ArticlePLoS genetics2014
Genome wide association studies using a new nonparametric model reveal the genetic architecture of 17 agronomic traits in an enlarged maize association panel.
Article in PLoS genetics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 205 papers.
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Who cites it
205 citing papers in PubMed.
- High-Density Genome-Wide Association Mapping Identifies Candidate Loci Associated with Maize Stalk Cell Wall Composition.Plants (Basel, Switzerland) · 2026Article
- Suppression of ZmJAZ12 Expression Modulates Jasmonic Acid and Salicylic Acid Signalling and Enhances Maize Resistance to Southern Corn Rust.Molecular plant pathology · 2026Article
- Genome-Wide and GWAS Dissection of Maize Fibrillin Genes Reveals Plastid Regulators of Drought and Salt Stress Tolerance.Current issues in molecular biology · 2026Article
- Actin-interacting protein 1 enhances stalk mechanical strength and yield in maize.Plant communications · 2026Article
- ZmPEPCK2 enhances nutritional quality and yield potential by synchronizing carbon and nitrogen metabolism in maize kernels.Plant communications · 2026Article
- Allelic Variation in Maize Malate Dehydrogenase 7 Shapes Promoter Methylation and Banded Leaf and Sheath Blight Resistance.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Decades' progress and prospects on maize functional genomics and molecular breeding.Science China. Life sciences · 2025Review
- Meta-QTL analysis for mining key genes associated with seed oil content in maize.BMC plant biology · 2025Article
- Non-destructive detection strategy of maize seed vigor based on seed phenotyping and the potential for accelerating breeding.Journal of advanced research · 2025Article
- Identification of Candidate Genes for Low Phosphorus Tolerance in Maize Seedling Stage Based on GWAS and Transcriptome.Plants (Basel, Switzerland) · 2025Article
- The combination of linkage mapping, genome-wide association study, and dynamic transcriptome analysis reveals conserved candidate genes for salt tolerance in maize.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Insights into the genomic divergence of maize heterotic groups in China.Journal of integrative plant biology · 2025Article
- Genetic dissection of hundred-kernel weight through combined genome-wide association study and linkage analysis in tropical maize.BMC genomics · 2025Article
- Genome-Wide Association Study and Candidate Gene Mining of Husk Number Trait in Maize.International journal of molecular sciences · 2025Article
- Natural variation in ZmNRT2.5 modulates husk leaf width and promotes seed protein content in maize.Plant biotechnology journal · 2025Article
- Phenotyping, genome-wide dissection, and prediction of maize root architecture for temperate adaptability.iMeta · 2025Article
- The chromatin accessibility landscape during early maize seed development.The Plant journal : for cell and molecular biology · 2025Article
- ZmCCD8 regulates sugar and amino acid accumulation in maize kernels via strigolactone signalling.Plant biotechnology journal · 2025Article
- Characterization and functional analysis of conserved non-coding sequences among poaceae: insights into gene regulation and phenotypic variation in maize.BMC genomics · 2025Article
- Dissecting the genetic architecture of yield-related traits by QTL mapping in maize.Frontiers in plant science · 2025Article
145 more citing papers are in PubMed but not listed here.
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10 authors.
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Abstract
Association mapping is a powerful approach for dissecting the genetic architecture of complex quantitative traits using high-density SNP markers in maize. Here, we expanded our association panel size from 368 to 513 inbred lines with 0.5 million high quality SNPs using a two-step data-imputation method which combines identity by descent (IBD) based projection and k-nearest neighbor (KNN) algorithm. Genome-wide association studies (GWAS) were carried out for 17 agronomic traits with a panel of 513 inbred lines applying both mixed linear model (MLM) and a new method, the Anderson-Darling (A-D) test. Ten loci for five traits were identified using the MLM method at the Bonferroni-corrected threshold -log10 (P) >5.74 (α=1). Many loci ranging from one to 34 loci (107 loci for plant height) were identified for 17 traits using the A-D test at the Bonferroni-corrected threshold -log10 (P) >7.05 (α=0.05) using 556809 SNPs. Many known loci and new candidate loci were only observed by the A-D test, a few of which were also detected in independent linkage analysis. This study indicates that combining IBD based projection and KNN algorithm is an efficient imputation method for inferring large missing genotype segments. In addition, we showed that the A-D test is a useful complement for GWAS analysis of complex quantitative traits. Especially for traits with abnormal phenotype distribution, controlled by moderate effect loci or rare variations, the A-D test balances false positives and statistical power. The candidate SNPs and associated genes also provide a rich resource for maize genetics and breeding.
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