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Development and Validation of Diagnostic KASP Markers for Brown Planthopper Resistance in Rice
V G Ishwarya Lakshmi1, M Sreedhar2, V JhansiLakshmi3
1Department of Genetics and Plant Breeding, College of Agriculture, Professor Jayashankar Telangana State Agricultural University (PJTSAU), Hyderabad, India.
Frontiers in Genetics
|July 28, 2022
Summary
Researchers identified six specific SNPs that effectively distinguish brown planthopper (BPH)-resistant rice genotypes. These markers, linked to stress resistance genes, aid in developing BPH-resistant rice varieties for improved crop yields.
Area of Science:
- Plant breeding
- Genetics
- Agricultural science
Background:
- Brown planthopper (BPH) infestation causes significant yield loss in rice (Oryza sativa L.), a staple food for a growing global population.
- Developing BPH-resistant rice cultivars is a critical objective in rice breeding programs to ensure food security.
Purpose of the Study:
- To identify single nucleotide polymorphism (SNP) markers associated with BPH resistance in rice using genome-wide association studies (GWAS).
- To validate identified SNPs for their efficiency in distinguishing BPH-resistant and susceptible rice genotypes.
Main Methods:
- Genome-wide association study (GWAS) using genotyping-by-sequencing data from 391 multi-parent advanced generation inter-cross (MAGIC) rice lines.
- Selection of significant SNPs from general linear and FarmCPU models, focusing on stress resistance pathways and known resistance genes.
- Design and validation of Kompetitive Allele-Specific PCR (KASP) assays for selected SNPs to genotype rice lines.
Main Results:
- Six SNPs (snpOS00912, snpOS00915, snpOS00922, snpOS00923, snpOS00927, snpOS00929) were identified as efficient in discriminating BPH-resistant and susceptible rice clusters.
- Validation of known BPH resistance genes (Bph17 and Bph32) using gene-specific SNPs in specific rice accessions.
- Identification of resistant rice genotypes with favorable alleles for BPH resistance.
Conclusions:
- The identified diagnostic SNPs can be utilized in marker-assisted selection (MAS) for accelerating the development of BPH-resistant rice varieties.
- These SNPs and resistant lines provide valuable resources for breeding programs aiming to enhance rice resilience against brown planthopper infestation.
- Further validation in biparental populations is recommended to confirm the utility of these SNPs as causal markers for BPH resistance.
