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. 2012 Jul 30;2012:501671. doi: 10.1155/2012/501671

Table 1.

Proteins of transfected and cured Huh7 cells where expression was modulated in cocultures with H. bilis and identified by LC/MS-MS.

n-Ffold (±SEM)b Gene symbol Functionc Spot no. Matching scored
Proteina T-Huh7e C-Huh7f T-Huh7 C-Huh7 T-Huh7 C-Huh7
Regulation of cell proliferation and structure
Vimentin∗ 5 ± 0.01 3.6 ± 0.02 VIM 17 11 2228 1827
Vimentin∗ 3 ± 0.03 2.3 ± 0.1 VIM 18 12 2166 1490
Tubulin beta 0.4 ± 0.3 2.7 ± 0.3 TUBB 14 21 112 962
Tubulin beta∗ NI 2.4 ± 0.5 TUBB — 45 — 341
Transmembrane protein 4 4.5 ± 0.04 NI CNPY2 51 — 338 —
Stomatin-like 2 NI 2.4 ± 0.3 SLP2 Cytoskeleton and structural organization — 10 — 1272
Beta actin NI 2.35 ± 0.04 ACTB — 24 — 560
Mutant beta-actin∗ 2.7 ± 0.01 NI ACTB 20 — 166 —
Mutant beta-actin∗ 2.1 ± 0.3 NI ACTB 38 — 161 —
Actin related protein 2/3 complex, subunit 5-like 2.2 ± 0.1 0.4 ± 0.1 ARPC5 47 40 181 422
Stathmin 1 0.3 ± 0.1 3.2 ± 0.02 STMN1 46 39 536 322
Integrin beta 4 binding protein isoform a 0.3 ± 0.01 NI ITGB4 Cell-matrix adhesion 33 — 139 —
Ran-binding protein 1 0.4 ± 0.1 NI RAN-BP1 31 — 147 —
Metabolism and Biosynthesis enzymes
Malate dehydrogenase 0.4 ± 0.1 NI MDHA 10 — 451 —
Enolase∗ 2.1 ± 0.3 NI ENO 23 — 782 —
Enolase∗ 4.2 ± 0.02 NI ENO Energy metabolism 53 — 800 —
Triosephosphate isomerase 1 2.1 ± 0.3 2.6 ± 0.3 TIM 26 34 1115 1210
ATP synthase beta sub unit 3.5 ± 0.2 2.4 ± 0.2 ATP5B 9 36 75 423
ATP synthase, H+ transporting mitochondrial F0 complex sub unit d isoform a 2.1 ± 0.3 NI ATP5H 35 — 139 —
UV excision repair protein RAD23 homolog B 2.1 ± 0.1 NI RAD23B Nucleic acid metabolism (DNA repair) 16 — 889 —
Enoyl coenzyme A hydratase 1, peroxisomal 4.8 ± 0.01 NI ECH1 Fatty acid metabolism 24 — 549 —
Tryptophan 5-monooxygenase activation protein NI 2.7 ± 0.3 YWHAQ Amino acid metabolism — 27 — 609
Selenophosphate synthetase NI 4.3 ± 0.02 SEPHS1 — 8 — 584
Pyrophosphatase 1 NI 3.7 ± 0.01 PPA1 Nucleotide metabolism — 22 — 201
Protein translation, Modification, and Degredation
Heterogeneous nuclear ribonucleoprotein NI 3.4 ± 0.03 HNRP RNA processing — 6 — 870
Valosin-containing protein∗ 0.4 ± 0.1 NI VCP 1 — 3218 —
Valosin-containing protein∗ 0.2 ± 0.1 NI VCP 2 — 2178 —
Valosin-containing protein∗ 0.4 ± 0.1 NI VCP 3 — 1318 —
Prefoldin subunit 2 3.8 ± 0.02 2.9 ± 0.1 PFDN2 43 38 378 299
Cathepsin D preprotein 2.7 ± 0.3 2.2 ± 0.3 CTSD 27 9 370 615
Ubiquitin-conjugating enzyme E2N 0.4 ± 0.3 NI UBE2N 44 — 230 —
Ubiquilin 1∗ 2.4 ± 0.01 NI UBQLN1 12 — 116 —
Ubiquilin 1∗ 2.1 ± 0.3 NI UBQLN1 Protein degradation 13 — 602 —
Ubiquitin carboxy-terminal hydrolase L1 0.3 ± 0.1 NI UCHL1 30 — 230 —
Ubiquitin carboxyl-terminal esterase L3 NI 2.5 ± 0.06 UCHL3 — 29 — 320
S-phase kinase-associated protein 1A isoform b 3.2 ± 0.05 NI SKP1 42 — 124 —
Proteasome alpha 3 subunit isoform 1 2.1 ± 0.3 4.1 ± 0.01 PSMA3 52 26 63 71
Proteasome 26S non-ATPase subunit 4 2.5 ± 0.1 NI PSMA4 15 — 599 —
Prolyl 4-hydroxylase, alpha 1 subunit isoform 2 precursor NI 2.5 ± 0.03 P4HA1 — 5 — 888
Heme binding protein 2 2.8 ± 0.01 NI HEBP2 32 — 107 —
Small glutamine-rich tetratricopeptide NI 0.1 ± 0.01 SGTA — 20 — 403
Eukaryotic translation initiation factor 3 3.0 ± 0.02 NI EIF3A 22 — 994 —
Eukaryotic translation initiation factor 5A∗ 2.7 ± 0.1 2.3 ± 0.05 EIF5A 49 44 542 253
Eukaryotic translation initiation factor 5A∗ 2.8 ± 0.1 NI EIF5A Protein translation, modification, and
elongation activity		 50 — 147 —
