ArticleScientific reports2021
Development of a genome-wide InDel marker set for allele discrimination between rice (Oryza sativa) and the other seven AA-genome Oryza species.
Article in Scientific reports, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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14 citing papers in PubMed, 26 citations in OpenAlex.
- Harnessing salt tolerance and CScientific reports · 2026Article
- Development and validation of genome-wide polymorphic InDel marker set for harnessing the CC-genome wild rice species in the genusFrontiers in plant science · 2026Article
- Bioinformatics in crop research: using genomic data for crop improvement.Frontiers in plant science · 2026Review
- Mapping Genomic Regions for Grain Protein Content and Quality Traits in Milled Rice (Plants (Basel, Switzerland) · 2025Article
- Development and Validation of Kompetitive Allele-Specific Polymerase Chain Reaction Markers for Seed Protein Content in Soybean.Plants (Basel, Switzerland) · 2024Article
- Wild rice: unlocking the future of rice breeding.Plant biotechnology journal · 2024Review
- Fantastic genes: where and how to find them? Exploiting rice genetic resources for the improvement of yield, tolerance, and resistance to a wide array of stresses in rice.Functional & integrative genomics · 2023Review
- Available cloned genes and markers for genetic improvement of biotic stress resistance in rice.Frontiers in plant science · 2023Review
- Development of Omni InDel and supporting database for maize.Frontiers in plant science · 2023Article
- Development and Validation of SNP and InDel Markers for Pod-Shattering Tolerance in Soybean.International journal of molecular sciences · 2022Article
- Whole Genome Resequencing of 20 Accessions of Rice Landraces Reveals Javanica Genomic Structure Variation and Allelic Genotypes of a Grain Weight Gene TGW2.Frontiers in plant science · 2022Article
- Development of InDel markers for Oryza sativa ssp. javanica based on whole-genome resequencing.PloS one · 2022Article
- A Comprehensive Study of the GenusGenes · 2021Article
- Genomic Variation in KoreanGenes · 2021Article
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Authors and funding
15 authors at 5 institutions in 4 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Wild relatives of rice in the genus Oryza (composed of 24 species with 11 different genome types) have been significantly contributing to the varietal improvement of rice (Oryza sativa). More than 4000 accessions of wild rice species are available and they are regarded as a "genetic reservoir" for further rice improvement. DNA markers are essential tools in genetic analysis and breeding. To date, genome-wide marker sets for wild rice species have not been well established and this is one of the major difficulties for the efficient use of wild germplasm. Here, we developed 541 genome-wide InDel markers for the discrimination of alleles between the cultivated species O. sativa and the other seven AA-genome species by positional multiple sequence alignments among five AA-genome species with four rice varieties. The newly developed markers were tested by PCR-agarose gel analysis of 24 accessions from eight AA genome species (three accessions per species) along with two representative cultivars (O. sativa subsp. indica cv. IR24 and subsp. japonica cv. Nipponbare). Marker polymorphism was validated for 475 markers. The number of polymorphic markers between IR24 and each species (three accessions) ranged from 338 (versus O. rufipogon) to 416 (versus O. longistaminata) and the values in comparison with Nipponbare ranged from 179 (versus O. glaberrima) to 323 (versus O. glumaepatula). These marker sets will be useful for genetic studies and use of the AA-genome wild rice species.
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