Novel real-time PCR based assays for differentiating fall armyworm strains using four single nucleotide polymorphisms

PeerJ

article

Ashley E. Tessnow¹  Todd M. Gilligan²  Eric Burkness³  Caroline Placidi De Bortoli⁴  Juan Luis Jurat-Fuentes⁴  Patrick Porter¹  Danielle Sekula¹  Gregory A. Sword¹ 

[1] Department of Entomology, Texas A&M University, College Station;Identification Technology Program, USDA-APHIS-PPQ-Science & Technology;Department of Entomology, University of Minnesota;Department of Entomology and Plant Pathology, University of Tennessee;Texas A&M AgriLife Research & Extension Center

关键词: Fall armyworm;    Spodoptera frugiperda;    Genetic strains;    TaqMan;    Diagnostic assay;    Real-time PCR;   

DOI  :  10.7717/peerj.12195

学科分类：社会科学、人文和艺术（综合）

来源: Inra

【 摘 要 】

The fall armyworm, Spodoptera frugiperda, is a polyphagous global pest with a preference for gramineous crops such as corn, sorghum and pasture grasses. This species is comprised of two morphologically identical but genetically distinct host strains known as the corn and rice strains, which can complicate pest management approaches. Two molecular markers are commonly used to differentiate between strains, however, discordance between these markers can lead to inconclusive strain identification. Here, we used double digest restriction site associated DNA sequencing to identify diagnostic single nucleotide polymorphisms (SNPs) with alleles unique to each strain. We then used these strain-specific SNPs to develop four real-time PCR based TaqMan assays to rapidly and reliably differentiate between strains and interstrain hybrids. These assays provide a new tool for differentiating between strains in field-collected samples, facilitating future studies on strain population dynamics and interstrain hybridization rates. Understanding the basic ecology of S. frugiperda strains is necessary to inform future management strategies.

【 授权许可】

CC BY