the reaction mixture. The primers for PSTVd (PSTV-231 F: 5’-GCCCCCTTTGCGCTGT-3’; PSTV-296R: 5’-AAGCGGTTCTCGGGAGCTT-3’) and TaqMan probe (PSTV-251 T: CY5-CAGTTGTTTCCACCGGGTAGTAGCCGA- BHQ2) were derived from published sequences [43] and synthesized by IDT (Coralville, IA, USA). Each real-time RT-PCR reaction mixture (10 μl) consisted of 5 μl of 2X reaction buffer, 0.25 μl Ex Taq HS mix (5 U/μl), 0.25 μl RTase mix (5 U/μl) in Takara’s Premix EX Taq (Clontech, USA), 0.25 μl forward primer (20 μM), 0.25 μl reverse primer (20 μM), and 0.25 μl TaqMan probe (10 μM), 0.19 μl of ROX reference dye (500X dilution, Clontech, USA), and 0.5 μl RNA. The thermocycling program included an initial cycle for reverse transcription at 50°C for 30 min and a denaturation at 95°C for 2 min, then 40 cycles of 95°C for 10 sec and 55°C for 30 sec. A positive control (virus-infected), negative control (non- virus-infected), and non-template control were included in each test. A cycle threshold value (Ct) above 31.00 at a threshold fluorescence level of 0.025 was determined as a background reaction.

Statistics analysis

To determine whether there was any significant effect between disinfectants on each target pathogen, the number of plants infected for each disinfectant solution and exposure time were pooled and analyzed using Logistic regression and the Bayesian methodology [44]. To do so, a Markov Chain Monte Carlo (MCMC) approach was used as implanted in JAGS [45] through the R statistical software [46]. The credibility intervals (CI) were designated between 0–1, where those CI values between disinfectant solutions with no overlap are considered significantly different. If the CI value in a disinfectant solution was equal to zero, that result indicated complete deactivation of the pathogen infectivity was achieved and none of the test plants was infected. If a CI value approached 1, the result indicated there was no effect of that disinfectant against the pathogen infectivity, as all the test plants were infected.



Pepino mosaic virus


Potato spindle tuber viroid


Tomato mosaic virus


Tobacco mosaic virus


Enzyme linked immunosorbent assay


Quantitative (real-time) reverse transcription polymerase chain reaction


  1. FAOSTAT. [] (last accessed June 25, 2014).

  2. Cook RL, Calvin L. Greenhouse tomatoes change the dynamics of the North American fresh tomato industry. In: Economic Research Report. 2nd ed. Washington, DC: Economic Research Service, U.S. Department Agriculture; 2005. p. 1–81.

    Google Scholar 

  3. Hanssen IM, Lapidot M, Thomma BPHJ. Emerging viral diseases of tomato crops. Mol Plant-Microbe Interact. 2010;23:539–48.

    Article  CAS  PubMed  Google Scholar 

  4. Ling KS, Li R, Panthee DR, Gardner RG. First report of potato spindle tuber viroid naturally infecting greenhouse tomatoes in North Carolina. Plant Dis. 2013;97:148.

    Article  Google Scholar 

  5. Hanssen IM, Thomma BPHJ. Pepino mosaic virus: a successful pathogen that rapidly evolved from emerging to endemic in tomato crops. Mol Plant Pathol. 2010;11:179–89.

    Article  CAS  PubMed  Google Scholar 

  6. Ling KS, Li R, Bledsoe M. Pepino mosaic virus genotype shifting in North America and development of specific RT-LAMP for rapid genotype identification. Virol J. 2013;10:117.

    Article  PubMed Central  PubMed  Google Scholar 

  7. Jones RAC, Koenig R, Lesemann DE. Pepino mosaic virus, a new potexvirus from pepino (Solanum muricantum). Ann Appl Biol. 1980;94:61–8.

    Article  CAS  Google Scholar 

  8. van der Vlugt RAA, Stijger CCMM, Verhoeven JTJ, Lesemann DE. First report of Pepino mosaic virus on tomato. Plant Dis. 2000;84:103.

    Article  Google Scholar 

  9. Jorda C, Lazaro-Perez A, Martinez-Culebras PV, Abad P, Lacasa A, Guerrero MM. First report of Pepino mosaic virus on tomato in Spain. Plant Dis. 2001;85:1292.

    Google Scholar 

  10. Mumford RA, Metcalfe EJ. The partial sequencing of the genomic RNA of a UK isolate of Pepino mosaic virus and the comparison of the coat protein sequence with other isolates from Europe and Peru. Arch Virol. 2001;146:2455–60.

    Article  CAS  PubMed  Google Scholar 

  11. Roggero P, Masenga V, Lenzi R, Coghe F, Ena S, Winter S. First report of Pepino mosaic virus in tomato in Italy. Plant Pathol. 2001;50:798–800.

    Article  Google Scholar 

  12. Aguilar JM, Hernandez-Gallarod MD, Cenis JL, Lacasa A, Aranda MA. Complete sequence of the Pepino mosaic virus RNA genome. Arch Virol. 2002;147:2009–15.

