ArticleBMC genomics2024
SNP loci identification and KASP marker development system for genetic diversity, population structure, and fingerprinting in sweetpotato (Ipomoea batatas L.).
Article in BMC genomics, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed.
- SSR marker development for analysis of the genetic diversity and identification of species and infraspecific ranks in the genus Phyllostachys.BMC plant biology · 2026Article
- Genetic Diversity and SNP-Based Fingerprinting of 94 Pumpkin Cultivars: Database Establishment and Population Analysis.Plants (Basel, Switzerland) · 2026Article
- SLAF-seq efficiently identifies SNP markers for wheat (Triticum aestivum L.) improvement.BMC genomics · 2026Article
- Genomic divergence, introgression and KASP fingerprinting panel development in five cultivar groups of sweet osmanthus.BMC plant biology · 2026Article
- Development of KASP markers, SNP fingerprinting and population structure analysis ofFrontiers in plant science · 2026Article
- Development of KASP molecular markers and construction of fingerprinting for cowpea (Vigna unguiculata (L.) Walp.) based on ddRAD-Seq.PloS one · 2026Article
- Article
- Development of KASP Molecular Markers and Candidate Gene Mining for Heat Tolerance-Related Traits inGenes · 2025Article
- Integrative Physiological and Transcriptomic Analysis Reveals Metabolic Adaptation and Cold-Tolerance Marker Development in Winter Rye Under Low-Temperature Stress.Plants (Basel, Switzerland) · 2025Article
- A new database of chestnut DNA fingerprints for genetic diversity assessment, precise varietal identification, and traceability.Database : the journal of biological databases and curation · 2025Article
- Advances and challenges in plant molecular marker technologies and their applications in the artificial intelligence empowered era.Frontiers in plant science · 2025Review
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Authors and funding
9 authors.
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Abstract
Sweetpotato (Ipomoea batatas L.), an important food and industrial crop in the world, has a highly heterozygous hexaploid genome, making the development of single nucleotide polymorphism (SNP) markers challenging. Identifying SNP loci and developing practical SNP markers are crucial for genomic and genetic research on sweetpotato. A restriction site-associated DNA sequencing analysis of 60 sweetpotato accessions in this study yielded about 7.97 million SNPs. Notably, 954 candidate SNPs were obtained from 21,681 high-quality SNPs. Based on their stability and polymorphism, 274 kompetitive allele specific PCR (KASP) markers were then developed and uniformly distributed on chromosomes. The 274 KASP markers were used to genotype 93 sweetpotato accessions to evaluate their utility for assessing germplasm and analyzing genetic diversity and population structures. These markers had respective mean values of 0.24, 0.34, 0.31, and 0.25 for minor allele frequency, heterozygosity, gene diversity, and polymorphic information content (PIC). Their genetic pedigree led to the division of all accessions into three primary clusters, which were found to be both interrelated and independent. Finally, 74 KASP markers with PIC values greater than 0.35 were selected as core markers. These markers were used to construct the DNA fingerprints of 93 sweetpotato accessions and were able to differentiate between all accessions. To the best of our knowledge, this is the first attempt at the development and application of KASP markers in sweetpotato. However, due to sweetpotato's polyploidy, heterozygosity and the complex genome, the KASP marker conversion rate in this study was relatively low. To improve the KASP marker conversion rate, and accuracies in SNP discovery and marker validation, further studies including more accessions from underrepresented regions are needed in sweetpotato.
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