Table 1. Proteins identified by 2D-DIGE as the most differentially expressed in the ileum of mice two weeks post Echinostoma caproni infection.
| Spot a | Protein | Species (GI) b | AVR c | t test d | Cellular role | Loc e | Identified by | Cov. (%) f | MASCOT score |
|---|---|---|---|---|---|---|---|---|---|
| Metabolism | |||||||||
| 1032 | Pyruvate dehydrogenase X component | Mus musculus (28201978) | -2.03 | 0.0053 | Glycolisis-TCA cycle link | Mit | LC-MS/MS | 24.7 | 278 |
| 1043 | 4-trimethylaminobutyraldehyde dehydrogenase | M. musculus (78099319) | -2.34 | 0.0023 | Amine and polyamine biosynthesis Carnitine biosynthesis | Cyt | LC-MS/MS | 54.5 | 596 |
| 1064 | 4-aminobutyrate aminotransferase | M. musculus (37202121) | -3.39 | 0.0013 | GABA metabolism | Mit | LC-MS/MS | 51.0 | 543 |
| 1172 | Enolase 1B | M. musculus (70794816) | 2.74 | 0.0023 | Glycolysis Plasminogen activation | Cyt PM | LC-MS/MS | 33.2 | 162 |
| 1183 | Enolase 1B | M. musculus (70794816) | 2.00 | 0.0047 | Glycolysis. Plasminogen activation | Cyt PM | LC-MS/MS | 66.4 | 567 |
| 1232 | Elongation factor Tu | M. musculus (27370092) | -2.87 | 0.0012 | Protein biosynthesis | Mit | LC-MS/MS | 55.5 | 318 |
| 1237 | Elongation factor Tu | Mesocricetus auratus (298351659) | -3.56 | 0.0012 | Protein biosynthesis | Mit | MS/MS | 71.0 | 88 |
| 1247 | Ornithine aminotransferase | M. musculus (8393866) | -2.64 | 0.0091 | Ornithine metabolism | Mit | MS/MS | 33.0 | 106 |
| 1254 | Ornithine aminotransferase | M. musculus (8393866) | -2.14 | 0.0076 | Ornithine metabolism | Mit | LC-MS/MS | 45.6 | 669 |
| 1259 | Ornithine aminotransferase | M. musculus (8393866) | -3.94 | 0.0023 | Ornithine metabolism | Mit | LC-MS/MS | 44.2 | 738 |
| 1342 | Aminoacylase-1 | M. musculus (13384746) | 2.23 | 0.0027 | Amino acid metabolism | Cyt | LC-MS/MS | 45.3 | 267 |
| 1556 | Isocitrate dehydrogenase 3 (NAD+) alpha | M. musculus (148693875) | -2.15 | 0.0074 | TCA cycle | Mit | MS/MS | 33.0 | 117 |
| 1617 | Ornithine carbamoyltransferase | M. musculus (129277) | -2.26 | 0.0079 | Amino acid biosynthesis | Mit | MS/MS | 29.0 | 81 |
| 1712 | L-lactate dehydrogenase A chain | M. musculus (6754524) | 2.70 | 0.0059 | Pyruvate fermentation to lactate | Cyt | LC-MS/MS | 50.0 | 383 |
| 1791 | Hydroxymethylglutaryl-CoA lyase | M. musculus (171543858) | -3.42 | 0.0028 | Ketogenesis | Mit | LC-MS/MS | 41.5 | 327 |
| 1920 | Sulfotransferase family 1B, member 1 | M. musculus (148706035) | 2.34 | 0.0029 | Lipid and steroid metabolism | Cyt | LC-MS/MS | 28.2 | 168 |
| 2206 | Enoyl-CoA hydratase, short chain | M. musculus (148685962) | -2.00 | 0.0053 | Fatty acids β-oxidation | Mit | LC-MS/MS | 40.3 | 320 |
| 3412 | Cytochrome c oxidase subunit IV isoform 1 | M. musculus (148679695) | -2.52 | 0.0013 | Mitochondrial electron transport chain | Mit | LC-MS/MS | 42.2 | 100 |
| Electron transport | |||||||||
| 1865 | Electron transferring flavoprotein, alpha polypeptide | M. musculus (13097375) | -2.91 | 0.0012 | Electron carrier | Cyt | LC-MS/MS | 53.8 | 335 |
| 1869 | Electron transferring flavoprotein, alpha polypeptide | M. musculus (13097375) | -2.21 | 0.0042 | Electron carrier | Cyt | LC-MS/MS | 58.9 | 547 |
| 2185 | Electron transfer flavoprotein subunit beta | M. musculus (38142460) | -2.16 | 0.0016 | Electron carrier | Cyt | LC-MS/MS | 71.0 | 477 |
| 2186 | Electron transfer flavoprotein subunit beta | M. musculus (38142460) | -2.20 | 0.0027 | Electron carrier | Cyt | LC-MS/MS | 39.0 | 166 |
| Structural proteins | |||||||||
| 2192 | Lamin B | M. musculus (293689) | -2.16 | 0.0029 | Nuclear lamina component: involved in nuclear membrane architecture, chromatin organization, signaling… | Nuc | LC-MS/MS | 60.4 | 374 |
