ArticleTAG. Theoretical and applied genetics. Theoretische und angewandte Genetik2012
Patterns of linkage disequilibrium and association mapping in diploid alfalfa (M. sativa L.).
Article in TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed.
- Integrative analysis of seed morphology, geographic origin, and genetic structure in Medicago with implications for breeding and conservation.BMC plant biology · 2025Article
- Optimization of high-throughput marker systems for genomic prediction in alfalfa family bulks.The plant genome · 2025Article
- Pearl millet a promising fodder crop for changing climate: a review.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Review
- Discovering new genes for alfalfa (Frontiers in plant science · 2024Article
- Genetic diversity in Sickleweed (Falcaria vulgaris) and using stepwise regression to identify marker associated with traits.Scientific reports · 2023Article
- Alfalfa genomic selection for different stress-prone growing regions.The plant genome · 2022Article
- OMICS in Fodder Crops: Applications, Challenges, and Prospects.Current issues in molecular biology · 2022Review
- Genomic prediction for canopy height and dry matter yield in alfalfa using family bulks.The plant genome · 2022Article
- Prospects forFrontiers in plant science · 2021Review
- Identification of genetic loci associated with forage quality in response to water deficit in autotetraploid alfalfa (Medicago sativa L.).BMC plant biology · 2020Article
- ABC Transporter-Mediated Transport of Glutathione Conjugates Enhances Seed Yield and Quality in Chickpea.Plant physiology · 2019Article
- Selection Mapping Identifies Loci Underpinning Autumn Dormancy in Alfalfa (G3 (Bethesda, Md.) · 2018Article
- Harnessing the Potential of Forage Legumes, Alfalfa, Soybean, and Cowpea for Sustainable Agriculture and Global Food Security.Frontiers in plant science · 2018Review
- Association mapping to discover significant marker-trait associations for resistance against fusarium wilt variant 2 in pigeonpea [Cajanus cajan (L.) Millspaugh] using SSR markers.Journal of applied genetics · 2017Article
- Identification of loci controlling forage yield and nutritive value in diploid alfalfa using GBS-GWAS.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2017Article
- Article
- Selection Signatures in Four Lignin Genes from Switchgrass Populations Divergently Selected for In Vitro Dry Matter Digestibility.PloS one · 2016Article
- Genome-wide high-throughput SNP discovery and genotyping for understanding natural (functional) allelic diversity and domestication patterns in wild chickpea.Scientific reports · 2015Article
- Ultra-high density intra-specific genetic linkage maps accelerate identification of functionally relevant molecular tags governing important agronomic traits in chickpea.Scientific reports · 2015Article
- Employing genome-wide SNP discovery and genotyping strategy to extrapolate the natural allelic diversity and domestication patterns in chickpea.Frontiers in plant science · 2015Article
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Association mapping enables the detection of marker-trait associations in unstructured populations by taking advantage of historical linkage disequilibrium (LD) that exists between a marker and the true causative polymorphism of the trait phenotype. Our first objective was to understand the pattern of LD decay in the diploid alfalfa genome. We used 89 highly polymorphic SSR loci in 374 unimproved diploid alfalfa (Medicago sativa L.) genotypes from 120 accessions to infer chromosome-wide patterns of LD. We also sequenced four lignin biosynthesis candidate genes (caffeoyl-CoA 3-O-methyltransferase (CCoAoMT), ferulate-5-hydroxylase (F5H), caffeic acid-O-methyltransferase (COMT), and phenylalanine amonialyase (PAL 1)) to identify single nucleotide polymorphisms (SNPs) and infer within gene estimates of LD. As the second objective of this study, we conducted association mapping for cell wall components and agronomic traits using the SSR markers and SNPs from the four candidate genes. We found very little LD among SSR markers implying limited value for genomewide association studies. In contrast, within gene LD decayed within 300 bp below an r (2) of 0.2 in three of four candidate genes. We identified one SSR and two highly significant SNPs associated with biomass yield. Based on our results, focusing association mapping on candidate gene sequences will be necessary until a dense set of genome-wide markers is available for alfalfa.
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