Table 3.
Significantly over-represented KEGG pathways and candidate genes
| Trait | Pathway name | p-value | Candidate genes |
|---|---|---|---|
| CWT | Jak-STAT signaling pathway | 0.00503 | IL12RB2, IL23R, JAK1, LEPR |
| CWT | Cell cycle | 0.01768 | ANAPC1, GADD45A, SMC1B |
| CWT | Metabolism of xenobiotics by cytochrome P450 | 0.01861 | ALDH1A3, CYP1B1 |
| CWT | p53 signaling pathway | 0.03380 | GADD45A, GTSE1 |
| CWT | Adipocytokine signaling pathway | 0.04000 | LEPR, PPARA |
| CWT | Sulfur relay system | 0.04560 | TRMU |
| CFAT | PPAR signaling pathway | 0.00114 | CYP4A11, CYP4A22, FADS2 |
| CFAT | Protein digestion and absorption | 0.00129 | PGA3, PGA4 |
| CFAT | Biosynthesis of unsaturated fatty acids | 0.00165 | FADS1, FADS2 |
| CFAT | Vascular smooth muscle contraction | 0.00460 | CYP4A11, CYP4A22 |
| CFAT | Fatty acid metabolism | 0.00716 | CYP4A11, CYP4A22 |
| CFAT | Retinol metabolism | 0.00854 | CYP4A11, CYP4A22 |
| CFAT | Glycerolipid metabolism | 0.00890 | AGPAT4, DAK |
| CFAT | Arachidonic acid metabolism | 0.01081 | CYP4A11, CYP4A22 |
| CFAT | Non-homologous end-joining | 0.03864 | FEN1 |
| CONF | Inositol phosphate metabolism | 0.01392 | INPP5B, PI4KB, PIP5K1A |
| CONF | Biotin metabolism | 0.01727 | HLCS |
| CONF | Lysosome | 0.01892 | CTSK, CTSS, LAMP3, MAN2B1 |
| CONF | Phosphatidylinositol signaling system | 0.03030 | INPP5B, PI4KB, PIP5K1A |
| CONF | Intestinal immune network for IgA production | 0.04489 | TNFSF13B |
| CONF | Proteasome | 0.04913 | PSMB4, PSMD4 |
| CULL | Mucin type O-Glycan biosynthesis | 0.00178 | GALNT8, GALNTL2, GALNTL6 |
| CULL | Vibrio cholerae infection | 0.00981 | ATP6V1C2, GNAS, KCNQ1 |
| CULL | p53 signaling pathway | 0.01664 | CCNB1, CCND2, RRM2 |
| CULL | Gap junction | 0.03030 | GNAS, MAP3K2, TUBB1 |
| ALL | PPAR signaling pathway | 0.00672 | SLC27A6, FADS2, CYP4A22, RXRA, PPARA, CYP4A11 |
| ALL | Phosphatidylinositol signaling system | 0.01284 | DGKD, PI4KB, PIP5K1A, INPP5D, INPP5B, CALM1 |
| ALL | p53 signaling pathway | 0.01862 | GTSE1, GADD45A, CCND2, CCNB1, RRM2 |
| ALL | Mucin type O-Glycan biosynthesis | 0.03132 | GALNT8, GALNTL2, GALNTL6 |
| ALL | Protein digestion and absorption | 0.03135 | KCNQ1, KCNJ13, PGA4, PGA3 |
| ALL | Vibrio cholerae infection | 0.03729 | KCNQ1, SLC12A2, GNAS, ATP6V1C2 |
| ALL | Arachidonic acid metabolism | 0.03964 | PTGDS, CBR3, CYP4A22, CYP4A11 |
| ALL | Non-homologous end-joining | 0.03992 | FEN1, LIG4 |
| ALL | Biotin metabolism | 0.04896 | HLCS |
Candidate genes are genes that occurred in the over-represented pathway and were within 500kbs of a QTL significantly associated with the trait using the Bayesian approach.
CWT = carcass weight; CFAT = carcass fat; CONF = carcass conformation; CULL = cull cow carcass weight; ALL = significantly over-represented KEGG pathways using combined trait gene dataset.