ArticlePloS one2013
SNP discovery and chromosome anchoring provide the first physically-anchored hexaploid oat map and reveal synteny with model species.
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 34 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
34 citing papers in PubMed.
- Genome-Wide Association Study on Lodging Resistance-Related Traits in Oats.Plants (Basel, Switzerland) · 2026Article
- Uncovering the genetic basis of crown rust resistance in a northern-by-southern oat biparental population.PloS one · 2026Article
- Mapping and identification of molecular markers for the Pc96 gene conferring resistance to crown rust in oat.PloS one · 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
- New evidence confirming the CD genomic constitutions of the tetraploid Avena species in the section Pachycarpa Baum.PloS one · 2021Article
- Position Validation of the Dwarfing GeneFrontiers in plant science · 2021Article
- Genetic diversity and genome-wide association analysis in Chinese hulless oat germplasm.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2020Article
- Genome-wide association mapping of Fusarium langsethiae infection and mycotoxin accumulation in oat (Avena sativa L.).The plant genome · 2020Article
- Mapping of the stem rust resistance gene Pg13 in cultivated oat.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2020Article
- Molecular identification and chromosomal localization of new powdery mildew resistance gene Pm11 in oat.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2020Article
- Genomic insights from the first chromosome-scale assemblies of oat (Avena spp.) diploid species.BMC biology · 2019Article
- Development of an Axiom Sugarcane100K SNP array for genetic map construction and QTL identification.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2019Article
- The repetitive DNA landscape in Avena (Poaceae): chromosome and genome evolution defined by major repeat classes in whole-genome sequence reads.BMC plant biology · 2019Article
- Mapping Oat Crown Rust Resistance GeneG3 (Bethesda, Md.) · 2019Article
- GrainGenes: centralized small grain resources and digital platform for geneticists and breeders.Database : the journal of biological databases and curation · 2019Article
- Haplotype-based genotyping-by-sequencing in oat genome research.Plant biotechnology journal · 2018Article
- Article
- Development and Applications of a High Throughput Genotyping Tool for Polyploid Crops: Single Nucleotide Polymorphism (SNP) Array.Frontiers in plant science · 2018Review
- Subgenome-specific assembly of vitamin E biosynthesis genes and expression patterns during seed development provide insight into the evolution of oat genome.Plant biotechnology journal · 2016Article
Corrections and comments
- Erratum issued
Authors and funding
37 authors.
Funding
Abstract
A physically anchored consensus map is foundational to modern genomics research; however, construction of such a map in oat (Avena sativa L., 2n = 6x = 42) has been hindered by the size and complexity of the genome, the scarcity of robust molecular markers, and the lack of aneuploid stocks. Resources developed in this study include a modified SNP discovery method for complex genomes, a diverse set of oat SNP markers, and a novel chromosome-deficient SNP anchoring strategy. These resources were applied to build the first complete, physically-anchored consensus map of hexaploid oat. Approximately 11,000 high-confidence in silico SNPs were discovered based on nine million inter-varietal sequence reads of genomic and cDNA origin. GoldenGate genotyping of 3,072 SNP assays yielded 1,311 robust markers, of which 985 were mapped in 390 recombinant-inbred lines from six bi-parental mapping populations ranging in size from 49 to 97 progeny. The consensus map included 985 SNPs and 68 previously-published markers, resolving 21 linkage groups with a total map distance of 1,838.8 cM. Consensus linkage groups were assigned to 21 chromosomes using SNP deletion analysis of chromosome-deficient monosomic hybrid stocks. Alignments with sequenced genomes of rice and Brachypodium provide evidence for extensive conservation of genomic regions, and renewed encouragement for orthology-based genomic discovery in this important hexaploid species. These results also provide a framework for high-resolution genetic analysis in oat, and a model for marker development and map construction in other species with complex genomes and limited resources.
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