Table 1.
List of upregulated posterior intestine proteins of rainbow trout in response to Yersinia ruckeri strains
| Accession Refseq | Protein name | Number of quantified peptides | Biological process | Intestine in response to Y. ruckeri strain | 3 dpe (fold change) | 9 dpe (fold change) | 28 dpe (fold change) |
|---|---|---|---|---|---|---|---|
| XP_021441860.1 | Probable serine carboxypeptidase CPVL | 6 | Serine-type carboxypeptidase activity | Biotype 1 | 3.6* | −1.7 | 1.4 |
| Biotype 2 | 4.9* | −1.3 | 1.4 | ||||
| XP_021462823.1 | Dipeptidase 1 | 6 | Metallodipeptidase activity | Biotype 1 | 2.1* | 1.3 | −1.0 |
| Biotype 2 | 2.7* | 1.5 | −1.2 | ||||
| XP_021442206.1 | Xaa-Pro dipeptidase | 6 | Metallopeptidase activity | Biotype 1 | 2.4* | −1.1 | 1.2 |
| Biotype 2 | 3.1* | 1.1 | 1.2 | ||||
| XP_021437213.1 | Dipeptidyl peptidase 1 | 5 | Cysteine-type endopeptidase activity | Biotype 1 | 1.8 | 1.2 | 1.9 |
| Biotype 2 | 2.3* | 1.3 | 1.5 | ||||
| XP_021460613.1 | Cathepsin D isoform X1 | 6 | Aspartic-type endopeptidase activity | Biotype 1 | 2.4* | −1.1 | 1.2 |
| Biotype 2 | 3.2* | 1.1 | 1.2 | ||||
| XP_021427100.1 | Pro-cathepsin H | 5 | Aminopeptidase activity | Biotype 1 | 4.3* | −2.0 | 1.3 |
| Biotype 2 | 6.3* | −1.3 | 1.0 | ||||
| XP_021430445.1 | Cathepsin L1 | 6 | Cysteine-type endopeptidase activity | Biotype 1 | 4.3* | −2.4 | 1.3 |
| Biotype 2 | 5.9* | −1.4 | 1.1 | ||||
| XP_021430112.1 | Acid phosphatase type 7 | 6 | Acid phosphatase activity | Biotype 1 | 2.5* | 1.1 | 1.8 |
| Biotype 2 | 4.4* | 1.7 | 1.3 | ||||
| XP_021457257.1 | Lysozyme C II | 5 | Hydrolase activity | Biotype 1 | 2.6* | 2.2* | 1.4 |
| Biotype 2 | 2.8* | 1.6 | 1.1 | ||||
| XP_021478264.1 | Macrophage mannose receptor 1 | 5 | Endocytosis | Biotype 1 | 3.2* | −1.1 | 1.3 |
| Biotype 2 | 4.7* | 1.4 | 1.2 | ||||
| XP_021446773.1 | Eosinophil peroxidase | 6 | Peroxidase activity | Biotype 1 | 3.2* | −1.2 | −1.1 |
| Biotype 2 | 1.6 | −1.4 | −1.2 | ||||
| XP_021424232.1 | Thioredoxin reductase 1 | 4 | Redox homeostasis | Biotype 1 | 1.7 | 1.1 | 1.1 |
| Biotype 2 | 2.2* | 1.0 | 1.1 | ||||
| XP_021412083.1 | Lysosomal alpha-mannosidase | 6 | Alpha-mannosidase activity | Biotype 1 | 2.8* | −1.8 | 1.4 |
| Biotype 2 | 4.8* | 1.1 | 1.3 | ||||
| NP_001154031.1 | Glutathione S-transferase A | 6 | Glutathione metabolic process | Biotype 1 | 1.7 | 1.1 | −1.0 |
| Biotype 2 | 2.0* | 1.2 | −1.0 | ||||
| XP_021460921.1 | Peroxisomal multifunctional enzyme type 2 | 6 | Oxidoreductase activity | Biotype 1 | 2.0* | 1.1 | −1.0 |
| Biotype 2 | 2.4* | 1.0 | −1.0 | ||||
| XP_021475660.1 | Endoplasmic reticulum aminopeptidase 1 | 4 | Aminopeptidase activity | Biotype 1 | 1.8 | 1.2 | 1.0 |
| Biotype 2 | 2.2* | 1.0 | −1.0 | ||||
| NP_001117743.1 | Caspase 6 precursor | 2 | Apoptotic process | Biotype 1 | 2.2* | −1.1 | 1.2 |
| Biotype 2 | 2.1* | −1.2 | −1.1 | ||||
| XP_021477916.1 | Interferon-induced GTP-binding protein Mx2 | 5 | GTPase activity | Biotype 1 | 2.0 | 1.3 | −1.1 |
| Biotype 2 | 2.4* | 1.3 | −1.3 | ||||
| XP_021468639.1 | Gamma-interferon-inducible lysosomal thiol reductase | 3 | Antigen processing and presentation | Biotype 1 | 3.0* | −1.9 | 1.4 |
| Biotype 2 | 4.4* | −1.1 | 1.3 | ||||
| XP_021466891.1 | Precerebellin-like protein | 5 | Response to lipopolysaccharide | Biotype 1 | 2.9* | 5.3* | 2.0 |
| Biotype 2 | 2.2 | 3.3* | 1.3 | ||||
| XP_021453615.1 | Calretinin-like | 6 | Calcium ion binding | Biotype 1 | 2.5* | 1.5 | 1.2 |
| Biotype 2 | 3.0* | 1.6 | 1.0 | ||||
| XP_021426220.1 | Regucalcin | 6 | Calcium ion binding | Biotype 1 | 2.1 | 1.0 | 1.4 |
| Biotype 2 | 3.1* | 1.2 | 1.1 | ||||
| XP_021480508.1 | Ras-related protein Rab-5C | 4 | GTPase activity | Biotype 1 | 1.7 | 1.0 | 1.3 |
| Biotype 2 | 2.4* | 1.1 | 1.0 | ||||
| XP_021477941.1 | Fructose-1,6-bisphosphatase 1 | 3 | Carbohydrate metabolic process | Biotype 1 | 3.8* | 1.4 | 1.0 |
| Biotype 2 | 2.2 | 1.0 | −1.2 | ||||
| XP_021434786.1 | Beta-hexosaminidase | 2 | Carbohydrate metabolic process | Biotype 1 | 2.4* | −1.5 | −1.0 |
| Biotype 2 | 2.5* | −1.1 | 1.2 | ||||
| XP_021467816.1 | Alpha-N-acetylgalactosaminidase | 6 | Carbohydrate metabolic process | Biotype 1 | 3.0* | −1.3 | 1.2 |
| Biotype 2 | 4.1* | 1.1 | 1.3 |
Fold change was statistically analyzed in the posterior intestine of rainbow trout exposed to Y. ruckeri biotype 1 (CSF007-82) and biotype 2 (A7959-11) versus control posterior intestine of rainbow trout samples (n = 3 per time point).
* Statistically significant difference according to both ANOVA and post hoc Tukey’s HSD with FDR-adjusted p-value < 0.05 and fold change < −2 or > +2. (Full table is presented in Additional file 4).