ArticleTAG. Theoretical and applied genetics. Theoretische und angewandte Genetik2011
Extent and genome-wide distribution of linkage disequilibrium in commercial maize germplasm.
Article in TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 52 papers.
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Who cites it
52 citing papers in PubMed.
- Genomic loci associated with Fusarium stalk rot resistance and related agronomic traits in maize.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Individual plant genetics reveal the control of local adaptation in European maize landraces.BMC biology · 2025Article
- Optimization of commercial SNP arrays and the generation of a high-efficiency GenoBaits Peanut 10K panel.Scientific reports · 2025Article
- Understanding genetic diversity in drought-adaptive hybrid parental lines in pearl millet.PloS one · 2024Article
- Selection signature analyses and genome-wide association reveal genomic hotspot regions that reflect differences between breeds of horse with contrasting risk of degenerative suspensory ligament desmitis.G3 (Bethesda, Md.) · 2022Article
- Phenotypic and molecular characterization of a set of tropical maize inbred lines from a public breeding program in Brazil.BMC genomics · 2022Article
- High-resolution association mapping with libraries of immortalized lines from ancestral landraces.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2022Article
- Building a Calibration Set for Genomic Prediction, Characteristics to Be Considered, and Optimization Approaches.Methods in molecular biology (Clifton, N.J.) · 2022Article
- 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
- Comprehensive genotyping of a Brazilian cassava (Manihot esculenta Crantz) germplasm bank: insights into diversification and domestication.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2021Article
- Exploiting genetic diversity in two European maize landraces for improving Gibberella ear rot resistance using genomic tools.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2021Article
- Optimized breeding strategies to harness genetic resources with different performance levels.BMC genomics · 2020Article
- Disentangling group specific QTL allele effects from genetic background epistasis using admixed individuals in GWAS: An application to maize flowering.PLoS genetics · 2020Article
- Deciphering the Genetic Diversity of Landraces With High-Throughput SNP Genotyping of DNA Bulks: Methodology and Application to the Maize 50k Array.Frontiers in plant science · 2020Article
- Article
- QTL mapping and genome-wide prediction of heat tolerance in multiple connected populations of temperate maize.Scientific reports · 2019Article
- Improving Short- and Long-Term Genetic Gain by Accounting for Within-Family Variance in Optimal Cross-Selection.Frontiers in genetics · 2019Article
- Selection on Expected Maximum Haploid Breeding Values Can Increase Genetic Gain in Recurrent Genomic Selection.G3 (Bethesda, Md.) · 2018Article
- General and specific combining abilities in a maize (Zea mays L.) test-cross hybrid panel: relative importance of population structure and genetic divergence between parents.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2017Article
- Evaluation of LD decay and various LD-decay estimators in simulated and SNP-array data of tetraploid potato.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2017Article
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5 authors.
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Abstract
Association mapping is based on linkage disequilibrium (LD) resulting from historical recombinations and helps understanding the genetic basis of complex traits. Many factors affect LD and, therefore, it must be determined empirically in the germplasm under investigation to examine the prospects of successful genome-wide association mapping. The objectives of our study were to (1) examine the extent of LD with simple sequence repeat (SSR) and single nucleotide polymorphism (SNP) markers in 1,537 commercial maize inbred lines belonging to four heterotic pools, (2) compare the LD patterns determined by these two marker types, (3) evaluate the number of SNP markers needed to perform genome-wide association analyses, and (4) investigate temporal trends of LD. Mean values of the squared correlation coefficient ([Formula: see text]) were almost identical for unlinked, linked, and adjacent SSR marker pairs. In contrast, [Formula: see text] values were lowest for the unlinked SNP loci and highest for the SNPs within amplicons. LD decay varied across the different heterotic pools and the individual chromosomes. The SSR markers employed in the present study are not adequate for association analysis, because of insufficient marker density for the germplasm evaluated. Based on the decay of LD in the various heterotic pools, we would need between 4,000 and 65,000 SNP markers to detect with a reasonable power associations with rather large quantitative trait loci (QTL). A much higher marker density is required to identify QTL with smaller effects. However, not only the total number of markers but also their distribution among and along the chromosomes are primordial for undertaking powerful association analyses.
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