ArticlePloS one2013
Genome wide allele frequency fingerprints (GWAFFs) of populations via genotyping by sequencing.
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 56 papers.
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Who cites it
56 citing papers in PubMed.
- How Robust Are Genomic Offset Predictions to Methodological Choices? Insights From Perennial Ryegrass.Molecular ecology · 2026Article
- Genetic Diversity Unveiled: Cost-Effective Methods for Grassland Species.Molecular ecology resources · 2026Article
- Implications of morphological and molecular distinctness on the registration of alfalfa candidate varieties issued by a breeding program: a case study.Frontiers in plant science · 2026Article
- Genetic characterization of a global collection of common buckwheat to harness genetic resources for agricultural diversity.Frontiers in plant science · 2026Article
- PotatoMASH is a cost-effective marker system for genomic prediction in potato based on short-read haplotypes.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Genomic prediction of agronomic traits in perennial ryegrass (Lolium perenne L.) and genotype x environment interactions at the limit of the species distribution.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Molecular markers enhance substantially the distinctness of alfalfa varieties for registration and protection.The plant genome · 2025Article
- The value of early root development traits in breeding programs for biomass yield in perennial ryegrass (Lolium perenne L.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Local adaptation, genetic diversity and key environmental interactions in a collection of novel red clover germplasm.Frontiers in plant science · 2025Article
- Article
- Including marker x environment interactions improves genomic prediction in red clover (Frontiers in plant science · 2024Article
- Basic leucine zipper geneHorticulture research · 2023Article
- Multi-location trials and population-based genotyping reveal high diversity and adaptation to breeding environments in a large collection of red clover.Frontiers in plant science · 2023Article
- Genome-wide family prediction unveils molecular mechanisms underlying the regulation of agronomic traits inFrontiers in plant science · 2023Article
- A genome-wide association study of freezing tolerance in red clover (Frontiers in plant science · 2023Article
- Phenotypic variation and quantitative trait loci for resistance to southern anthracnose and clover rot in red clover.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2022Article
- Relative importance of genotype, gene expression, and DNA methylation on complex traits in perennial ryegrass.The plant genome · 2022Article
- Identification of loci controlling timing of stem elongation in red clover using genotyping by sequencing of pooled phenotypic extremes.Molecular genetics and genomics : MGG · 2022Article
- RAD-seq as an effective strategy for heterogenous variety identification in plants-a case study in Italian Ryegrass (Lolium multiflorum).BMC plant biology · 2022Article
- High-throughput estimation of allele frequencies using combined pooled-population sequencing and haplotype-based data processing.Plant methods · 2022Article
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Genotyping-by-Sequencing (GBS) is an excellent tool for characterising genetic variation between plant genomes. To date, its use has been reported only for genotyping of single individuals. However, there are many applications where resolving allele frequencies within populations on a genome-wide scale would be very powerful, examples include the breeding of outbreeding species, varietal protection in outbreeding species, monitoring changes in population allele frequencies. This motivated us to test the potential to use GBS to evaluate allele frequencies within populations. Perennial ryegrass is an outbreeding species, and breeding programs are based upon selection on populations. We tested two restriction enzymes for their efficiency in complexity reduction of the perennial ryegrass genome. The resulting profiles have been termed Genome Wide Allele Frequency Fingerprints (GWAFFs), and we have shown how these fingerprints can be used to distinguish between plant populations. Even at current costs and throughput, using sequencing to directly evaluate populations on a genome-wide scale is viable. GWAFFs should find many applications, from varietal development in outbreeding species right through to playing a role in protecting plant breeders' rights.
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