As featured in Arable Farming Magazine March 2021 

Tech on test to detect early signs of Septoria

by Arable Farming

New technology is coming forward which will allow growers to tailor fungicide programmes to variety, drilling date and real-time disease levels. Alice Dyer reports.

Being able to see what levels of hidden disease are lurking in crops has long been a goal for growers and agronomists.

Now a number of companies are stepping up trials to bring technology capable of detecting latent disease to market.

Swift Detect uses fast-turnaround qPCR testing to search for disease DNA in leaves and alert growers and agronomists of the presence of septoria in the latent period before symptoms become visible.

Developed by Microgenetics, a pharmaceutical company which initially created the rapid analysis to detect salmonella in baby food, the test is available for septoria this season and will soon expand into other wheat diseases including rusts and mildew.

Trials over the last three seasons have seen agronomists send in 10 leaf samples per field every 10 days, enabling them to track disease pressure in the field prior to T1 and T2.

Results are sent back in around one working day and presented as a traffic light system based on the amount of disease present.

Once other wheat diseases are included, it will be possible to track four key wheat diseases – septoria, mildew, yellow and brown rust – using a single leaf sample.

Chris Steele, crop diagnostics product manager at Microgenetics, says: “For more resistant varieties agronomists are generally looking at testing just before the T2 spray and before T1 and T2 for the most susceptible varieties.

Taking a sample every 10 days will cover leaf 1 and 2 and the flag leaf.”

Disease threat

Although qPCR testing can give growers a good indication of potential disease threat, there is even more precise technology in the pipeline showing promising results, says precision agriculture expert and consultant Keith Norman.

“Results from qPCR testing can be variable depending on how the results are interpreted.

It can give you an indication and no more than that if you’ve got a disease present,” he says.

“If you’re taking samples from a large number of plants, you have to be specific about the leaf layer you are taking from.

If you’ve got septoria in leaf 3 but not leaf 2 it doesn’t mean you can [hold back on applying a fungicide].

“It gives you an indication of timings, when to make interventions and which products to use, whether that’s protectant or curative.” A number of other technologies which remotely detect pre-symptomatic or early disease are also being worked on behind the scenes.

Using drone or satellite imagery, researchers are recognising the changes to spectral signatures that occur when a plant becomes infected with disease.

This is because when the plant becomes under pressure from disease, the reflection pattern of several wavelengths changes.

The next stage of the study will explore wavelengths for specific diseases to differentiate between septoria or yellow rust infection, for example.

Mr Norman says: “There is a general knowledge about which wavelengths indicate plant health.

At the moment it will tell you it has a disease but not which disease.

This is still quite useful for an agronomist to see which crops are starting to show signs of disease so they can then prioritise spray schedules.” The University of Manchester, NIAB and Rothamsted Research are, alongside other industry partners, working on a number of possibilities, including an in-field sensor which houses a 3D artificial leaf.

As air naturally filters through, spores are caught on the ‘leaf ’ surface where biochemicals stimulate germination.

As the spores multiply and penetrate the leaf a signal is sent to a grower portal to alert them of the disease.

Other devices are being developed, whereby spore traps use qPCR testing or LAMP assays to detect the presence of disease DNA in the air.

Although the technologies are some way off landing in a field near you, they show great promise, says Mr Norman.

“There is potential for these technologies to work together.

You could have a spore sensor looking for the presence of spores and then use remote sensing to detect when the crop actually started becoming infected.

There is a synergy between these technologies.

“The implications mean growers will have a lot more decision-making powers as to when to time fungicides instead of a blanket approach based on a growth stage or calendar date.”

Taking care of clean varieties

The next phase of Bayer’s Rapid Disease Detection trials will determine how the level of disease found in the leaf affects different varieties, particularly those with high resistance ratings.

It is hoped the information from the trials will give growers a new layer of information when it comes to making fungicide choices for certain varieties.

Rapid Disease Detection uses a similar method to Swift Detect, where the quantity of septoria DNA on a leaf sample is assessed using qPCR testing for a rapid turnaround result.

Ben Giles, commercial technical manager at Bayer, says: “If you are growing a good [septoria-resistant] variety such as Extase and test it just before T1 and find basically nothing in there, you could cut back on what you were planning to do or only use chemistry for the amount of pathogen that is there.

“If you know a variety such as Extase can cope with that level of disease, you might not need to do very much at all.

On weaker varieties, particularly when drilled early, you might think the septoria level is higher than expected so you can take that into account with your choice of chemistry.” In dirtier varieties, visual disease is also easier to spot, but for varieties such as KWS Extase, growers could be unaware that the variety is limiting disease development.

John Miles, product development manager at KWS, says: “How we look after cleaner varieties is one of the challenges going forward and I think it will be really beneficial to understand how much less disease they carry and how they perform in keeping the lid on disease before things escalate.” The test will also provide useful information on whether fungicides are running out of steam during the season.

Rapid Disease Detection is being trialled across UK farms this year and currently focuses on septoria but will be expanded into eyespot and yellow rust.

Mr Giles expects most growers to opt for two tests per variety per season, with the loss of chlorothalonil leaving few options for septoria prior to T1.


Cambridgeshire grower Russell McKenzie is hosting one set of variety trials and says the latent disease period has been something growers were all too aware of but have not been able to act on, until now.

Although yellow rust has become more challenging, septoria is the first disease Mr McKenzie’s thoughts turn to each season and with fewer tools to eradicate it, deciding on a fungicide programme involves a big risk, he says.

“When you’re in a season and planning fungicides, you’re looking at something that’s going to last three to four weeks and guessing what the weather is going to do.

The test will help with fungicide choice, in terms of knowing where we are and what rate to consider using.

It makes it a lot more interesting if you know your septoria is low or medium and building.

“If you’re in a real septoria hotbed situation [this test] will be really useful in terms of whether you should go all in or whether you can trim your rates back or use a different product.”

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2021-03-12T14:56:11+00:00March 12th, 2021|Blog Post|