Data_Sheet_1_Genome-Wide Association Study Reveals Complex Genetic Architecture of Cadmium and Mercury Accumulation and Tolerance Traits in Medicago truncatula.pdf
10 pages. -- 8 supplementary figures. Figure S1. Phenotypic distributions of leaf accumulation of Cd and Hg in leaves, and relative root growth (RRG) in response to both metals. Corresponding histograms for each phenotype are displayed opposite to the x and y axes. Linear regression and 95% confidence intervals are overlayed on the scatter plot. Heritability (H2) is shown next to each histogram, and Pearson correlation coefficients (r) are shown in each panel. -- Figure S2. Average cross validation errors of 10 Admixture runs for each k between 1 and 10. The yaxis represents the cross-validation error value, the x-axis is k, number of population clusters. The distribution of ancestry components in all samples of the HapMap dataset for the best iteration (lowest cross validation error) was k = 5. -- Figure S3. Population structure analysis identified five admixture components. The population structure was determined using the software Admixture. -- Figure S4. Genome wide association analysis of heavy metal accumulation and tolerance traits (Manhattan plots shown for each trait; output from GEMMA). -- Figure S5. Genomic organization of three tandem ABC transporters (Medtr2g436680.1, Medtr2g436710, Medtr2g436730) on chromosome 2 in the Mt4.0 reference genome (www.medicagohapmap.org). The closest Blast hit to these three genes is the Arabidopsis thaliana ABC transporter ABCC14 (AT3G62700.1). -- Figure S6. The Pleiotropic Drug Resistance 3 gene PDR3 (Medtr5g070320) and Cation Exchanger 3 gene CAX3 (Medtr5g070330) are 5878 bp apart in the Mt4.0 reference genome (www.medicagohapmap.org). -- Figure S7. Density plots showing the genome wide distribution of SNP effect sizes (gray) and the top 1000 SNPs with lowest p-values for each trait (red). The most significant SNPs have the largest effect. -- Figure S8. Effect size and minor allele frequency (MAF) from the top 100 most significant SNPs using the GEMMA package for GWAS (left four panels, one for each trait).
| Main Authors: | , , , , , |
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| Format: | dataset biblioteca |
| Language: | English |
| Published: |
Figshare
2022-01-28
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| Subjects: | Cadmium, Mercury, Polygenic, Standing variation, Genetic architecture, Medicago truncatula (Medicago), |
| Online Access: | http://hdl.handle.net/10261/311730 |
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