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Novel real-time PCR based assays for differentiating fall armyworm strains using four single nucleotide polymorphisms
Ashley E Tessnow1, Todd M Gilligan2, Eric Burkness3
1Department of Entomology, Texas A&M University, College Station, TX, United States of America.
Peerj
|October 11, 2021
Summary
Fall armyworm strains, corn and rice, can be identified using new single nucleotide polymorphism (SNP) markers. These markers enable rapid differentiation of fall armyworm strains and hybrids for better pest management.
Area of Science:
- Agricultural Entomology
- Molecular Genetics
- Pest Management
Background:
- The fall armyworm (Spodoptera frugiperda) is a major global pest affecting gramineous crops.
- Two genetically distinct strains, corn and rice, complicate management due to morphological similarity.
- Current molecular markers for strain identification can yield inconclusive results.
Purpose of the Study:
- To identify diagnostic single nucleotide polymorphisms (SNPs) unique to fall armyworm strains.
- To develop reliable real-time PCR assays for differentiating between strains and hybrids.
Main Methods:
- Utilized double digest restriction site associated DNA sequencing (ddRADseq) to discover strain-specific SNPs.
- Developed four TaqMan real-time PCR assays based on identified SNPs.
Main Results:
- Identified diagnostic SNPs unique to the corn and rice strains of S. frugiperda.
- Validated the efficacy of the developed TaqMan assays for rapid and reliable strain differentiation.
- The assays can distinguish between strains and detect interstrain hybrids.
Conclusions:
- Developed novel SNP markers and TaqMan assays for accurate identification of S. frugiperda strains.
- These tools will aid in studying strain population dynamics and hybridization.
- Improved strain identification is crucial for effective fall armyworm pest management strategies.
