ArticleTAG. Theoretical and applied genetics. Theoretische und angewandte Genetik2016
Population structure and genome-wide association analysis for frost tolerance in oat using continuous SNP array signal intensity ratios.
Article in TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
23 citing papers in PubMed.
- Characterization of oat chromosome rearrangements in advanced breeding lines and implications for genetic improvement.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Genome-wide association for multiple quantitative traits in forage oat germplasm based on specific length amplified fragment sequencing.Frontiers in plant science · 2025Article
- Utilizing Genomics to Characterize the Common Oat Gene Pool-The Story of More Than a Century of Polish Breeding.International journal of molecular sciences · 2023Article
- Population structure analysis and genome-wide association study of a hexaploid oat landrace and cultivar collection.Frontiers in plant science · 2023Article
- Exploration of the Genetic Diversity of Solina Wheat and Its Implication for Grain Quality.Plants (Basel, Switzerland) · 2022Article
- Identification of Candidate Genes for Salinity and Anaerobic Tolerance at the Germination Stage in Rice by Genome-Wide Association Analyses.Frontiers in genetics · 2022Article
- Genomic prediction and training set optimization in a structured Mediterranean oat population.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2021Article
- Using probabilistic genotypes in linkage analysis of polyploids.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2021Article
- Population genomics of Mediterranean oat (A. sativa) reveals high genetic diversity and three loci for heading date.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2021Article
- Review
- Genome-Wide Identification of Loci Associated With Phenology-Related Traits and Their Adaptive Variations in a Highbush Blueberry Collection.Frontiers in plant science · 2021Article
- Genome-Wide Association Study Reveals the Genetic Architecture of Seed Vigor in Oats.G3 (Bethesda, Md.) · 2020Article
- 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 study identifies favorable SNP alleles and candidate genes for frost tolerance in pea.BMC genomics · 2020Article
- Genome-wide association mapping of Fusarium langsethiae infection and mycotoxin accumulation in oat (Avena sativa L.).The plant genome · 2020Article
- Modeling Crop Genetic Resources Phenotyping Information Systems.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
- An Integration of Genome-Wide Association Study and Gene Co-expression Network Analysis Identifies Candidate Genes of Stem Lodging-Related Traits inFrontiers in plant science · 2018Article
- Tools for Genetic Studies in Experimental Populations of Polyploids.Frontiers in plant science · 2018Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
10 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
key messageInfinium SNP data analysed as continuous intensity ratios enabled associating genotypic and phenotypic data from heterogeneous oat samples, showing that association mapping for frost tolerance is a feasible option. Oat is sensitive to freezing temperatures, which restricts the cultivation of fall-sown or winter oats to regions with milder winters. Fall-sown oats have a longer growth cycle, mature earlier, and have a higher productivity than spring-sown oats, therefore improving frost tolerance is an important goal in oat breeding. Our aim was to test the effectiveness of a Genome-Wide Association Study (GWAS) for mapping QTLs related to frost tolerance, using an approach that tolerates continuously distributed signals from SNPs in bulked samples from heterogeneous accessions. A collection of 138 European oat accessions, including landraces, old and modern varieties from 27 countries was genotyped using the Infinium 6K SNP array. The SNP data were analyzed as continuous intensity ratios, rather than converting them into discrete values by genotype calling. PCA and Ward's clustering of genetic similarities revealed the presence of two main groups of accessions, which roughly corresponded to Continental Europe and Mediterranean/Atlantic Europe, although a total of eight subgroups can be distinguished. The accessions were phenotyped for frost tolerance under controlled conditions by measuring fluorescence quantum yield of photosystem II after a freezing stress. GWAS were performed by a linear mixed model approach, comparing different corrections for population structure. All models detected three robust QTLs, two of which co-mapped with QTLs identified earlier in bi-parental mapping populations. The approach used in the present work shows that SNP array data of heterogeneous hexaploid oat samples can be successfully used to determine genetic similarities and to map associations to quantitative phenotypic traits.
Indexed as
Identifiers
What OpenQuestion holds
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.