Application: Testing blocks of plants on a bench (or cart) to determine if any plants are infected. Tests the entire root systems of all plants in the test area for the presence of Phytophthora by detecting zoospores released from sporangia on the root system during 6 repeated irrigations which occur at 15 minute intervals. Irrigation requires a calibrated amount of water be applied to each container.
Advantages: Allows testing of many plants at once. Can be conducted without moving plants from benches. Plants do not have to be unpotted. Nondestructive and does not expose other plants to inoculum beyond what may occur during irrigation. No false positives if bait spots are confirmed by culturing. Culturing can identify Phytophthora species present.
Limitations: Positive reactions require at least several days to develop and can take longer to confirm depending on methods used (Figure 3). Baiting conditions (temperatures, irrigation history) can affect test sensitivity. Previous application of fungicides (systemic oomycete suppressive chemicals) to tested plants may interfere with test. No single bait is optimal for all Phytophthora species. Does not identify which plants or how many plants within the tested block are infected. This protocol is designed for plants that have been regularly irrigated up to the time of testing. It may not be effective for plants that have been dry for an extended period because sporangia may not be present in such material.
The standard protocol described below has detected a variety of Phytophthora species in container-grown nursery plants across a wide range of temperatures and in a variety of test situations. In tests conducted to date, Phytophthora has been detected in batches with known infection rates as low as about 2.5% to 5%, but detection efficiency is influenced by the infection level and root density of the Phytophthora source plant. Further tests are being conducted to determine how the detection threshold (minimum number of infected plants needed to obtain a detection) may be influenced by container types, Phytophthora species, plant species, and temperature ranges present in nurseries.
Recommended practices: Prioritize plants for baiting. Read the information in 2. Sample size and sample selection for information on choosing plants for testing. Based on data collected to date, the following practices are recommended to maximize the sensitivity of this test:
Equipment: This method is based on collecting irrigation water that drains out of a set of nursery plant containers and directing it into a specialized collection vessel that contains a bait. The two main components of this system are described below.
Runoff collection system: Use a smooth, easily sanitized, inert material that will fit under the benches that will be tested. Vinyl flashing works well (available in rolls of varying sizes – we have used the 0.5 m [20 inch] width); the glossy side should be used for the collection surface. Multiple sheets can be overlapped to obtain sizes needed for varying bench lengths and widths. The collection surface can be suspended beneath a bench using nylon cords. The cords tie or hook to the sheet on one end and are hooked to the bench or pots on the bench on the other end (Figure 4). We use plastic cord locks to help adjust the lengths of the cords. The collection surface needs to be sloped to drain to one end and the flow needs to be channelized so that all of the water will run into the zoospore collection vessel (ZCV) (Figure 4). See this link for instructions on building the collection system in Figure 4. The outflow from the runoff collection sheet should be set as close as possible to the top of the ZCV to minimize splash and turbulence. We also recommend the use of a flow deflector or slide to minimize turbulence in the ZCV. The slide can be made from a strip of vinyl flashing (8-10 cm wide) that is placed to bridge the gap between the collection sheet and the ZCV below it (Figure 4D, Figure 5B). It should be placed so the leachate water flows smoothly down the slide, which reduces both splash and turbulence in the ZCV.
Zoospore collection vessel (ZCV): This vessel is designed to optimize detection of zoospores by increasing zoospore concentration around the floating pear bait. Zoospores swim upward and should concentrate near the top of a water column. Debris that may contain sporangia or oospores tends to either float or settle to the bottom of a water column. The collection vessel is designed so that excess water drains from the lower middle portion of the water column. Water in the vessel enters an open pipe elbow at a height of about 7 cm (2.75 inches) above the inside bottom of the vessel. The water flows out through an elevated external pipe that will leave the water level in the vessel about 6 cm (2.5 inches) below the rim (Figure 5A). The diameter of this drain pipe should be large enough to prevent water from overflowing the top of the vessel during peak water flow from the irrigated pots. An internal diameter of at least 2.5 cm (1 inch) is sufficient to handle peak flows from a set of plants covering about 1.5 m2 (10.8 ft2) of bench. The vessel is relatively tall and narrow to maximize zoospore concentration near the top of the water column. A modified 7.6 L (2 gallon) insulated plastic beverage jug with an internal depth of 30 cm (12 inches) and internal diameter of 20 cm (8 inches) is illustrated in Figures 4, 5A. This vessel has a cross-sectional area of 50 square inches. See this link for instructions on constructing the zoospore collection vessel.
