Table 1.
The five most significant pathways based on the upregulated proteins expressed in intestinal samples of broilers treated with lactic acid bacteria (L), Citrobacter freundii (CF) or Citrobacter spp. (C2) in relation to control treatment at the day of the hatch (DOH) and 10 days of age (10d).
| Pathway name | DOH | 10d | ||||
|---|---|---|---|---|---|---|
| Ratio | P | FDR | Ratio | P | FDR | |
| L treatment | ||||||
| Amyloid fiber formation | 0.006 | 4.54e−06 | 0.003 | – | – | – |
| Glutathione conjugation | 0.005 | 1.93e−05 | 0.007 | – | – | – |
| Cellular responses to stress | 0.036 | 3.27e−05 | 0.008 | – | – | – |
| HSF1 activation | 0.003 | 5.94e−05 | 0.011 | – | – | – |
| Cellular responses to external stimuli | 0.044 | 1.75e−04 | 0.025 | – | – | – |
| Muscle contraction | – | – | – | 0.018 | 1.60e−04 | 0.022 |
| Smooth muscle contraction | – | – | – | 0.04 | 1.99e−04 | 0.022 |
| Kinesins | – | – | – | 0.05 | 3.69e−04 | 0.027 |
| Axon guidance | – | – | – | 0.041 | 0.001 | 0.056 |
| OPI-dependent Golgi-to-ER retrograde traffic | – | – | – | 0.008 | 0.001 | 0.06 |
| CF treatment | ||||||
| Syndecan interactions | 0.002 | 1.08e−05 | 0.006 | – | – | – |
| Integrin cell surface interactions | 0.006 | 5.05e−05 | 0.013 | – | – | – |
| Assembly and cell surface presentation of NMDA receptors | 0.003 | 7.59e−05 | 0.013 | – | – | – |
| Cellular responses to external stimuli | 0.044 | 1.15e−04 | 0.014 | – | – | – |
| Extracellular matrix organization | 0.023 | 1.32e−04 | 0.016 | – | – | – |
| P75NTR negatively regulates the cycle via SC1 | – | – | – | 4.24e−04 | 5.80e−05 | 0.009 |
| Phase II conjugation of compounds | – | – | – | 0.018 | 9.61e−05 | 0.009 |
| Glutathione conjugation | – | – | – | 0.005 | 2.54e−04 | 0.016 |
| Acetylation | – | – | – | 0.001 | 4.08e−04 | 0.019 |
| FOXO-mediated transcription | – | – | – | 0.008 | 0.001 | 0.038 |
| C2 treatment | ||||||
| Toll-like receptors (TLRs) by endogenous ligand | 0.002 | 1.54e−5 | 4.17e−3 | – | – | – |
| Signaling by RAF1 mutants | 0.003 | 5.09e−5 | 4.17e−3 | – | – | – |
| Paradoxical activation of RAF signaling by Kinase inactive BRAF | 0.004 | 7.39e−5 | 4.17e−3 | – | – | – |
| Signaling by moderate kinase activity BRAF mutants | 0.004 | 7.39e−5 | 4.17e−3 | – | – | – |
| Signaling downstream of RAS mutants | 0.004 | 7.39e−5 | 4.17e−3 | – | – | – |
| Cellular response to starvation | – | – | – | 0.012 | 1.58e−6 | 2.77e−4 |
| Response of EIF2AK4 (GCN2) to amino acid deficiency | – | – | – | 0.008 | 0.000002 | 2.77e−4 |
| Eukaryotic translation elongation | – | – | – | 0.007 | 2.05e−5 | 1.61e−3 |
| GRB2:SOS provides linkage to MAPK signaling for Integrins | – | – | – | 0.001 | 4.05e−5 | 1.61e−3 |
| L13a-mediated translational silencing of Ceruloplasmin expression | – | – | – | 0.008 | 4.43e−5 | 1.61e−3 |
FDR, false discovery rate.