Table 4.
Summary of microbial genes identified for the prediction of RFI.
| KEGG id | Description | Gene name abbreviation | Pathways | Mean abundance | PLS estimate | VIP | Cluster |
|---|---|---|---|---|---|---|---|
| K03406 | Methyl-accepting chemotaxis protein | mcp | 2Two-component system; bacterial chemotaxis | 0.0225 | −0.0510 | 1.26 | 1 |
| K03413 | Two-component system, chemotaxis family, response regulator CheY | cheY | 2Two-component system; bacterial chemotaxis | 0.0018 | 0.0478 | 1.16 | 1 |
| K01534 | Cd2+/Zn2+-exporting ATPase | zntA | 5Cation-transporting ATPase activity; metal ion binding; nucleotide binding | 0.0211 | −0.0653 | 1.16 | 04 |
| K07258 | serine-type D-Ala-D-Ala carboxypeptidase (penicillin-binding protein 5/6) | dacC | 2Metabolic pathways; Peptidoglycan biosynthesis | 0.0049 | −0.0375 | 1.14 | 1 |
| K07301 | Cation:H+ antiporter | yrbG | 3Inorganic ion transport and metabolism | 0.0096 | −0.0145 | 1.09 | 04 |
| K04720 | Threonine-phosphate decarboxylase | cobD | 2Porphyrin and chlorophyll metabolism | 0.0034 | −0.0501 | 1.06 | 04 |
| K03407 | Two-component system, chemotaxis family, sensor kinase CheA | cheA | 2Two-component system; bacterial chemotaxis | 0.0048 | −0.0236 | 1.04 | 1 |
| K00595 | Precorrin-6Y C5,15-methyltransferase (decarboxylating) | cobL | 2Metabolic pathways; porphyrin and chlorophyll metabolism | 0.0078 | 0.0223 | 1.02 | 04 |
| K01571 | Oxaloacetate decarboxylase, alpha subunit | oadA | 2Metabolic pathways; pyruvate metabolism | 0.0165 | −0.0501 | 0.96 | 04 |
| K02057 | Simple sugar transport system permease protein | ABC.SS.P | 3Carbohydrate transport and metabolism | 0.0023 | −0.1375 | 0.96 | 20 |
| K02390 | Flagellar hook protein FlgE | flgE | 2Flagellar assembly | 0.0015 | −0.0376 | 0.87 | 1 |
| K02417 | Flagellar motor switch protein FliN/FliY | fliN | 2Bacterial chemotaxis; flagellar assembly | 0.0018 | −0.1120 | 0.77 | 1 |
| K03738 | Aldehyde:ferredoxin oxidoreductase | aor | 2Metabolic pathways; Microbial metabolism in diverse environments; Pentose phosphate pathway; Carbon metabolism | 0.0144 | −0.0657 | 0.68 | NC |
| K02009 | Cobalt transport protein | cbiN | 2ABC transporters | 0.0074 | −0.1126 | 0.67 | 01 |
| K01709 | CDP-glucose 4,6-dehydratase | rfbG | 2Metabolic pathways; amino sugar and nucleotide sugar metabolism | 0.0041 | 0.2549 | 1.46 | 1 |
| K00978 | Glucose-1-phosphate cytidylyltransferase | rfbF | 2Metabolic pathways; amino sugar and nucleotide sugar metabolism; starch and sucrose metabolism | 0.0042 | 0.2056 | 1.23 | 1 |
| K14113 | Energy-converting hydrogenase B subunit D | ehbD | – | 0.0010 | 0.1703 | 1.00 | NC |
Each column respectively presents information about: 1) KEGG identifier, 2) description of the gene (from KEGG), 3) gene name abbreviation, 4) metabolic pathways in which this gene participates, 5) mean relative abundance of the microbial gene in 42 animals, 6) the partial least squares (PLS) estimate of the regression coefficient using three latent variables, 7) the variable importance in projection (VIP) calculated during the PLS analysis using three latent variables, and 8) the cluster in which the microbial gene was allocated in the final network. 1Microbial genes excluded from the final network due to the 0.80 minimum correlation threshold. NC, Microbial genes not clustered in the final network. Information retrieved from: 2KEGG database, 3NCBI database, 4BioCyc database, and 5UniProt database. The genes in this table explained 65.6% of the variation in RFI (residual feed intake). Rows colored in grey correspond to genes simultaneously identified for both RFI and DFI (daily feed intake) prediction.