For testing small batches of small containers, which generate low amounts of leachate (generally less than 6-8 L [1.5-2 gal]) and low runoff rates, we have successfully used a "mini ZCV", shown in Figure 8. See this link for instructions on how to construct the mini ZCV. Other possible vessel designs (such as vessels that are larger in diameter) have not been tested and may not be as efficient for baiting, so we recommend using a vessel as close as possible in size and shape to these two designs.
Methods: Standard baiting uses green, nonwounded pears, which can be infected by a wide variety of Phytophthora species. Most pears will float in water. If the pear sinks, use a different pear or make a pear floatation device (PFD) for it by using a clean rubber band to attach a small piece of closed cell foam (e.g., a packing peanut) to the pear. Leaf baits can also be used if you have arrangements for testing these baits. You will want to make arrangement to keep these floating on the water surface. See 3.2. Detection by baiting – general procedures for more information on choosing pears and baiting procedure details.
Pre-test conditions: Plants to be tested should have been receiving regular irrigation prior to testing. Sporangia may not be present in the soil of plants that have been dry for an extended period. Testing should be done when average soil temperatures have been in the range of 18-24°C (65-75°F) for at least three days, preferably a week or more. These temperatures are favorable for sporangium production in a wide range of Phytophthora species. It is possible to detect some Phytophthora species at temperatures outside of this temperature range, but detection efficiency for many species may be reduced when soil temperatures are well above or below this range.
Water temperature: The temperature of irrigation water applied during the test should be no higher than about 22-25 C (72-77 F) if possible. We have successfully baited Phytophthora niederhauserii (growth optimum 30 C [86 F] maximum 37 C [99 F]) using warmer irrigation water, but not all Phytophthora species will be successfully baited at very high or very low temperatures. If temperatures are high and hoses have been lying in the sun, run the water until it cools to a stable acceptable temperature before applying it to the plants.
Standard protocol: Suspend the runoff collection system beneath a mesh bench or cart that has been washed to remove debris, sanitized by rinsing with a fresh 0.5% NaOCl (diluted bleach) solution, and rinsed with clean water to remove all bleach residues. If you will be reusing the same space to test another batch of plants, this sanitation process needs to be repeated before the next test, along with cleaning and sanitizing the runoff collection system and zoospore collection vessel.
Place a labeled, unwounded, green pear (with a PFD if needed) in the bottom of the zoospore collection vessel (ZCV) before starting irrigations. Tests show the pear can be infected by zoospores during the irrigation period, so it is important to have the pear in the ZCV before you start irrigating. During the 6 irrigation events a calibrated amount of water (see Irrigation volume below) should be applied individually to every plant container in the test batch, not simply sprayed over the top. Irrigation must not overflow the head space in the container and flow over the rim. Use an irrigation wand with an on/off lever or trigger. For small containers in trays or racks (such as Deepots), use an irrigation wand that can produce a narrow stream of water that can be directed into each container. The objectives of the test irrigations are to:
Any water that does not flow through the container media will only dilute the spores in the collection vessel unnecessarily and can reduce the sensitivity of the test. Applying equal amounts of water to all plants in the test minimizes bias associated with drainage rates or the amount of headspace in individual containers, which are not necessarily related to their risk of being infected. To the degree possible, avoid excessive splashing between containers in the test; some splash between containers in a close-packed test array is unavoidable.
Under hot or sunny conditions, be sure to check the temperature of the water coming out of the wand before each irrigation event. If hoses or aboveground pipes are exposed to sunlight, the initial water temperature may be very warm, so run it until it cools before each irrigation event (see Water temperature above).
