Table S3. Best-choice tentative identities of discriminatory ions in the hexaploid HBW vs. SBW OPLS-DA model. Ion Identifier 6.70_647.4886 6.14_691.5134 6.99_573.4888 7.01_591.4992 6.05_665.4967 6.81_655.4929 5.81_689.4986 Ion RT 6.70 6.14 6.99 7.01 6.05 6.81 5.81 6.40_756.5555 0.53_268.1037 Ion m/z Adduct Adduct Mass Dppm 647.4886 691.5134 573.4888 591.4992 665.4967 655.4929 689.4986 NC NC [M+H-H2O]+ [M+H]+ [M+H-2H2O]+ [M+Li]+ [M+H-2H2O]+ 590.4910 590.4910 700.5043 648.4730 724.5129 0 1 7 5 2 6.40 0.53 756.5555 268.1037 [M+H-2H2O]+ [M+H]+ 791.5676 267.0968 0 1 4.20_496.3345 3.95_520.3216 3.94_1039.664 7.04_938.5852 6.83_962.5886 6.42_979.5973 6.21_375.3266 6.90_738.5075 7.15_740.5198 7.03_756.5511 6.90_760.4936 4.20 3.95 3.94 7.04 6.83 6.42 6.21 6.90 7.15 7.03 6.90 496.3345 520.3216 1039.6640 938.5852 962.5886 979.5973 375.3266 738.5075 740.5198 756.5511 760.4936 [M+CH3OH+H]+ [M+Na]+ [M+2Na-H]+ NC NC NC [M+H-2H2O]+ [M+H]+ [M+Na]+ [M+Na]+ [M+H]+ 463.3006 497.3353 994.6944 0 5 1 410.3396 737.4996 717.5308 733.5621 759.4839 0 0 0 0 3 6.82_780.5501 7.07_782.536 1.71_144.0678 0.58_279.0486 6.82 7.07 1.71 0.58 780.5501 782.5360 144.0678 279.0486 [M+Na]+ [M+CH3OH+H]+ [M+H-2H2O]+ [M+CH3OH+H]+ 757.5621 749.4996 179.0807 246.0149 1 3 1 0 0.58_279.0486 1.71_144.0678 0.58_279.0486 0.49_381.0751 0.58 1.71 0.58 0.49 279.0486 144.0678 279.0486 381.0751 [M+H-2H2O]+ [M+2H]2+ [M+H+Na]2+ [M+Na]+ 314.0613 286.1205 534.1010 358.0841 0 1 0 4 0.49_381.0751 0.49_381.0751 0.58_441.1012 0.58_441.1012 0.57_783.2171 6.83_961.5853 0.53_118.0751 0.49 0.49 0.58 0.58 0.57 6.83 0.53 381.0751 381.0751 441.1012 441.1012 783.2171 961.5853 118.0751 [M+H-2H2O]+ [M+K]+ [M+H+Na]2+ [M+Li]+ [M+H-H2O]+ [M+H]+ [M+2Na]2+ 416.0896 342.1103 858.2066 434.0849 800.2164 960.5769 190.1722 4 4 0 0 4 1 1 7.02_937.5846 5.84_463.3213 5.84_463.3213 7.02 5.84 5.84 937.5846 463.3213 463.3213 [M+H]+ [M+Li]+ [M+H-H2O]+ 936.5810 456.3051 480.3239 3 0 0 Tentative Identity Empirical Formula Class Broad Class GL GL GL GP GP Overexpressed In: HBW HBW HBW HBW HBW HBW HBW 13 DG derivatives 13 DG derivatives 7 PA derivatives PA(16:0/16:0)[rac] PG(17:0/14:1(9Z)) 12 PE derivatives, 1 PE N-methyl derivative, 26 PC derivatives 5 nucleosides and derivatives Aminoglycoside (structurally similar to Gentamicin C2) Tumonoic Acid I Dodecaprenyl diphosphate C37H66O5 C37H66O5 C39H73O8P C35H69O8P C37H75NO10P C42H82NO10P C10H13N5O4 GP ON HBW HBW PL PL C20H41N5O7 C27H47NO7 C60H100O7P2 ON ON PR PL PL PL C25H46O4 C41H72NO8P C39H76NO8P C40H80NO8P C43H70NO8P GL GP GP GP GP HBW HBW HBW SBW SBW SBW SBW SBW SBW SBW SBW 2 MG derivatives 21 PE derivatives 21 PE derivatives PE(17:0/18:0)[U] 8 PE derivatives 4 PE N-methyl derivatives, 2 PE derivatives, 37 PC derivatives 3 PC derivatives, 2 PE derivatives 7-Aminomethyl-7-carbaguanine Oxdemetonmethyl Organosulfur derivative (structurally similar to Rofecoxib) 24 flavonoids/ methylflavonoids and derivatives 12 flavonoid glucosides and derivatives 5,7-Dihydroxyflavone 7-benzoate Flavonoid derivative (structurally similar to Calomelanol D) 25 tetramethylflavonoids and derivatives 3 flavonoid glucosides and derivatives 16 flavonoid glucosides and derivatives 5 flavonoid glucosides and derivatives Megalomicin C1 Caryophyllene [t(-)] 1,2-Di-(9Z,12Z,15Z-octadecatrienoyl)-3-(Galactosylalpha-1-6-Galactosyl-beta-1)-glycerol 24,24-Difluoro-1,25,26-trihydroxyvitamin D3 Vitamin D derivative (structurally similar to EB 1213) C42H80NO8P C42H72NO8P C7H9N5O C6H15O4PS2 GP GP ON OS SBW SBW SBW SBW PL PL PL PL C17H14O4S C17H18O4 C24H22O14 C22H14O5 OS PK PK PK SBW SBW SBW SBW PL PL PL PL C24H16O7 C19H18O6 C36H42O24 C20H18O11 C38H40O19 C48H84N2O17 C14H22 PK PK PK PK PK PK PR SBW SBW SBW SBW SBW SBW SBW PL PL PL PL PL PL PL C51H84O15 C26H42F2O4 C31H44O4 SL ST ST SBW SBW SBW PL NP NP PL PL PL PL PL PL PL PL PL PL