Table 4.

Kyoto encyclopedia of genes and genomes (KEGG) pathways (www.kegg.jp/kegg/kegg1.html) for overlapping genes identified by different methods.

Marker	Overlapping Gene	KEGG Pathway	Method
rs16045	TraesCS2B02G612700, TraesCS2B02G612800	Flavonoid biosynthesis, Metabolic pathways, Biosynthesis of secondary metabolites	All
rs5823	TraesCS4A02G004900	Carotenoid biosynthesis, Metabolic pathways, Biosynthesis of secondary metabolites	All
rs48469	TraesCS3B02G033700	Ubiquitin mediated proteolysis	CPC, GPC, LPC, PPC
rs48316	TraesCS2B02G098500	Inositol phosphate metabolism, Metabolic pathways, Phosphatidylinositol signaling system	CPC, GPC, PPC
rs19833	TraesCS5B02G295400	Protein processing in endoplasmic reticulum	GPC, PPC
rs62975	TraesCS4A02G191400	Phosphonate and phosphinate metabolism, Glycerophospholipid metabolism, Metabolic pathways	HPC
rs30826	TraesCS7A02G206000	Fatty acid elongation, Metabolic pathways, Biosynthesis of secondary metabolites, Plant-pathogen interaction	HPC
rs32288	TraesCS7A02G202900, TraesCS7A02G203000	Cutin, suberine and wax biosynthesis	HPC

CPC classical PCA, GPC Grid PCA, HPC Hubert PCA, LPC Locantore PCA, PPC Proj PCA.