Irrigation volume: The amount of water that can be applied to a container before overflowing the container rim is limited by the amount of headspace (distance between the soil line and the pot rim), the drainage rate of the potting media, and the flow rate from the irrigation wand. It is easier to apply the target amount of water per irrigation if containers have sufficient headspace (at least 1 cm for small containers, more for larger containers). If there is very little headspace in the containers, you will need to use a very low flow rate and/or apply water to each container in two (or more) doses for each irrigation event. Apply the first dose of water to each of the containers in the test and then apply the second dose after the water has drained out of the headspace. Making multiple passes to complete one irrigation event increases the amount of time needed to run each test, so fewer tests can be run in parallel if container headspace is low.
Based on tests we have conducted, the recommended application volume for each of the six irrigation events is about 15-20% of the nominal container volume per irrigation. For the six irrigations used in the test, the total volume of water applied to each container is roughly equal to the nominal container volume, so each irrigation is close to one-sixth (about 17%) of the container volume. Table 1 below shows approximate water volumes to apply to containers of different sizes. If using another type of container, calculate the amount needed per irrigation event by multiplying the actual container volume by 17.5% (midpoint between 15 and 20%).
Table 1. Standardized volumes of water applied at each of six irrigations for containers of various sizes when using the standard protocol for bench testing of container plant leachate. The total amount of water applied for a test (6 irrigations) is approximately equal to the nominal volume of the container. Note that container volumes are based on data from suppliers and may not be exact. Also, some container types (e.g, #5 or "5 gal" have multiple designs that vary in volume.
|Container type||Container volume, ml||Irrigation volume, ml||Percentage of container volume|
|LT6 / RCL4||65.5||12||18.3%|
|RP (Rose pot 2.25x3.25 inch)||100||18||18.0%|
|SC7 Supercell Stubby||107||20||18.7%|
|SC10 Supercell / LT8||164||30||18.3%|
|DP16 (Deepot 16)||262||45||17.2%|
|"TB2" / AB35 (Treeband 2x5 inch)||397||70||17.8%|
|DP40 (Deepot 40)||655||110||16.8%|
|DP60 (Deepot 60)||983||165||16.8%|
|"TB46" / AB46 (Treeband 3.6x6 inch)||1,098||200||18.3%|
|"TB410" / AB410 (Treeband 4x10 inch)||2,340||400||17.1%|
|"TP413" / CP413CH (Treepot 4x13.5 inch)||2,650||450||17.0%|
|"TP414" / TP4 (Treepot 4x14 inch)||2,830||500||17.7%|
|#1 ("1 gal")||2,839||500||17.6%|
|#5 ("5 gal")||14,385||2500||17.4%|
|#15 ("15 gal")||49,2104||8000||16.3%|
Calibrating irrigation applications: To consistently deliver a fixed amount of water to each container, calibrate the flow rate of the irrigation wand before the test. Without a reference beat to help with timing, the irrigation length becomes more variable between containers and successive irrigations. Calibration requires a metric calibrated container (e.g., a graduated cylinder or measuring cup) and an electronic metronome or metronome application (many free metronome apps are available for both iOS and Android devices). The calibrated container should be sized to the approximate range of the water volume delivered at each irrigation, so several different measuring containers (from 100 ml up to 2 L or more) may be needed for tests on stock of varying sizes (see Table 2 below).
To calibrate, adjust the water flow rate from the irrigation wand to a suitable range that will not cause excessive splash or fill the headspace in less than one to several seconds. Set the metronome to a 1/1 time signature or other setting that provides one beat per measure. Set the beats per minute (bpm) to a range that will provide an even number of beats to deliver the target volume into the measuring device. Metronome pulse rates of about 60 to 90 bpm work well. Table 2 below provides a number of example metronome timings and flow rates that have been used in tests of various container sizes. With the metronome running, open the irrigation wand valve and use the graduated cylinder to capture water coming out of the wand for the target number of beats. Check the volume delivered, and adjust the flow rate upward if the volume is less than the target or downward if the volume is too high. Repeat this process until the wand delivers the target volume in a whole number of beats. Adjusting the flow is easier if there is a regulator at the irrigation wand; hose bibb valves can be difficult to adjust to a precise and constant flow rate. The irrigation flow rate needs to be stable during the test for the calibration to remain constant. Avoid using water lines that will have pressure fluctuations, or consider using a pressure regulator on the line. Readjust the flow rate by recalibrating if flow changes substantially during the test.
