ArticleRice (New York, N.Y.)2022
Selection and Validation of 48 KASP Markers for Variety Identification and Breeding Guidance in Conventional and Hybrid Rice (Oryza sativa L.).
Article in Rice (New York, N.Y.), 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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15 citing papers in PubMed.
- Genome-wide association mapping of distinctness, uniformity and stability traits and varietal identification in rice (Oryza sativa L.).Journal of the science of food and agriculture · 2026Article
- Molecular Labelling Tool for Cereal Genetic Resources Management Derived from Barley and Tetraploid Wheat Genebank-Genomics Projects.Plants (Basel, Switzerland) · 2026Article
- Genomic divergence, introgression and KASP fingerprinting panel development in five cultivar groups of sweet osmanthus.BMC plant biology · 2026Article
- Img2Variety: Image-based intraspecific varieties identification across the whole growth period.Plant phenomics (Washington, D.C.) · 2026Article
- Development of KASP Markers for Carnation Germplasm (or Cultivar) Fingerprinting Based on Reduced-Representation Genome Sequencing Technology.Plants (Basel, Switzerland) · 2026Article
- The Diversity of the DNA-Binding Landscape in the DREB/ERF Family: Focusing on Reproductive Processes in Fruit Trees With Highly Heterozygous Genome.Plant biotechnology journal · 2026Article
- Article
- Integrative Physiological and Transcriptomic Analysis Reveals Metabolic Adaptation and Cold-Tolerance Marker Development in Winter Rye Under Low-Temperature Stress.Plants (Basel, Switzerland) · 2025Article
- Whole-genome mapping reveals QTLs linked to key agronomic traits in bi-parental populations of field cress (Lepidium campestre).BMC plant biology · 2025Article
- TAL-SRX: an intelligent typing evaluation method for KASP primers based on multi-model fusion.Frontiers in plant science · 2025Article
- Development of a robust SNP marker set for genotyping diverse gene bank collections of polyploid roses.BMC plant biology · 2024Article
- Validation of SNP Markers for Diversity Analysis, Quality Control, and Trait Selection in a Biofortified Cassava Population.Plants (Basel, Switzerland) · 2024Article
- Ppe.RPT/SSC-1: from QTL mapping to a predictive KASP test for ripening time and soluble solids concentration in peach.Scientific reports · 2024Article
- Development of KASP markers, SNP fingerprinting and population genetic analysis ofFrontiers in plant science · 2024Article
- Article
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12 authors.
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No grant is acknowledged in the PubMed record.
Abstract
backgroundBreeding of conventional and hybrid rice (Oryza sativa L.) have solved hunger problems and increased farmers' income in the world. Molecular markers have been widely used in marker-assisted breeding and identification of larger numbers of different bred varieties in the past decades. The recently developed SNP markers are applied for more stable and detectable compared with other markers. But the cost of genotyping lots SNPs is high. So, it is essential to select less representative SNPs and inexpensive detecting methods to lower the cost and accelerate variety identification and breeding process. KASP (Kompetitive Allele-Specific PCR) is a flexible method to detect the SNPs, and large number of KASP markers have been widely used in variety identification and breeding. However, the ability of less KASP markers on massive variety identification and breeding remains unknown.
resultsHere, 48 KASP markers were selected from 378 markers to classify and analyze 518 varieties including conventional and hybrid rice. Through analyzing the population structure, the 48 markers could almost represent the 378 markers. In terms of variety identification, the 48 KASP markers had a 100% discrimination rate in 53 conventional indica varieties and 193 hybrid varieties, while they could distinguish 89.1% conventional japonica rice from different breeding institutes. Two more markers added would increase the ratio from 68.38 to 77.94%. Additionally, the 48 markers could be used for classification of subpopulations in the bred variety. Also, 8 markers had almost completely different genotypes between japonica and indica, and 3 markers were found to be very important for japonica hybrid rice. In hybrid varieties, the heterozygosity of chromosomes 3, 6 and 11 was relatively higher than others.
conclusionsOur results showed that 48 KASP markers could be used to identify rice varieties, and the panel we tested could provide a database for breeders to identify new breeding lines. Also, the specific markers we found were useful for marker-assisted breeding in rice, including conventional and hybrid.
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