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Single Nucleotide Polymorphism Analysis Using KASP Assay Reveals Genetic Variability in Rotylenchulus reniformis
Churamani Khanal1, Manjula T Kularathna2, Jeffery D Ray3
11Department of Plant Pathology and Crop Physiology, Louisiana State University AgCenter, Baton Rouge, LA 70803, U.S.A.
Plant Disease
|June 14, 2019
Summary
This study used single nucleotide polymorphisms (SNPs) to reveal genetic variability in reniform nematode (Rotylenchulus reniformis) populations across several US states. These findings are crucial for understanding nematode distribution and improving crop resistance strategies.
Area of Science:
- Plant Nematology
- Molecular Genetics
- Agricultural Science
Background:
- Reniform nematode (Rotylenchulus reniformis) is a significant agricultural pest.
- Understanding genetic diversity is key to managing nematode populations and crop damage.
Purpose of the Study:
- To determine the genetic variability among geographic isolates of Rotylenchulus reniformis.
- To evaluate the utility of single nucleotide polymorphisms (SNPs) for assessing reniform nematode genetic diversity.
Main Methods:
- Genomic DNA extraction and whole genome amplification from 26 reniform nematode isolates.
- Identification and testing of over 162 putative single nucleotide polymorphisms (SNPs).
- Genotyping assay using KASP kompetitive allele-specific PCR.
Main Results:
- 13, 17, and 19 SNPs showed genetic variability in isolates from Louisiana, Mississippi, and Arkansas, respectively.
- Seven SNPs differentiated isolates among Louisiana, Mississippi, and Arkansas.
- Eight SNPs revealed genetic variability among isolates from South Carolina, Georgia, Hawaii, and Alabama.
Conclusions:
- This study is the first to report genetic variability in geographic isolates of reniform nematode using a SNP assay.
- SNP markers are effective for evaluating R. reniformis genetic diversity, origin, and distribution.
- This genetic information can significantly aid resistance breeding programs for improved crop protection.
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