Additional file 5: Figure S13. of MVQTLCIM: composite interval mapping of multivariate traits in a hybrid F1 population of outbred species

Richards’ growth curves of the 12 QTLs underlying the tree height of Populus, fitted with their genotype values (dot) over time estimated from the multivariate CIM method. The red is for the genotype QQ and the blue for Qq. (PDF 375 kb

Additional file 4: Figure S1. of MVQTLCIM: composite interval mapping of multivariate traits in a hybrid F1 population of outbred species

Biological process GO category for the genes within the region of QTL Q1D1. Figure S2. Biological process GO category for the genes within the region of QTL Q2D1. Figure S3. Biological process GO category for the genes within the region of QTL Q3D1. Figure S4. Biological process GO category for the genes within the region of QTL Q1D2. Figure S5. Biological process GO category for the genes within the region of QTL Q2D2. Figure S6. Biological process GO category for the genes within the region of QTL Q3D2. Figure S7. Biological process GO category for the genes within the region of QTL QD5. Figure S8. Biological process GO category for the genes within the region of QTL QD9. Figure S9. Biological process GO category for the genes within the region of QTL Q1D14. Figure S10. Biological process GO category for the genes within the region of QTL Q2D14. Figure S11. Biological process GO category for the genes within the region of QTL QS7. Figure S12. Biological process GO category for the genes within the region of QTL QS9. (DOCX 642 kb

Additional file 3: of MVQTLCIM: composite interval mapping of multivariate traits in a hybrid F1 population of outbred species

Excel Sheets from Q1D1 to QS9. (XLSX 97 kb

Additional file 2: Table S1. of MVQTLCIM: composite interval mapping of multivariate traits in a hybrid F1 population of outbred species

Average of parameter estimates with the standard deviation in bracket under different sample sizes when the QTL segregation type is QQ × Qq, based on 1000 simulation replicates. Table S2. Average of parameter estimates with the standard deviation in bracket under different sample sizes when the QTL segregation type is Qq × Qq, based on 1000 simulation replicates. Table S3. Average of parameter estimates with the standard deviation in bracket under different sample sizes when the QTL segregation type is Q1Q2 × Q3Q4, based on 1000 simulation replicates. Table S4. Average of parameter estimates with the standard deviation in bracket under different sample sizes when the QTL segregation type is Qq × QQ, based on 1000 simulation replicates. Table S5. Average of parameter estimates with the standard deviation in bracket under different sample sizes when the QTL segregation type is Qq × qQ, based on 1000 simulation replicates. Table S6. Summary on average estimates of QTL heritabilities (%) with the standard deviation in brackets under different time points (T1-T8) and different sample sizes based on 1000 simulation replicates. Table S7. The average estimate of the residual covariance matrix with standard deviations in brackets when the sample size is 300 and the QTL segregation type is Qq × qQ, based on 1000 simulation replicates. (DOCX 42 kb

Additional file 6: Figure S14. of MVQTLCIM: composite interval mapping of multivariate traits in a hybrid F1 population of outbred species

Plots of the mean cross-validated error against the log of parameter lambda for the female (a) and male (b) SNP datasets. Table S8. SNPs identified to be associated with Populus height by the LASSO method using the two SNP datasets from each parental linkage map. (DOCX 61 kb

Additional file 4: Figure S1. of MVQTLCIM: composite interval mapping of multivariate traits in a hybrid F1 population of outbred species

Biological process GO category for the genes within the region of QTL Q1D1. Figure S2. Biological process GO category for the genes within the region of QTL Q2D1. Figure S3. Biological process GO category for the genes within the region of QTL Q3D1. Figure S4. Biological process GO category for the genes within the region of QTL Q1D2. Figure S5. Biological process GO category for the genes within the region of QTL Q2D2. Figure S6. Biological process GO category for the genes within the region of QTL Q3D2. Figure S7. Biological process GO category for the genes within the region of QTL QD5. Figure S8. Biological process GO category for the genes within the region of QTL QD9. Figure S9. Biological process GO category for the genes within the region of QTL Q1D14. Figure S10. Biological process GO category for the genes within the region of QTL Q2D14. Figure S11. Biological process GO category for the genes within the region of QTL QS7. Figure S12. Biological process GO category for the genes within the region of QTL QS9. (DOCX 642 kb

Correlations among the SNP number, genetic length and chromosome size for the linkage groups of the two parental maps.

<p>Correlations among the SNP number, genetic length and chromosome size for the linkage groups of the two parental maps.</p

The genetic maps of linkage groups DLG12-DLG20 for the maternal <i>P</i>. <i>deltoides</i> ‘I-69’ and SLG12-SLG20 for the paternal <i>P</i>. <i>simonii</i> ‘L-3’.

<p>The length of each linkage group is given below the linkage group name. SNP marker names are denoted by the names and positions of chromosomes or scaffolds of the reference genome <i>P</i>. <i>trichocarpa</i>. Markers from other chromosomes and additional scaffolds are in green.</p

The genetic maps of linkage groups DLG1-DLG5 for the maternal <i>P</i>. <i>deltoides</i> ‘I-69’ and SLG1-SLG5 for the paternal <i>P</i>. <i>simonii</i> ‘L-3’.

<p>The length of each linkage group is given below the linkage group name. SNP marker names are denoted by the names and positions of chromosomes or scaffolds of the reference genome <i>P</i>. <i>trichocarpa</i>. Markers from other chromosomes and additional scaffolds are in green.</p

SNP number and length of linkage groups in two parental genetic maps of <i>P</i>. <i>deltoides</i> ‘I-69’ and <i>P</i>. <i>simonii</i> ‘L-3’.

<p>SNP number and length of linkage groups in two parental genetic maps of <i>P</i>. <i>deltoides</i> ‘I-69’ and <i>P</i>. <i>simonii</i> ‘L-3’.</p