    Article  CAS  PubMed  Google Scholar 

  13. Cotillon AC, Girard M, Ducouret S. Complete nucleotide sequence of the genomic RNA of a French isolate of Pepino mosaic virus (PepMV). Arch Virol. 2002;147:2231–8.

    Article  CAS  PubMed  Google Scholar 

  14. Pospieszny H, Borodynko N. New Polish isolate of Pepino mosaic virus highly distinct from European tomato, Peruvian, and US2 strains. Plant Dis. 2006;90:1106–8.

    Article  Google Scholar 

  15. Hanssen IM, Paeleman A, Wittemans L, Goen K, Lievens B, Bragard C, et al. Genetic characterization of Pepino mosaic virus isolates from Belgian greenhouse tomatoes reveals genetic recombination. Eur J Plant Pathol. 2008;121:131–46.

    Article  Google Scholar 

  16. French CJ, Bouthillier M, Bernardy M, Ferguson G, Sabourin M, Johnson R, et al. First report of Pepino mosaic virus in Canada and the United States. Plant Dis. 2001;85:1121–3.

    Article  Google Scholar 

  17. Soler S, Prohens J, Diez MJ, Nuez F. Natural occurrence of Pepino mosaic virus in Lycopersicon species in central and southern Peru. J Phytopathol. 2002;150:49–53.

    Article  CAS  Google Scholar 

  18. Soler S, Lopez C, Nuez F. Natural occurrence of viruses in Lycopersicon spp. in Ecuador. Plant Dis. 2005;89:1244–54.

    Article  Google Scholar 

  19. Maroon-Lango CJ, Guaragna MA, Jordan RL, Hammond J, Bandla M, Marquardt SK. Two unique US isolates of Pepino mosaic virus from a limited source of pooled tomato tissue are distinct from a third (European-like) US isolate. Arch Virol. 2005;150:1187–201.

    Article  CAS  PubMed  Google Scholar 

  20. Ling KS. Molecular characterization of two Pepino mosaic virus variants from imported tomato seed reveals high levels of sequence identity between Chilean and US isolates. Virus Genes. 2007;34:1–8.

    Article  CAS  PubMed  Google Scholar 

  21. Ling KS, Zhang W. First report of Pepino mosaic virus infecting tomato in Mexico. Plant Dis. 2011;95:1035.

    Article  Google Scholar 

  22. Zhang Y, Shen ZJ, Zhong J, Lu XL, Cheng G, Li RD. Preliminary characterization of Pepino mosaic virus Shanghai isolate (PepMV-Sh) and its detection with ELISA. Acta Agric Shanghai. 2003;19:90–2.

    CAS  Google Scholar 

  23. Fakhro A, von Bargen S, Bandte M, Büttner C. Pepino mosaic virus, a first report of a virus infecting tomato in Syria. Phytopathol Mediterr. 2010;49:99–101.

    Google Scholar 

  24. Carmichael DJ, Rey MEC, Naidoo S, Cook G, van Heerden SW. First report of Pepino mosaic virus infecting tomato in South Africa. Plant Dis. 2011;95:767.

    Article  Google Scholar 

  25. Verhoeven JTJ, Jansen CCC, Willemen TM, Kox LFF, Owens RA, Roenhorst JW. Natural infections of tomato by Citrus exocortis viroid, Columnea latent viroid, Potato spindle tuber viroid and Tomato chlorotic dwarf viroid. Eur J Plant Pathol. 2004;110:823–31.

    Article  CAS  Google Scholar 

  26. Verhoeven JTJ, Botermans M, Meekes ETM, Roenhorst JW. Tomato apical stunt viroid in the Netherlands: most prevalent pospiviroid in ornamentals and first outbreak in tomatoes. Eur J Plant Pathol. 2012;133:803–10.

    Article  Google Scholar 

  27. Singh RP, Nie X, Singh M. Tomato chlorotic dwarf viroid: An evolutionary link in the origin of pospiviroids. J Gen Virol. 1999;80:2823–8.

    CAS  PubMed  Google Scholar 

  28. Ling KS, Verhoeven JTJ, Singh RP, Brown JK. First report of Tomato chlorotic dwarf viroid in greenhouse tomatoes in Arizona. Plant Dis. 2009;93:1075.

    Article  Google Scholar 

  29. Ling KS, Bledsoe ME. First report of Mexican papita viroid infecting greenhouse tomato in Canada. Plant Dis. 2009;93:839.

    Article  Google Scholar 

  30. Ling KS, Zhang W. First report of a natural infection by Mexican papita viroid and Tomato chlorotic dwarf viroid on greenhouse tomatoes in Mexico. Plant Dis. 2009;93:1216.

    Article  Google Scholar 

  31. Ling KS, Sfetcu D. First report of natural infection of greenhouse tomatoes by Potato spindle tuber viroid in the United States. Plant Dis. 2010;94:1376.

    Article  Google Scholar 

  32. Hanssen IM, Mumford R, Blystad DR, Cortez I, Hasiów-Jaroszewska B, Hristova D, et al. Seed transmission of Pepino mosaic virus in tomato. Eur J Plant Pathol. 2010;126:145–52.

