ArticleRice (New York, N.Y.)2020
Development of Whole-Genome Agarose-Resolvable LInDel Markers in Rice.
Article in Rice (New York, N.Y.), 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed, 47 citations in OpenAlex.
- Development of InDel-Based Identification Methods for Wild and Domesticated Populations: A Case Study ofAnimals : an open access journal from MDPI · 2026Article
- FScientific reports · 2025Article
- Identification of Insertion and Deletion (InDel) Markers for Chickpea (Plants (Basel, Switzerland) · 2024Article
- Allelic variation in rice blast resistance: a pathway to sustainable disease management.Molecular biology reports · 2024Review
- A Pseudo-near isogenic FMolecular breeding : new strategies in plant improvement · 2023Article
- Article
- Conventional Gel Electrophoresis-Resolvable Insertion/Deletion Markers for Individual Identification and Analysis of Population Genetics in Red-Crowned Cranes in Eastern Hokkaido, Japan.Animals : an open access journal from MDPI · 2022Article
- Grain Size Associated Genes and the Molecular Regulatory Mechanism in Rice.International journal of molecular sciences · 2022Review
- 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
- Genomic Variation in KoreanGenes · 2021Article
- Development of a genome-wide InDel marker set for allele discrimination between rice (Oryza sativa) and the other seven AA-genome Oryza species.Scientific reports · 2021Article
- Genome-wide association study and Mendelian randomization analysis provide insights for improving rice yield potential.Scientific reports · 2021Article
- Agarose-resolvable InDel markers based on whole genome re-sequencing in cucumber.Scientific reports · 2021Article
- Breeding Potentials of Bambara Groundnut for Food and Nutrition Security in the Face of Climate Change.Frontiers in plant science · 2021Review
- Conserved Imprinted Genes between Intra-Subspecies and Inter-Subspecies Are Involved in Energy Metabolism and Seed Development in Rice.International journal of molecular sciences · 2020Article
- Genome-Wide Discovery of InDel Markers in Sesame (Plants (Basel, Switzerland) · 2020Article
- Grain Size Selection Using Novel Functional Markers Targeting 14 Genes in Rice.Rice (New York, N.Y.) · 2020Article
Corrections and comments
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Authors and funding
9 authors at 2 institutions in 1 country.
Funding
Abstract
The level of difficulty involved in separating marker genotypes greatly determines the utilization of such marker-aided selection (MAS) by breeders. Genotyping by use of agarose gel electrophoresis is easily accepted by breeders due to its simple requirements and easy operation in the lab. Here, we extracted 19,937 large fragment insertions/deletions (LInDels) that were 30-55 bp based on two indica rice and one japonica rice reference genome sequences. Thousands of primer pairs were designed by the Primer 3 program to amplify the corresponding LInDels, and 6582 LInDel markers with unique genome loci were reserved after being tested by e-PCR; 346 of these markers were validated in a panel of 22 cultivars by running on a 1.5% agarose gel. Most LInDel markers had a considerable number of polymorphisms. The LInDel markers have an equivalent efficiency to that of the SSR and SNP markers in identifying hybrids, estimating genetic distance and developing genetic linkage maps. The hybrid genotypes of the LInDel markers exhibited three bands, which were the result of heteroduplex formation between the insertion allele and the deletion allele. Fifty-five breeding markers, including 9 intragenic markers and 46 closely linked LInDel markers, were developed for 55 known genes that are related to yield, biotic and abiotic stress tolerance. These agarose-resolvable LInDel markers will be welcomed by breeders and will play an important role in MAS.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.