| 2219 | Keratin, type II cytoskeletal 8 | M. musculus (114145561) | -2.87 | 0.0031 | Intermediate filaments: structural activity | Cyt | LC-MS/MS | 23.1 | 222 |
| 2940* | Keratin, type I cytoskeletal 19 | M. musculus (6680606) | 2.89 | 0.0035 | Intermediate filaments: structural activity | Cyt | LC-MS/MS | 28.0 | 14.43 |
| Metal-binding proteins | |||||||||
| 1490 | Zinc-binding alcohol dehydrogenase domain-containing protein 2 | M. musculus (31559926) | -2.69 | 0.0082 | Oxidoreductase activity | Px | LC-MS/MS | 18.3 | 143 |
| 2124 | Haloacid dehalogenase-like hydrolase domain-containing protein 3 | M. musculus (21312204) | -2.38 | 0.0097 | Hydrolase activity | Mit | MS/MS | 26.0 | 89 |
| 2247 | Fumarylacetoacetate hydrolase domain containing 1 | M. musculus (20072495) | -2.32 | 0.0059 | Hydrolase activity | Mit | LC-MS/MS | 44.9 | 139 |
| Lipid-binding proteins | |||||||||
| 2339 | Apolipoprotein A-I, isoform CRA_b | M. musculus (148693731) | 3.45 | 0.0033 | Lipid transport | Secreted (Golgi) | LC-MS/MS | 42.4 | 197 |
| 3615 | Fatty acid-binding protein, intestinal | M. musculus (6679737) | 3.20 | 0.0012 | Intracellular lipid trasnport | Cyt | LC-MS/MS | 43.9 | 124 |
| 3663 | Fatty acid-binding protein, liver | M. musculus (8393343) | 2.54 | 0.0024 | Intracellular lipid transport | Cyt | LC-MS/MS | 59.8 | 91 |
| Protein-binding proteins | |||||||||
| 895 | Protein disulfide-isomerase A3 precursor | M. musculus (112293264) | -2.27 | 0.0059 | Cell redox homeostasis Protein folding Signaling | ER Cell surf. | LC-MS/MS | 56.5 | 762 |
| 2007 | Proteasome subunit alpha type-1 | M. musculus (33563282) | -2.12 | 0.0049 | Proteolysis | Cyt | LC-MS/MS | 48.7 | 336 |
| Detoxifying/Antioxidant proteins | |||||||||
| 1020 | Aldehyde dehydrogenase | M. musculus (21312260) | -2.74 | 0.0017 | Alcohol metabolism | Mit | LC-MS/MS | 22.0 | 122 |
| 2486 | Manganese superoxide dismutase | M. musculus (53450) | -2.12 | 0.0015 | Destruction of superoxide anion radicals | Mit | LC-MS/MS | 30.6 | 181 |
| Calcium-binding proteins | |||||||||
| 3277 | EF-hand domain-containing protein D2 | M. musculus (31981086) | 2.36 | 0.0012 | Cytoskeleton associated adaptor protein | Mb raft | LC-MS/MS | 30.2 | 113 |
| Sugar-binding proteins | |||||||||
| 3621 | Galectin-2 | M. musculus (269914146) | 2.20 | 0.0033 | Lectin | Cyt/ECM | MS/MS | 32.0 | 142 |
TCA, tricarboxylic acid cycle; GABA, gamma-aminobutyric acid; Mit, mitochondrion; Cyt, cytoplasm; PM, plasma membrane; Nuc, nucleus; Px, peroxisome; ER, endoplasmic reticulum; Cell surf., cell surface; Mb raft, membrane raft; ECM, extracellular matrix; LC-MS/MS, liquid chromatography and tándem mass spectrometry; MS/MS, mass spectrometry.
a The spot number corresponds to the number assessed to each spot in the 2D reference gel for DIGE data analysis and refers to the numbers in S2 Fig.
b GI accession number in NCBI Protein database
c Average volume ratio quantified by DeCyder BVA module
d p value of Student’s t test calculated by DeCyder BVA module
e Subcellular localization according to UniProt database
f Percentage of amino acid sequence coverage for the identified proteins
* The protein corresponding to spot number 2940 could not be properly identified by MASCOT 2.5, but it was successfully identified using ProteinPilot v4.5 search engine (Paragon algorithm) with the following parameters: trypsin specificity, iodoacetamide cysteine-alkilation, taxonomy restricted to Metazoa and the search effort set to rapid. Both coverage (%) and score values indicated for this protein are ProteinPilot values (a score > 2.0 means that it was identified with confidence ≥ 99%).