Is fungicide actually effective on Sclerotinia head rot in sunflower?
By Morgan Cott, Agronomy Extension Specialist – Special Crops, Manitoba Crop Alliance
This is one of the most difficult questions to answer because there are many things to consider. I also don’t want to be outright negative because we do still have options for sclerotinia management in sunflowers. However, management is the operative word.
First of all, sclerotinia head rot infections have an interesting pathway. Spores use dead sunflower florets, plus pollen, as the base to infect a sunflower plant. The spores grow into the receptacle, infecting and decaying the entire head after a period of time. Sclerotinia wilt (basal stalk rot) and mid-stalk rot are also infected by the same sclerotinia species, but it will be via the mycelia that grow from the sclerotia bodies in the soil for basal stalk rot. Mid-stalk rot is also infected by ascospores, but this can be earlier in the season than head rot or at the same time.

Sclerotinia sclerotiorum Diseases of Sunflower (White mold) – The American Phytopathology Society (APS)
So, management of sclerotinia does not start at flowering. Crop rotation is the most obvious management tool that we are familiar with in sunflowers, but it is not reliable. Yes, always put at least three years between sunflower crops and any other oilseed that is a host to sclerotinia, but sclerotia bodies have a long life in the soil and it feels impossible to get rid of them.
Here are some additional management tools that, if layered, will definitely help manage the potential of sclerotinia infections of any kind, in any crop:
Nitrogen – avoid excess nitrogen rates, as this will encourage dense vegetative growth and prime conditions in the lower canopy for sclerotia development.
Weed control – many broadleaf weeds and volunteers can be host to sclerotinia, which can multiply sclerotia in the soil after a season of successful weed infections.
Tillage – tillage will move sclerotia bodies around in the soil, burying them and then also bringing them to the surface in a cycle. No-till simply leaves the sclerotia on the soil surface, ready for germination at any moment. The best practice may be to rotate multiple years of no-till with non-host crops so the sclerotia germinate but do not have a proper host to multiply, thereby decreasing in population.
Genetics – unfortunately, this still does not seem like it will be an option in sunflowers as it cannot be perfected or reliable enough to build resistance, or even tolerance, to sclerotinia. It has been found in the past that some hybrids did appear to have partial resistance, though that degree of resistance is easily exhausted in high sclerotinia incidence.
Fungicides – let’s get into this and I will summarize some recent work done in the Dakotas.
Sunflower susceptibility to head rot increases as bloom stage progresses and then decreases at R6 staging, where conditions have to be ideal for infection. At R7 and beyond, infection will not occur. Interestingly, at early bloom if temperatures are high, that is when risk is lowest during all susceptible stages.
In 2017-18, North Dakota State University (NDSU) researchers conducted fungicide efficacy trials using Proline and Endura (Lance WDG equivalent) and different application methods on head rot (boom-mounted nozzles and drop nozzles). Summarizing a large project, these are the key takeaways from NDSU plant pathologist Michael Wunsch:
- Proline displayed moderate reductions in Sclerotinia head rot when disease pressure was low to moderate (<30 per cent incidence) with both standard boom-mounted nozzles and drop nozzles
- Residual activity may be limited to the first 1 – 3 days after bloom
- Coverage to the front of the head is optimized in the first half of bloom using standard boom-mounted nozzles
- Endura (Lance WDG equivalent) showed little or no efficacy against head rot irrespective of application method
- A significant part of the yield gain associated with fungicide applications targeting Sclerotinia head rot was presented by management of other diseases (rust, Phoma, Phomopsis, etc.)
See full presentation document on “Are fungicides useful for managing Sclerotinia head rot in sunflowers?” by Michael Wunsch. Or Michael Wunsch explains it in this YouTube video.
Essentially, if relying on fungicide, application has to hit the front of every sunflower head and within one day of infection, which is next to impossible to predict. The direct application to the front of the sunflower head may be improved with drone applications, but that is just speculation at this point.
MCA is in the third year of a field-scale trial in our Research on the Farm program, allowing sunflower farmers to test their product(s) of choice and method of choice for the control of Sclerotinia head rot. In 2026, we have two participants that conducted the trial using their spray drones, so we are looking forward to those results and subsequent data collection. See full results from 2024 and 2025 trial years here.
In conclusion, manage your sunflowers very well! Shift focus from sclerotinia control to managing other sunflower diseases, such as rust and Phomopsis, and keeping the full plant healthy to better fight infection. Other management practices to follow are appropriate nitrogen fertilization to prevent excessive vegetative growth, crop rotation of at least four years, control of broadleaf weeds that may also be a host and no-till management where sclerotia bodies on the soil surface form apothecia and then ascospores but have no host to reproduce.
Other resources
- Manitoba Crop Alliance – Sclerotinia ID Card
- Manitoba Agriculture – Sclerotinia in Sunflowers
- National Sunflower Association – White Mold





