ArticleMolecular genetics and genomics : MGG2007
SNP discovery, validation, haplotype structure and linkage disequilibrium in full-length herbage nutritive quality genes of perennial ryegrass (Lolium perenne L.).
Article in Molecular genetics and genomics : MGG, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 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
19 citing papers in PubMed, 59 citations in OpenAlex.
- 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
- Effects of Different Strategies for Exploiting Genomic Selection in Perennial Ryegrass Breeding Programs.G3 (Bethesda, Md.) · 2020Article
- Genotyping-by-sequencing through transcriptomics: implementation in a range of crop species with varying reproductive habits and ploidy levels.Plant biotechnology journal · 2018Article
- An Immortalized Genetic Mapping Population for Perennial Ryegrass: A Resource for Phenotyping and Complex Trait Mapping.Frontiers in plant science · 2018Article
- Design of an F1 hybrid breeding strategy for ryegrasses based on selection of self-incompatibility locus-specific alleles.Frontiers in plant science · 2015Article
- Population Structure, Genetic Variation, and Linkage Disequilibrium in Perennial Ryegrass Populations Divergently Selected for Freezing Tolerance.Frontiers in plant science · 2015Article
- Nucleotide diversity of vernalization and flowering-time-related genes in a germplasm collection of meadow fescue (Festuca pratensis Huds. syn. Lolium pratense (Huds.) Darbysh.).Ecology and evolution · 2013Article
- A transcriptome map of perennial ryegrass (Lolium perenne L.).BMC genomics · 2012Article
- Molecular characterisation and interpretation of genetic diversity within globally distributed germplasm collections of tall fescue (Festuca arundinacea Schreb.) and meadow fescue (F. pratensis Huds.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2012Article
- Intron-length polymorphism identifies a Y2K4 dehydrin variant linked to superior freezing tolerance in alfalfa.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2012Article
- Association study between the gibberellic acid insensitive gene and leaf length in a Lolium perenne L. synthetic variety.BMC plant biology · 2011Article
- Comparison of a high-density genetic linkage map to genome features in the model grass Brachypodium distachyon.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2011Article
- Development and assessment of simple PCR markers for SNP genotyping in barley.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2009Article
- Molecular characterisation and genetic mapping of candidate genes for qualitative disease resistance in perennial ryegrass (Lolium perenne L.).BMC plant biology · 2009Article
- Identification of homologous, homoeologous and paralogous sequence variants in an outbreeding allopolyploid species based on comparison with progenitor taxa.Molecular genetics and genomics : MGG · 2008Article
- Discovery and genetic mapping of single nucleotide polymorphisms in candidate genes for pathogen defence response in perennial ryegrass (Lolium perenne L.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2008Article
- Identification of single nucleotide polymorphisms and analysis of linkage disequilibrium in sunflower elite inbred lines using the candidate gene approach.BMC plant biology · 2008Article
- Application of association mapping to understanding the genetic diversity of plant germplasm resources.International journal of plant genomics · 2008Article
- HapAsmbl: A reference-aided pipeline for assembling haplotypes in Nanopore amplicon sequence data of polymorphic populations.Applications in plant sciencesArticle
Corrections and comments
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Authors and funding
7 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Development of accurate high-throughput molecular marker systems such as SNPs permits evaluation and selection of favourable gene variants to accelerate elite varietal production. SNP discovery in perennial ryegrass has been based on PCR amplification and sequencing of multiple amplicons designed to scan all components of the transcriptional unit. Full-length genes (with complete intron-exon structure and promoter information) corresponding to well-defined biochemical functions such as lignin biosynthesis and oligosaccharide metabolism are ideal for complete SNP haplotype determination. Multiple SNPs at regular intervals across the transcriptional unit were detected within and between the heterozygous parents and validated in the progeny of the F (1)(NA(6) x AU(6)) genetic mapping family. Haplotype structures in the parental genotypes were defined and haplotypic abundance, structure and variation were assessed in diverse germplasm sources. Decay of LD to r (2) values of c. 0.2 typically occurs over 500-3,000 bp, comparable with gene length and with little apparent variation between diverse, ecotypic and varietal population sub-groups. Similar patterns were revealed as limited blocks of intragenic LD. The results are compatible with the reproductive biology of perennial ryegrass and the effects of large ancestral population size. This analysis provides crucial information to validate strategies for correlation of haplotypic diversity and phenotypic variation through association mapping.
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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.