Pathogen Resistance Profiling via Selective DNA Sequencing
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Solution Overview
Problem
Plant pathogens develop resistance to fungicides, reducing their effectiveness in controlling plant diseases, and there is a need for real-time or close to real-time tailored recommendations for disease control measures.
Innovation Solution
A method for determining the resistance and/or virulence profile of a plant pathogen by receiving a sample, subjecting it to DNA sequencing, determining genetic variances, and quantifying them to generate a resistance and/or virulence profile, which can inform tailored disease control measures.
Engineering Contradictions & Design Principles
Engineering Contradiction Analysis
1Measurement precision
If DNA sequencing is used to determine pathogen resistance profiles, then measurement precision and speed of resistance detection are improved, but device complexity and cost increase
Solution Approach 1:
The patent extracts and sequences only the specific genetic regions associated with fungicide resistance (target site genes and efflux pump genes) rather than performing whole-genome sequencing. This selective extraction reduces the complexity and cost of the sequencing system while maintaining high measurement precision for resistance detection.
Solution Approach 2:
The resistance detection system is segmented into modular components: sample collection, DNA extraction, selective PCR amplification of resistance genes, sequencing, and bioinformatics analysis. This segmentation allows each component to be optimized independently and reduces overall system complexity.
2Productivity
If real-time resistance monitoring is implemented, then productivity of disease control decisions is improved, but loss of time in sample processing and analysis increases
Solution Approach 1:
The patent performs preliminary actions by pre-designing and pre-optimizing the PCR primers and sequencing protocols for specific pathogen groups. This allows rapid sample processing and analysis, reducing the time from sample collection to resistance profile generation while maintaining high productivity in disease control decision-making.
3Reliability
If comprehensive resistance mechanisms are monitored, then reliability of disease control recommendations is improved, but device complexity and analysis difficulty increase
Solution Approach 1:
The patent applies local quality by focusing the sequencing and analysis on specific genetic loci known to be associated with resistance mechanisms (target site genes like cytochrome b, demethylation inhibitors, succinate dehydrogenase genes, and efflux pump genes). This localized approach maintains high reliability in resistance detection while avoiding the complexity of analyzing the entire genome.
Applied Scientific Principles
This section explains which scientific principles are used to turn an abstract innovation direction into a practical engineering solution.
Function Achieved in This Case
This method provides a rapid and accurate understanding of pathogen resistance and virulence, enabling more effective disease control measures and resistance management programs, thereby maintaining the efficacy of fungicides and optimizing crop protection.
Implementation Method 1
subjecting the sample to DNA sequencing, determining the presence of at least one genetic variance of the plant pathogen
Data Source
AI summary
A method for determining a resistance and/or virulence profile for a plant pathogen in a location. The method comprising receiving a sample of a plant pathogen, subjecting the sample to DNA sequencing, determining the presence of at least one genetic variance of the plant pathogen and quantifying said at least one genetic variance based on the DNA sequencing, and generating a resistance profile and/or virulence profile of the plant pathogen.