Data from: Increased power to dissect adaptive traits in global sorghum diversity using a nested association mapping population
Data files
Mar 21, 2018 version files 1.28 GB
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div_imputed.hmp.txt.zip
132.02 MB
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div_raw.hmp.txt.zip
1.12 GB
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div_rec_dist.chr_def.xlsx
20.67 KB
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geno_grin60K.ped
128.82 KB
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geno_nam60K.ped
128.84 KB
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geno_sap60K.ped
128.82 KB
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genotypes_grin.csv
129.24 KB
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genotypes_lubbock.csv
129.25 KB
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genotypes_weslaco.csv
129.26 KB
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heterozygosity.csv
6.90 MB
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info_marker_gene.csv
6.48 MB
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map.composite.csv
2.10 MB
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monomorphism.csv
2.88 MB
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nam_composite.ped
128.84 KB
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nam_raw.hmp.zip
128.91 KB
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prop_Tx430_distorsion.csv
7.53 MB
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recombination.csv
5.54 MB
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script_simulation.r
1.01 KB
Aug 04, 2017 version files 5.45 GB
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div_imputed.hmp.txt.zip
132.02 MB
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div_raw.hmp.txt.zip
1.12 GB
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div_rec_dist.chr_def.xlsx
20.67 KB
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geno_grin60K.csv
350.05 MB
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geno_grin60K.map.txt
1.56 MB
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geno_grin60K.ped.txt
201.60 MB
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geno_nam60K.map.txt
1.56 MB
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geno_nam60K.ped.txt
539.10 MB
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geno_sap60K.map.txt
1.56 MB
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geno_sap60K.ped.txt
94.71 MB
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genotypes_lubbock.csv
134.28 MB
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genotypes_weslaco.csv
134.22 MB
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heterozygosity.csv
6.90 MB
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info_marker_gene.csv
6.48 MB
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map.composite.csv
2.10 MB
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monomorphism.csv
2.88 MB
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nam_composite.map.txt
2.27 MB
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nam_composite.ped.txt
816.32 MB
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nam_composite2017.hmp.txt
414.55 MB
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NAM_Key_file.txt
193.93 KB
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nam_raw.hmp.txt.zip
329.03 MB
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prop_Tx430_distorsion.csv
7.53 MB
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recombination.csv
5.54 MB
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script_simulation.r
1.01 KB
Abstract
Adaptation of domesticated species to diverse agroclimatic regions has led to abundant trait diversity. However, the resulting population structure and genetic heterogeneity confounds association mapping of adaptive traits. To address this challenge in sorghum [Sorghum bicolor (L.) Moench]—a widely adapted cereal crop—we developed a nested association mapping (NAM) population using 10 diverse global lines crossed with an elite reference line RTx430. We characterized the population of 2214 recombinant inbred lines at 90,000 SNPs using genotyping-by-sequencing. The population captures ∼70% of known global SNP variation in sorghum, and 57,411 recombination events. Notably, recombination events were four- to fivefold enriched in coding sequences and 5′ untranslated regions of genes. To test the power of the NAM population for trait dissection, we conducted joint linkage mapping for two major adaptive traits, flowering time and plant height. We precisely mapped several known genes for these two traits, and identified several additional QTL. Considering all SNPs simultaneously, genetic variation accounted for 65% of flowering time variance and 75% of plant height variance. Further, we directly compared NAM to genome-wide association mapping (using panels of the same size) and found that flowering time and plant height QTL were more consistently identified with the NAM population. Finally, for simulated QTL under strong selection in diversity panels, the power of QTL detection was up to three times greater for NAM vs. association mapping with a diverse panel. These findings validate the NAM resource for trait mapping in sorghum, and demonstrate the value of NAM for dissection of adaptive traits.