Irrigation during the test: Once the flow rate has been calibrated (e.g., 5 beats at 75 bpm to deliver 500 ml to a TP414, flow rate=125 ml/sec), each container is irrigated for the required number of beats. If the headspace is inadequate to allow the entire volume to be applied at once, split the irrigation time into two or more shorter periods for each irrigation. For example, in a test of TP414 containers with low headspace, it may be necessary to split the required 5 beats of irrigation time into a round of 3 beats (300 ml) for each, followed by a second round of 2 beats (200 ml). If containers are spaced tightly and easily accessible, water can flow continuously as the irrigation nozzle shifts from one container to the next at the appropriate beat. Stop the water flow between containers and restart on the next beat if containers are more widely spaced or if plant canopies interfere with free movement of the irrigation wand.
Table 2. Metronome timings for various nursery container sizes and irrigation wand flow rates. Maximum flow rates are limited by container size and the amount of head space in the container. If it is necessary to run tests on containers of different sizes concurrently, it is most convenient to select a flow rate and metronome speed that generates an even number of beats for each container size.
|Container type||Irrigation volume, ml||metronome setting, beats/min||Irrigation duration, beats||Irrigation duration, sec||Flow rate, ml/sec|
* indicates approximate metronome setting (rounded to nearest bpm) to approximate the target volume at the flow rate shown. Approximate metronome settings are normally used when irrigating two different container sizes with the same wand set at a given flow rate.
Mark the start of irrigation and record each start time on your data sheet (an example data sheet is here). Starting a 15 minute timer at the start of each irrigation can help you keep track of when to begin the next irrigation event. The collection period will take at least 1.5 hour from the start of the first irrigation.
Especially for larger plant batches or containers that drain rapidly, check to see that the water flow rate does not exceed the collection vessel’s outflow rate. If the water in the vessel gets too close to the rim, pause irrigation periodically or use a lower irrigation flow rate. During the test, check to make sure that the pear is floating once the water level in the ZCV is high enough. The pear can sometimes get wedged between the ZCV wall and the internal drain pipe or under the flow deflector. Some pears that float initially inexplicably sink after a while. If this occurs, use clean gloved hands to remove the pear, attach a pear floatation device, and return the pear to the ZCV. Test sensitivity can be reduced if the pear is not floating during the test. If necessary, keep the ZCV shaded to prevent excessive heating of the water in the vessel during and after the test.
Transferring pear bait and water after the test: After the last irrigation, let the containers drain for at least 15 minutes. Allow a longer time if substantial water drainage is still occurring; the flow from the containers should be stopped or nearly stopped. If necessary, the pear can remain in the vessel for an extended period after the last irrigation if it is not subject to cross-contamination or temperature extremes. Wearing clean gloves, remove the pear and place it into a labeled 1-gallon heavy-duty zip closure plastic bag (e.g., 1 gallon Ziploc® freezer bag) that is supported in a plastic container. A plastic bleach container (3.78 qt to 1 gal) or similar heavy-walled plastic bottle of this size cut off just below the handle is suitable for supporting a 1-gallon bag (Figure 7). Slowly drain excess water from the center of the water column through the outflow by pivoting the outflow downward (Figure 6). For the standard ZCV, water should be drained until the remaining depth is about 10 cm, which will leave about 2.7 L in the vessel. Pour the remaining water, which will include both surface water and soil/debris from the bottom of the vessel, into the plastic bag with the pear. The bag should not be filled more than 1 cm above the rim of the plastic vessel used to support the bag. A one-gallon freezer bag will hold up to about 2.7 L with some space left at the top. Leave at least 7-8 cm (3 inches) of space near the top so the bag can be sealed for transport and to prevent spillage. Leave an air bubble in the top of the bag when it is sealed for transport.
If filled sample bags will be held for an extended period (more than 1-2 h) before transport to the incubation chamber/room, leave the bag open in a cooler where it will not be subject to a rapid change in temperature and is not subject to cross-contamination (Figure 7). If it is sunny, be sure that the pear baits in water are in the shade and not allowed to heat above about 27 C [80 F]. Protect the pear baits in water from elevated temperatures, rapid changes in temperature, or excessive vibration, which can cause zoospores to encyst and may reduce the sensitivity of the test.
