ArticleBMC biology2019
Genomic insights from the first chromosome-scale assemblies of oat (Avena spp.) diploid species.
Article in BMC biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 42 papers.
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Who cites it
42 citing papers in PubMed.
- Dynamic evolution and hierarchical regulation of rDNA in polyploid oat.The Plant journal : for cell and molecular biology · 2026Article
- Characterization of oat chromosome rearrangements in advanced breeding lines and implications for genetic improvement.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Transposable element dynamics drive rapid evolution of centromere architecture in the Avena genus.Genome biology · 2026Article
- A pangenome and pantranscriptome of hexaploid oat.Nature · 2026Article
- Super-pangenome analyses across 35 accessions of 23 Avena species highlight their complex evolutionary history and extensive genomic diversity.Nature genetics · 2025Article
- A Comparative Bioinformatic Investigation of the Rubisco Small Subunit Gene Family in True Grasses Reveals Novel Targets for Enhanced Photosynthetic Efficiency.International journal of molecular sciences · 2025Article
- A global assembly of landrace oat (Avena sativa L.) accessions is a discovery resource for adaptive variation, association mapping, and trait deployment.G3 (Bethesda, Md.) · 2025Article
- High-quality genome of allotetraploid Avena barbata provides insights into the origin and evolution of B subgenome in Avena.Journal of integrative plant biology · 2025Article
- The near-complete genome assembly of hexaploid wild oat reveals its genome evolution and divergence with cultivated oats.Nature plants · 2024Article
- Genome Variability in Artificial Allopolyploid Hybrids ofInternational journal of molecular sciences · 2024Article
- Genome-wide expansion and reorganization during grass evolution: from 30 Mb chromosomes in rice and Brachypodium to 550 Mb in Avena.BMC plant biology · 2023Article
- Subgenome phasing for complex allopolyploidy: case-based benchmarking and recommendations.Briefings in bioinformatics · 2023Article
- Characterization of the Metallothionein Gene Family inAntioxidants (Basel, Switzerland) · 2023Article
- High-quality chromosome-level de novo assembly of the Trifolium repens.BMC genomics · 2023Article
- The comparison of polymorphism among Avena species revealed by retrotransposon-based DNA markers and soluble carbohydrates in seeds.Journal of applied genetics · 2023Article
- Genetic mapping of the powdery mildew resistance gene Pm7 on oat chromosome 5D.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2023Article
- Non-B-form DNA tends to form in centromeric regions and has undergone changes in polyploid oat subgenomes.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Population structure analysis and genome-wide association study of a hexaploid oat landrace and cultivar collection.Frontiers in plant science · 2023Article
- 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
- A reference-anchored oat linkage map reveals quantitative trait loci conferring adult plant resistance to crown rust (Puccinia coronata f. sp. avenae).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2022Article
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14 authors.
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Abstract
backgroundCultivated hexaploid oat (Common oat; Avena sativa) has held a significant place within the global crop community for centuries; although its cultivation has decreased over the past century, its nutritional benefits have garnered increased interest for human consumption. We report the development of fully annotated, chromosome-scale assemblies for the extant progenitor species of the A
resultsThe A. atlantica and A. eriantha genome assemblies span 3.69 and 3.78 Gb with an N50 of 513 and 535 Mb, respectively. Annotation of the genomes, using sequenced transcriptomes, identified ~ 50,000 gene models in each species-including 2965 resistance gene analogs across both species. Analysis of these assemblies classified much of each genome as repetitive sequence (~ 83%), including species-specific, centromeric-specific, and telomeric-specific repeats. LTR retrotransposons make up most of the classified elements. Genome-wide syntenic comparisons with other members of the Pooideae revealed orthologous relationships, while comparisons with genetic maps from common oat clarified subgenome origins for each of the 21 hexaploid linkage groups. The utility of the diploid genomes was demonstrated by identifying putative candidate genes for flowering time (HD3A) and crown rust resistance (Pc91). We also investigate the phylogenetic relationships among other A- and C-genome Avena species.
conclusionsThe genomes we report here are the first chromosome-scale assemblies for the tribe Poeae, subtribe Aveninae. Our analyses provide important insight into the evolution and complexity of common hexaploid oat, including subgenome origin, homoeologous relationships, and major intra- and intergenomic rearrangements. They also provide the annotation framework needed to accelerate gene discovery and plant breeding.
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