Eukaryotic translation elongation factor 1 delta isoform 2 NI 2.2 ± 0.4 EEF2D — 18 — 627
Eukaryotic translation elongation factor 1 delta isoform 1 NI 0.4 ± 0.1 EEF1D — 19 — 565
Human pre-mRNA splicing factor NI 2.1 ± 0.2 SF2 — 37 — 61
Mitochondrial ribosomal protein L7L12∗ NI 2.1 ± 0.4 MRPL17 Ribosomal structure, and biogenesis — 42 — 164
Mitochondrial ribosomal protein L7L12∗ NI 2.4 ± 0.1 MRPL17 — 43 — 86
Regulation of transcription
Basic transcription factor 3-like 4 0.4 ± 0.5 NI BTF3L4 DNA binding 36 — 106 —
WD repeat domin 77 NI 2.5 ± 0.03 WDR Coordination of multiprotein complex
assemblies		 — 14 — 166
Stress response
Mitochondria heat shock protein 75∗ 2.3 ± 0.2 2.7 ± 0.1 DnaK 4 1 1817 3016
Mitochondria heat shock protein 75∗ 2.7 ± 0.5 3.1 ± 0.1 DnaK 5 2 1817 2383
Heat shock 70 kDa protein 8 isoform 1∗ 2.9 ± 0.1 2.3 ± 0.3 HSPA8 Heat shock proteins and chaperones 6 3 2463 2383
Heat shock 70 kDa protein 8 isoform 1∗ 2.6 ± 0.1 2.7 ± 0.1 HSPA8 7 4 1822 1792
Chaperonin 2.3 ± 0.2 NI Cpn60 21 — 1361 —
T-complex polypeptide 1 (chaperonin) 0.15 ± 0.01 NI TCP1 8 — 336 —
Superoxide dismutase copper chaperone 0.35 ± 0.2 NI HMA Oxidative stress response 25 — 203 —
Cu/Zn superoxide dismutase 0.2 ± 0.03 NI CuZnSOD 37 — 69 —
Peroxiredoxin 2 isoform a 2.4 ± 0.05 2.7 ± 0.2 PRDX2 34 35 564 78
Peroxiredoxin 3 isoform a precursor NI 2.5 ± 0.1 PRDX3 Thio-specific antioxidant protein — 31 — 179
Peroxiredoxin 4 NI 3.2 ± 0.05 PRDX4 — 30 — 782
Thioredoxin-like 1 NI 0.37 ± 0.1 TXNL1 Oxidoreductase activity — — 17 758
Endoplasmic reticulum thioredoxin superfamily member 4.7 ± 0.01 NI TXNDC12 48 — 112 —
CGI-150 protein NI 2.1 ± 0.1 CGI Response to toxin — 23 — 521
Signal transduction and transport
Progesterone receptor membrane component 1∗ 0.3 ± 0.2 NI PGRMC1 40 — 322 —
Progesterone receptor membrane component 1∗ 0.35 ± 0.4 NI Signal transduction 41 — 294 —
Phospholipase C-alpha 0.3 ± 0.03 NI PLCα 19 — 227 —
Glia maturation factor, beta NI 2.8 ± 0.01 GMFB — 41 — 233
Sorcine isoform a 3.1 ± 0.01 NI SRI Transmembrane transporter protein 39 — 320 —
Calcium-binding mitochondrial carrier NI 0.2 ± 0.01 EFH — 7 — 242
Tumour-related
Tumor protein D52-like 2 isoform f 3.7 ± 0.03 NI TPD52 Tumorigenesis 29 — 63 —
Hepatoma-derived growth factor NI 2.9 ± 0.01 HDGF Cellular proliferation and differentiation — 13 — 65
Transformation upregulated nuclear protein 4.2 ± 0.01 NI HNRNP-K 54 — 116 —
Rho GDP dissociation inhibitor alpha NI 2.3 ± 0.2 GDI — 28 — 412
C-myc binding protein 0.3 ± 0.03 NI MM1 45 — 159 —
RAS related protein NI 3.1 ± 0.1 RAB33 — 33 — 147
Immunity-related GTPase 3.0 ± 0.3 NI IRGQ Oncogene related 11 — 125 —
B23 nucleophosmin∗ NI 2.9 ± 0.1 NPM — 15 — 1065
B23 nucleophosmin∗ NI 3.2 ± 0.1 NPM — 16 — 1091
DJ-1 protein NI 0.2 ± 0.01 DJ-1 — 32 — 429
Prohibitin NI 3.2 ± 0.1 PHB Negative regulator of apoptosis — 25 — 59

a Proteins were identified by LC-MS/MS and MASCOT searches of the NCBI nr database. bDifferential expression by at least 2-fold level of proteins of transfected or cured Huh7 cells exposed to sublethal concentration of H. bilis initial inoculum density of 103 cfu/mL; an n-fold value of >2 indicates upregulation, while a value of <0.5 indicates downregulation. cProteins were classified into functional categories based on the PANTHER, KEGG, Swiss-Prot and NCBI databases, and by reference to the published literature. dProteins with peptide matching score of >49 were considered significant for identification. ∗Protein isoforms. eTransfected Huh7 cells; fCured Huh7 cells.