ArticleBMC genomics2009
New DArT markers for oat provide enhanced map coverage and global germplasm characterization.
Article in BMC genomics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 60 papers.
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Who cites it
60 citing papers in PubMed.
- Application of NGS Technology, Association Mapping, and Physical Mapping Technologies to Identify Candidate Genes Associated with Maize (International journal of molecular sciences · 2026Article
- Genetic diversity analysis of phenotypic and agronomic traits in oat germplasm resources.Frontiers in plant science · 2025Article
- Genome-wide analysis for root and leaf architecture traits associated with drought tolerance at the seedling stage in a highly ecologically diverse wheat population.Computational and structural biotechnology journal · 2024Article
- Genetic diversity of a Silybum marianum (L.) Gaertn. germplasm collection revealed by DNA Diversity Array Technology (DArTseq).PloS one · 2024Article
- First insight into the phylogeny of fine-leavedEcology and evolution · 2023Article
- The Use of DArTseq Technology to Identify Markers Related to the Heterosis Effects in Selected Traits in Maize.Current issues in molecular biology · 2023Article
- Population structure analysis and genome-wide association study of a hexaploid oat landrace and cultivar collection.Frontiers in plant science · 2023Article
- OMICS in Fodder Crops: Applications, Challenges, and Prospects.Current issues in molecular biology · 2022Review
- Breeding oat for resistance to the crown rust pathogen Puccinia coronata f. sp. avenae: achievements and prospects.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2022Review
- Consensus genetic map and QTLs for morphological and agronomical traits in mungbean using DArT markers.Physiology and molecular biology of plants : an international journal of functional plant biology · 2022Article
- Formation of Potential Heterotic Groups of Oat Using Variation at Microsatellite Loci.Plants (Basel, Switzerland) · 2021Article
- Genetic Similarity ofPlants (Basel, Switzerland) · 2021Article
- Cytogenetic evidence supports Avena insularis being closely related to hexaploid oats.PloS one · 2021Article
- Article
- Identification of molecular markers for the Pc39 gene conferring resistance to crown rust in oat.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2020Article
- Implementing within-cross genomic prediction to reduce oat breeding costs.The plant genome · 2020Article
- Selection of Parental Material to Maximize Heterosis Using SNP and SilicoDarT Markers in Maize.Plants (Basel, Switzerland) · 2019Article
- Unlocking the Genetic Diversity and Population Structure of a Wild Gene Source of Wheat,Frontiers in plant science · 2019Article
- Haplotype-based genotyping-by-sequencing in oat genome research.Plant biotechnology journal · 2018Article
- Multi-Environmental Trials Reveal Genetic Plasticity of Oat Agronomic Traits Associated With Climate Variable Changes.Frontiers in plant science · 2018Article
Corrections and comments
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Authors and funding
26 authors.
Funding
Abstract
backgroundGenomic discovery in oat and its application to oat improvement have been hindered by a lack of genetic markers common to different genetic maps, and by the difficulty of conducting whole-genome analysis using high-throughput markers. This study was intended to develop, characterize, and apply a large set of oat genetic markers based on Diversity Array Technology (DArT).
resultsApproximately 19,000 genomic clones were isolated from complexity-reduced genomic representations of pooled DNA samples from 60 oat varieties of global origin. These were screened on three discovery arrays, with more than 2000 polymorphic markers being identified for use in this study, and approximately 2700 potentially polymorphic markers being identified for use in future studies. DNA sequence was obtained for 2573 clones and assembled into a non-redundant set of 1770 contigs and singletons. Of these, 705 showed highly significant (Expectation < 10E-10) BLAST similarity to gene sequences in public databases. Based on marker scores in 80 recombinant inbred lines, 1010 new DArT markers were used to saturate and improve the 'Kanota' x 'Ogle' genetic map. DArT markers provided map coverage approximately equivalent to existing markers. After binning markers from similar clones, as well as those with 99% scoring similarity, a set of 1295 non-redundant markers was used to analyze genetic diversity in 182 accessions of cultivated oat of worldwide origin. Results of this analysis confirmed that major clusters of oat diversity are related to spring vs. winter type, and to the presence of major breeding programs within geographical regions. Secondary clusters revealed groups that were often related to known pedigree structure.
conclusionThese markers will provide a solid basis for future efforts in genomic discovery, comparative mapping, and the generation of an oat consensus map. They will also provide new opportunities for directed breeding of superior oat varieties, and guidance in the maintenance of oat genetic diversity.
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