How to Manage Pests

UC Pest Management Guidelines


Stem Rot of Rice

Pathogen: Sclerotium oryzae

(Reviewed 4/04, updated 4/04, pesticides updated 10/15)

In this Guideline:


In water-sown rice, stem rot first appears during the tilleringstage as small, black lesions on leaf sheaths at the water line. As the disease progresses, infected sheaths die and slough off. The infection may eventually penetrate the culm.


The fungus overwinters as small, black resting structures called sclerotia. Sclerotiacan survive free in the soil, but are more often associated with infected rice plant residues remaining in the field after harvest. The following season, after the field is flooded, sclerotia float to the water surface and infect leaf sheaths of young rice plants at the waterline. New infections continue to occur throughout the growing season.

When the culm is infected, both grain quality and panicle size are reduced. When infection occurs very early in the season, tillers are either killed or fail to produce panicles; additional losses often result from increased lodging of infected plants. Yield losses from 6 to 24% have been measured in California.


Manage stem rot by minimizing the carryover inoculum level (i.e., the number of viable sclerotia) and by using the most resistant varieties available. Surface-applied potassium fertilizer and winter flooding of rice fields are also reported to suppress rice stem rot development. While the protectant fungicide azoxystrobin (Quadris) is labeled for stem rot, data from research trials indicate the effect on disease incidence and severity have been negligible and that applications for this disease are not economically beneficial.

Cultural Control

Carry-over inoculum produced in residue from the previous crop infects the current year's crop and any practice that minimizes the amount of inoculum in the seed bed is beneficial in disease management. One method of reducing carryover inoculum is field burning of rice residue in fall following harvest. Field burning destroys existing sclerotiaand residue upon which sclerotia form during late fall, winter, and spring. The level of carryover inoculum is determined by the completeness of the residue destruction. Another method that is as effective as field burning is cutting rice at ground level and removing the straw from the field in fall. Tillage practices, such as moldboard plowing, that bury sclerotia and prevent it from floating and infecting the plants at the waterline reduce inoculum levels. Again, the level of disease reduction is dependent on the effectiveness of the burying, which could be hindered by soil moisture conditions or a large volume of residue.

Fallowing fields for a year will reduce the number and viability of the sclerotia. If a fallow field is irrigated during summer, the crop residue degrades even faster, thus reducing the production of sclerotia.

In addition to managing inoculum levels, use the most resistant varieties available. All public rice varieties currently being grown in California are susceptible to stem rot to some degree. Average stem rot scores are included in the current list of characteristics of publicly developed rice varieties. Least susceptible of the widely grown varieties include M-205, M-206, and M-402. Most susceptible are M-103, M-104, M-202, M-204, M401, and S-102.

Stem rot incidence and severity increase as stand densities are increased; thus, avoid rice stands that are too dense. In research plots, rice stand densities of 10 to 12 established plants per square foot produced yields equal to stands ranging up to 34 plants per square foot. A seeding rate of 150 pounds per acre is recommended.

Excess rates of nitrogen fertilizer increase rice stem rot severity. Stem rot severity is lower on plants grown at minimum adequate levels of nitrogen. When growing rice at minimum adequate nitrogen levels, use rice tissue analysis, leaf color chart, or chlorophyll meter readings to monitor critical nitrogen levels during the growing season to determine any need for supplemental nitrogen.

The stem rot fungus may penetrate the plant directly or invade wounds. Practices that injure or stress rice plants (e.g., the use of phenoxyherbicides) have been shown to increase infection and disease development.

Organically Acceptable Control Methods

All the cultural practices discussed above are acceptable for organic growers.

Common name Amount per acre REI‡ PHI‡
(Example trade name)   (hours) (days)

UPDATED: 10/15
Calculate impact of pesticide on air quality
Bee precaution pesticide ratings
When choosing a pesticide, consider its usefulness in an IPM program by reviewing the pesticide's properties, efficacy, application timing, and information relating to resistance management, honey bees (PDF), and environmental impact. Not all registered pesticides are listed. Always read the label of the product being listed.
(Quadris) 12.5–15.5 fl oz 4 28
MODE-OF-ACTION GROUP NAME (NUMBER1): Quinone outside inhibitor (11)
COMMENTS: A protectant fungicide. Follow label directions. Limited studies have shown a single application at the lowest labeled rate to be effective, but results may vary under different conditions. Under heavy disease pressure and conditions favorable for disease development, a second application may be applied. Water holding period is 14 days.
(Quilt Xcel) 14–27 fl oz 12 35
MODE-OF-ACTION GROUP NAME (NUMBER1): Quinone outside inhibitor (11) and Demethylation Inhibitor (3)
Restricted entry interval (REI) is the number of hours (unless otherwise noted) from treatment until the treated area can be safely entered without protective clothing. Preharvest interval (PHI) is the number of days from treatment to harvest. In some cases the REI exceeds the PHI. The longer of two intervals is the minimum time that must elapse before harvest.
1 Group numbers are assigned by the Fungicide Resistance Action Committee (FRAC) according to different modes of actions (for more information, see Fungicides with a different Group number are suitable to alternate in a resistance management program. For fungicides with mode-of-action Group numbers 1, 4, 9, 11, or 17, make no more than one application before rotating to a fungicide with a different mode-of-action Group number; for fungicides with other Group numbers, make no more than two consecutive applications before rotating to fungicide with a different mode-of-action Group number.



[UC Peer Reviewed]

UC IPM Pest Management Guidelines: Rice
UC ANR Publication 3465


C. A. Greer, UC Cooperative Extension, Colusa County

Acknowledgments for contributions to the disease section:
R. K. Webster, Plant Pathology, UC Davis

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