Table 5. Top-ranked genes with fold changes in expression greater than |2| identified in the whole blood of pigs divergently selected for low or high residual feed intake (RFI).
| Gene symbol | Main biological processa | FCb | P-valuec |
|---|---|---|---|
| Overexpressed genes in low RFI line compared with high RFI line | |||
| IFITM1 | GO:0009607 response to biotic stimulus | 4.34 | 2.6.10−04 |
| NPM2 | GO:0006338 chromatin remodeling | 3.11 | 3.5.10−04 |
| EIF1B | GO:0006412 translation | 2.51 | 4.8.10−13 |
| SLPI | GO:0045071 negative regulation of viral genome replication | 2.33 | 6.1.10−05 |
| IL6ST | GO:0019221 cytokine-mediated signaling pathway | 2.20 | 1.3.10−03 |
| WFDC2 | GO:0010466 negative regulation of peptidase activity | 2.16 | 4.5.10−08 |
| TRAF6 | GO:0002726 positive regulation of T cell cytokine production | 2.08 | 1.4.10−06 |
| SLCO2B1 | GO:0006811 ion transport | 2.04 | 6.9.10−06 |
| Underexpressed genes in low RFI line compared with high RFI line | |||
| GPX3 | GO:0006979 response to oxidative stress | -6.07 | 1.3.10−06 |
| HMG20A | GO:0006338 chromatin remodeling | -4.69 | 1.2.10−08 |
| CAPNS1 | GO:0006508 proteolysis | -4.09 | 3.1.10−07 |
| OAZ3 | GO:0043086 negative regulation of catalytic activity | -4.00 | 1.1.10−06 |
| NMI | GO:0045824 negative regulation of innate immune response | -3.49 | 1.6.10−07 |
| SERPINF1 | GO:0016525 negative regulation of angiogenesis | -3.28 | 3.8.10−08 |
| HTRA1 | GO:0030512 negative regulation of transforming growth factor beta receptor signaling pathway | -2.68 | 1.1.10−09 |
| NPR3 | GO:0008217 regulation of blood pressure | -2.17 | 1.4.10−07 |
| CHIT1 | GO:0006030 chitin metabolic process | -2.12 | 4.6.10−07 |
| SLA-DOA | GO:0019882 antigen processing and presentation | -2.12 | 1.9.10−11 |
aThe gene ontology (GO) term for biological process was manually obtained from the QuickGO web-based tool for each gene name.
bFold change value is expressed as the expression ratio of low RFI pigs versus high RFI pigs. Ratio was inversed and preceded by a minus sign for value less than 1 (i.e., a ratio of 0.5 is expressed as -2).
cP-value obtained from analysis of variance for the effect of line. The highest P-value is reported when several probes are differentially expressed for a unique gene. Adjusted P-value varied from 0.05 and 1.10−09.