    Article  Google Scholar 

  33. Hu JS, Ferreira S, Xu MQ, Lu M, Iha M, Pflum E, et al. Transmission, movement, and inactivation of cymbidium mosaic and odontoglossum ringspot viruses. Plant Dis. 1994;78:633–6.

    Article  Google Scholar 

  34. Kamenova I, Adkins S. Transmission, in planta distribution, and management of Hibiscus latent Fort Pierce virus, a novel tobamovirus isolated from Florida hibiscus. Plant Dis. 2004;88:674–9.

    Article  Google Scholar 

  35. Lewandowski D, Hayes AJ, Adkins ST. Surprising results from a search for effective disinfectants for Tobacco mosaic virus-contaminated tools. Plant Dis. 2010;94:542–50.

    Article  CAS  Google Scholar 

  36. Coutts BA, Kehoe M, Jones R. Zucchini yellow mosaic virus: contact transmission, stability on surfaces, and inactivation with disinfectants. Plan Dis. 2013;97:765–71.

    Article  CAS  Google Scholar 

  37. Matsuura S, Matsushita Y, Usugi T, Tsuda S. Disinfection of Tomato chlorotic dwarft viroid by chemical and biological agents. Crop Protection. 2010;29:1157–61.

    Article  CAS  Google Scholar 

  38. Wintermantel WM. A comparison of disinfectants to prevent spread of potyviruses in greenhouse tomato production. Online Plant Health Progress. 2011. doi:10.1094/PHP-2011-0221-01-RS.

    Google Scholar 

  39. Baysal-Gurel F, Li R, Ling KS, Kurowski C, Miller SA. Developing hygiene protocols against mechanically transmitted pathogens in greenhouse tomato production systems. Acta Hort 2014. In press.

  40. Shahid MA, Abubakar M, Hameed S, Hassan S. Avian influenza virus (H5N1); effects of physico-chemical factors on its survival. Virology Journal. 2009;6:38.

    Article  PubMed Central  PubMed  Google Scholar 

  41. Zou S, Guo J, Gao R, Dong L, Zhou J, Zhang Y, et al. Inactivation of the novel avian influenza A (H7N9) virus under physical conditions or chemical agents treatment. Virology Journal. 2013;10:289.

    Article  PubMed Central  PubMed  Google Scholar 

  42. Li R, Fei Z, Ling KS. Molecular and biological properties of tomato necrotic stunt virus and development of a sensitive real-time RT-PCR assay. Arch Virol. 2014;159:353–8.

    Article  PubMed  Google Scholar 

  43. Boonham N, González Pérez L, Mendez MS, Lilia Peralta E, Blockley A, Walsh K, et al. Development of a real-time RT-PCR assay for the detection of Potato spindle tuber viroid. J Virol Methods. 2004;116:139–46.

    Article  CAS  PubMed  Google Scholar 

  44. Gelman A, Hill J. Data analysis using regression and multilevel/hierarchical models. New York, NY: Cambridge University Press; 2007.

    Google Scholar 

  45. Plummer M. JAGS: A program for analysis of Bayesian graphical models using Gibbs sampling. In: Proceedings of the 3rd International Workshop on Distributed Statistical Computing. Vienna, Austria. Kurt Hornik, Friedrich Leisch & Achim Zeileis (eds.). URL 2003.

  46. R Core Team. R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. URL 2014.

Download references


We thank Chester Kurowski of Monsanto Company for valuable discussions, and Andrea Gilliard, Alan Wilder and Mindie Lipphardt who provided excellent technical assistance. Chellappan Padmanabhan’s review comments are greatly appreciated. Several companies provided products at no charge: BASF, BioSafe Systems LLC, Des-O-Germ (PTy) LTD, Ecolab Center, MENNO CHEMIE-VERTRIEB GMBH, Enviro Tech Chemical Services, Inc., Germ-Free Planet, and PACE 49 Inc. This work is supported in-part by a grant from the USDA, National Institute of Food and Agriculture, Specialty Crop Research Initiative Program (SCRI- 2010-600-25320) to SAM and KSL.

Author information

Authors and Affiliations


Corresponding author

Correspondence to Kai-Shu Ling.

Additional information

Competing interests

The authors declare that they have no competing interests.

Authors’ contributions

KSL and SAM conceived the study. RL and KSL designed methods and experiments. FBG and SAM collected the disinfectants. RL conducted the experiments and analyzed the data. ZA performed the statistical analysis. RL drafted the manuscript and KSL, FBG, SAM, and ZA revised the manuscript. All the authors have read and approved the final manuscript.

Rights and permissions

Open Access  This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made.

The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder.

To view a copy of this licence, visit

The Creative Commons Public Domain Dedication waiver ( applies to the data made available in this article, unless otherwise stated in a credit line to the data.

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Li, R., Baysal-Gurel, F., Abdo, Z. et al. Evaluation of disinfectants to prevent mechanical transmission of viruses and a viroid in greenhouse tomato production. Virol J 12, 5 (2015).

Download citation

  • Received:

  • Accepted:

  • Published:

  • DOI: