Indoor Growing
Cannabis Pathogens in New Zealand: Identification, Prevention & Treatment
Date Published

Pathogens in New Zealand and Cannabis
Main Pathogens Affecting Indoor Cannabis
Overview Table
Pathogen | Type | Prevalence | Primary Infection Site | Main Symptoms |
|---|---|---|---|---|
Fusarium | Fungus | Moderate | Roots, stem base | Wilting, yellowing, stem rot |
Pythium | Oomycete | High | Roots | Root rot, damping-off |
Botrytis | Fungus | High | Buds, leaves | Gray mold, bud rot |
Detailed Information
1. Fusarium
- Description: Soil-borne fungal pathogen causing vascular wilt and root rot.
- Prevalence: Moderate in indoor grows, more common in reused soil or hydroponic systems.
- Symptoms:
- Wilting despite adequate water
- Yellowing of lower leaves
- Brown discoloration in stem vascular tissue
- Stunted growth
- Favorable Conditions:
- High soil moisture
- Temperatures between 20-30°C (68-86°F)
- Poor drainage
- Impact on Yield: Can reduce yield by 20-50% if left untreated.
- Common Scenario: Introducing contaminated soil or using unsterilized equipment.
- Prevention:
- Use sterile growing media
- Maintain proper pH (5.8-6.2)
- Avoid overwatering
- Sterilize all equipment
- Treatment:
- Remove and destroy infected plants
- Apply beneficial microbes (Trichoderma spp., Bacillus subtilis)
- Improve drainage and reduce watering
2. Pythium
- Description: Water mold causing root rot and damping-off in seedlings.
- Prevalence: High, especially in hydroponic systems and overwatered soil.
- Symptoms:
- Brown, mushy roots
- Stunted growth
- Wilting
- Damping-off in seedlings
- Favorable Conditions:
- Overwatering
- Poor drainage
- High humidity
- Temperatures above 20°C (68°F)
- Impact on Yield: Can cause total crop failure in severe cases, typically 30-60% yield loss.
- Common Scenario: Overwatering combined with poor drainage and high humidity.
- Prevention:
- Maintain proper water-to-air ratio in root zone
- Use beneficial microbes as a preventative measure
- Ensure good drainage and air circulation
- Treatment:
- Improve drainage immediately
- Apply hydrogen peroxide solution (3%) to roots
- Introduce beneficial microbes (Bacillus spp., Trichoderma spp.)
3. Botrytis (Gray Mold)
- Description: Fungal pathogen causing bud rot and gray mold on leaves and stems.
- Prevalence: High, especially during flowering stage in humid conditions.
- Symptoms:
- Gray, fuzzy mold on buds and leaves
- Brown, rotting buds
- Wet, slimy appearance on affected areas
- Favorable Conditions:
- High humidity (above 60%)
- Poor air circulation
- Temperatures between 15-25°C (59-77°F)
- Impact on Yield: Can destroy 20-80% of a crop, often affecting the most valuable parts (buds).
- Common Scenario: Dense canopy combined with high humidity during late flowering stage.
- Prevention:
- Maintain humidity below 50% during flowering
- Ensure good air circulation
- Prune to improve airflow
- Avoid water on buds and leaves
- Treatment:
- Remove all infected plant material immediately
- Reduce humidity and increase air circulation
- Apply organic treatments (e.g., potassium bicarbonate, Bacillus subtilis)
Key Differences
Aspect | Fusarium | Pythium | Botrytis |
|---|---|---|---|
Primary Target | Vascular system | Root system | Aerial parts (buds, leaves) |
Moisture Preference | Moist soil | Very wet conditions | High air humidity |
Stage of Concern | All stages | Early growth and roots | Late flowering |
Spread Method | Soil, water, equipment | Water, infected roots | Air, physical contact |
Best Practices for Pathogen-Free Growing
- Maintain proper environmental controls (temperature, humidity, airflow)
- Use sterile growing media and clean equipment
- Implement a robust Integrated Pest Management (IPM) program
- Regularly inspect plants, especially roots and dense canopy areas
- Optimize plant spacing and prune for good air circulation
- Keep grow room clean and free of plant debris
- Quarantine new plants before introducing them to the grow space
- Use beneficial microbes as a preventative measure
- Maintain detailed records of environmental conditions and plant health
Additional Pathogens in New Zealand
- Rhizoctonia: Causes damping-off in seedlings and root rot in mature plants. Affects potatoes, cereals, and vegetables.
- Phytophthora: Causes root rot and collar rot in avocados, kiwifruit, and native kauri trees.
- Verticillium: Causes vascular wilt in potatoes, tomatoes, and other crops.
Risk of Exposure & Prevention
- Risk: Moderate to high if sanitation measures are not followed.
- Example Exposure Sequence:
- Contaminated soil or tools introduced.
- Pathogen spreads in the growing medium.
- Roots become infected.
- Plants show wilting, yellowing, and stunted growth.
- Infection spreads through water splashing or contaminated equipment.
- Treatment:
- Isolate affected plants
- Remove and destroy severely infected plants
- Reduce watering and improve drainage
- Apply appropriate fungicides
- Improve air circulation
- Sterilize tools and surfaces
- Introduce beneficial microbes
