Table 1 Functional groups for genes with expression phenotypes and genes containing SNPs associated with gene expression or metabolite level phenotypes

Wood-related

arabinosyltransferase ARAD1; aspartokinase 3, chloroplastic-like; transcription factor GAMYB; eukaryotic translation initiation; cellulose synthase A catalytic subunit; clathrin assembly protein, putative; vacuolar protein sorting-associated; mediator of RNA polymerase II; U3 small nucleolar RNA-associated; 1-phosphatidylinositol 3-phosphate; 60S ribosomal protein L8; condensation complex subunit 1 domain-containing; serine/threonine-protein; laccase

Drought-related

transcription factor GAMYB; oxidoreductase; heat stress transcription factor; transcription factor bHLH120-like; lactosylceramide 4-alpha-galactosyltransferase; glutamate decarboxylase 1; cytochrome b-245 beta chain homolog RbohAp108; galactomannan galactosyltransferase; UDP-glucuronyltransferase-like protein; serine carboxypeptidase S10 family protein; cellulose synthase A catalytic subunit 6; GDSL esterase/lipase At1g74460-like; LRR receptor-like; heat shock 22 K family protein; bidirectional sugar transporter; myrosinase-binding protein-like protein; myo-inositol-1-phosphate synthase 2

Disease-related

serine carboxypeptidase-like; LRR receptor-like; serine/threonine-protein; lipoxygenase

Phenylpropanoid pathway

brassinosteroid-regulated protein; calcium-dependent protein kinase 3-like

Reactive oxygen species (ROS)-related

MATE efflux family protein; polyadenylate-binding protein; cytochrome b245 beta chain homolog RbohAp108; glutathione peroxidase

Terpenoid biosynthesis

(−)-alpha-terpineol synthase; MADS-box transcription factor 6-like

Programmed cell death (PCD)

cytochrome P450; MLO-like protein 12; putative NBS-LRR protein; late embryogenesis abundant protein LEA8–4; MADS-box transcription factor 6-like; ethylene-responsive transcription factor

Metabolite-related

cytochrome P450; peroxidase; leucine-rich repeat transmembrane protein kinase; probable serine/threonine-protein; cysteine-rich receptor-like protein; laccase; WD repeat-containing protein; transcription factor MYB108-like; probable E3 ubiquitin-protein ligase; AP2/ERF domain-containing transcription factor; cellulose synthase-like protein D2; cyclin-dependent kinase B1–1; ent-copalyl diphosphate synthase; glutathione S-transferase DHAR3; 4-coumarate--CoA ligase-like 5; bifunctional UDP-glucose 4-epimerase; TMV resistance protein N-like; UDP-glycosyltransferase 85A3-like