Table 1.
Highlights of results from GO enrichment analyses on gene modules potentially correlated with the RR phenotype.
| Module # | Size* | Overall anova sig.† | Significant factor(s) influencing expression | Biological process‡ | Molecular function‡ | ||
|---|---|---|---|---|---|---|---|
| GO term ID | Description | GO term ID | Description | ||||
| A | 1078 | 4.5E-04 | Phenotype, Diet | 0055085 | Transmembrane transport | 0003824 | Catalytic activity |
| 1901564 | Organonitrogen compound metabolic process | 0015145 | Monosaccharide transmembrane transporter activity | ||||
| 0005975 | Carbohydrate metabolic process | 1901476 | Carbohydrate transporter activity | ||||
| B | 115 | 6.3E-05 | Phenotype, Diet | 1901071 | Glucosamine-containing compound metabolic process | 0008061 | Chitin binding |
| 0006040 | Amino sugar metabolic process | 0016798 | Hydrolase activity, acting on glycosyl bonds | ||||
| 0006022 | Aminoglycan metabolic process | 0016787 | Hydrolase activity | ||||
| C | 90 | 5.7E-02 | Phenotype | 0055114 | Oxidation–reduction process | 0004175 | Endopeptidase activity |
| 0045087 | Innate immune response | 0004866 | Endopeptidase inhibitor activity | ||||
| 0008063 | Toll signaling pathway | 0016491 | Oxidoreductase activity | ||||
| D | 59 | 1.0E-03 | Phenotype, Diet | 0009266 | Response to temperature stimulus | ND | |
| 0055085 | Transmembrane transport | ||||||
| 0031427 | Response to methotrexate | ||||||
| E | 466 | 5.7E-03 | Diet, interaction | 0051494 | Negative regulation of cytoskeleton organization | 0005515 | Protein binding |
| 0040007 | Growth | 0008092 | Cytoskeletal protein binding | ||||
| 0051656 | Establishment of organelle localization | 0004871 | Signal transducer activity | ||||
| 0060089 | Molecular transducer activity | ||||||
| F | 243 | 2.8E-03 | Phenotype, interaction | 0007157 | Heterophilic cell–cell adhesion | 0015144 | Carbohydrate transmembrane transporter activity |
| 0007155 | Cell adhesion | 1901476 | Carbohydrate transporter activity | ||||
| 0022610 | Biological adhesion | 0008236 | Serine-type peptidase activity | ||||
| G | 110 | 8.6E-03 | Phenotype, interaction | 0009653 | Anatomical structure morphogenesis | 0005543 | Phospholipid binding |
| 0034330 | Cell junction organization | 0050839 | Cell adhesion molecule binding | ||||
| 0045216 | Cell–cell junction organization | 0003779 | Actin binding | ||||
| H | 138 | 2.0E-06 | Phenotype, Diet, interaction | 0042493 | Response to drug | ND | |
| 0072347 | Response to anesthetic | ||||||
| I | 104 | 1.7E-03 | Diet, interaction | 0005975 | Carbohydrate metabolic process | 0004867 | Serine-type endopeptidase inhibitor activity |
ND, No enriched GO terms detected.
*
Number of isotigs/contigs included in each gene module.
†
Significance values of overall anova tests on the eigengene values of each module; significance threshold: P < 0.1.
‡
Results from the gene list analyses were summarized with REViGO. For each GO domain (‘biological process’ or ‘molecular function’), three GO terms with the lowest P-values (from the summarized results) were reported. The significance threshold was set at 0.001 (default setting).
The two terms have the same P-value.