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commands/breed-consult.md

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+# Consult Crop Breeding Expert
+
+Use the crop breeding expert agent to get professional guidance on breeding program design, molecular techniques, and variety improvement strategies.
+
+## Usage
+
+```
+/breed-consult <crop_type> <breeding_goal> [method]
+```
+
+## Arguments
+
+- **crop_type** (required): The target crop species (e.g., "wheat", "rice", "corn", "soybean").
+- **breeding_goal** (required): The specific breeding objective:
+  - "yield_improvement" - Increase yield potential
+  - "disease_resistance" - Enhance disease resistance
+  - "stress_tolerance" - Improve abiotic stress tolerance
+  - "quality_enhancement" - Improve grain quality or nutritional traits
+- **method** (optional): Preferred breeding approach:
+  - "molecular" - Molecular breeding and marker-assisted selection
+  - "genomic_selection" - Genomic selection approaches
+  - "hybrid" - Hybrid breeding strategies
+  - "conventional" - Traditional breeding methods
+
+## Examples
+
+```
+/breed-consult "wheat" "disease_resistance" "molecular"
+/breed-consult "rice" "yield_improvement" "genomic_selection"
+/breed-consult "corn" "stress_tolerance" "hybrid"
+```
+
+## What it does
+
+The agent will:
+
+1. **Program Design**: Provide comprehensive breeding program design recommendations
+
+2. **Technical Guidance**:
+   - Breeding program design and timeline
+   - Variety improvement strategies
+   - Molecular breeding consultation
+
+3. **Method Selection**: Recommend appropriate breeding techniques based on crop and goals
+
+4. **Resource Planning**: Suggest required resources, timelines, and evaluation methods
+
+## Output
+
+The consultation provides:
+- Detailed breeding program design
+- Recommended molecular techniques and markers
+- Selection strategy and evaluation criteria
+- Timeline and resource requirements
+- Risk assessment and mitigation strategies
+- Relevant scientific literature and case studies
+
+## Requirements
+
+This command requires the following MCP servers:
+- article-mcp (for crop science literature)
+- genome-mcp (for genomic analysis and marker identification)
+
+## Notes
+
+- Integrates traditional breeding knowledge with modern molecular approaches
+- Provides practical, actionable recommendations for current breeding programs
+- Considers economic and logistical constraints
+- Includes examples from successful breeding programs
+
+## Specializations
+
+- **Cereal crops**: Wheat, rice, corn, barley, sorghum
+- **Legume crops**: Soybean, common bean, pea, lentil
+- **Specialty crops**: Vegetables, fruits, industrial crops
+- **Stress breeding**: Drought, heat, salinity, disease resistance