If the mini ZCV is used, only a small amount of water needs to be drained to ensure that water will not overflow the drain pipe when the container is moved. The vessel can be tilted enough to allow the water to drain about 1 to 2 cm below the outflow. The short horizontal drain pipe is removed from the upper elbow and replaced with a PVC plug to prevent leakage. The outer bag is then pulled up above the drain to prevent leakage. The pear is incubated directly in the bag that serves as the mini ZCV. The bag should be closed to prevent splash or cross-contamination during transport, but opened during incubation.
Incubate and evaluate pears as discussed in 3.2. Detection by baiting – general procedures. The plastic bag should be opened to allow air exchange during incubation (Figure 7).
Phytophthora lesions typically appear on baits no sooner than about 2 days after the end of the leaching procedure. Most lesion will show up within 5 days after the leaching procedure, but in some cases, symptoms may not become obvious until 8 days. If no Phytophthora symptoms are apparent 8 days after the leaching procedure, test results are negative (i.e., no detection). The timeline for testing is summarized in Figure 3.
Testing multiple plant sets at once: With multiple sets of equipment (collection systems and ZCVs) and adequate bench space, multiple tests can be run in parallel. Allow adequate separation to prevent any cross-contamination via splash between different test sets. Depending on the number of plants tested in each set and whether each irrigation event has to be applied in 2 or more doses (e.g., due to small headspace) one person can typically irrigate between 3 and 6 sets of test plants within the 15 minute irrigation interval. The irrigation time for each set of plants can also be affected by plant density (it is slower and more difficult to direct water past foliage into containers if plant canopies are dense or intertwined), total volume applied per container, and other logistics (such as having to move hoses, etc.).
If irrigating multiple different batches of plants with the same hose and wand, it will be easiest if all containers are the same size and receive the same volume of water. Sets of different-sized containers typically require different flow rates and metronome timings (see Table 2). Also, if irrigation generates splash or involves brushing the wand end against wet plants, decontaminate the wand end between different sets of test plants. This can be done by spraying it with 70% alcohol and then rinsing off the alcohol with water before irrigating the next set of plants.
Post-test equipment sanitation. Rinse all equipment thoroughly and sanitize with diluted bleach (see Phytosanitary Procedures for BMPs for Producing Clean Nursery Stock) followed by a thorough rinse with clean water to remove residual bleach before reusing equipment for tests on another set of plants.
Incubate and evaluate pears as discussed in 3.2. Detection by baiting – general procedures.
Results: Confirmed positive results (Phytophthora lesions confirmed by culturing, sporulation on water-floated lesions, or PCR) indicate that at least one of the tested plants in the block is infected. In a closely-packed block of plants, it is likely that multiple plants are infected. Adjacent blocks of plants should be considered to be at risk of infection, but may not provide positive results if the plants have been infected only recently.
Negative results from a single test should be interpreted with caution. At least one more test conducted at least one week after the first negative test should be conducted to provide a higher level of confidence, especially for plants to be used in sensitive habitats. If initial negative tests were conducted under very cool or warm conditions, additional tests should occur under more moderate temperatures. Greater confidence can be associated with negative tests from nurseries that are stringently following the procedures outlined in Best Management Practices (BMPs) for Producing Clean Nursery Stock.
Updated 3/26/2019 - edited for clarity and consistency.
Updated 2/26/2019 - added new example row to Table 2.
Updated 2/5/2019 - uploaded a new version of the sample datasheet, clarified that dead plants should not be included in bench test - they should be tested separately.
Updated 12/26/2018 - additional editing and text plus some reorganization of protocol; updated flow chart; added info and table relative to use of metronome for timing; removed short description of long-duration protocol; substituted two images with newer images and updated legends.
Updated 12/19/2018 - updated container type by target irrigation amount table.
Updated 10/9/2018 - more details on standardizing irrigation volumes by container volume, with associated edits and some reorganization. Added description and image of mini ZCV.
Updated 8/22/2018 - additional details added to standard protocol irrigation procedures, including guidance on irrigation volumes.
Updated 8/19/2017 - expanded explanations, added more photos, a figure illustrating timeline of bench baiting process, and a link to sample datasheet for bench testing.