Table 1.
Identification and database search of differentially accumulated proteins in G. biloba.
| Spot No.a | Accession No. (GI) b | Protein Name c | Species c | Exp kD/pI d | Theor kD/pI e | Score f | SC g | MP h | FC i | E j | Sub-CL k |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Amino acid metabolism | |||||||||||
| 9708 | gi|356508448 | 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferase-like | Glycine max | 66.2/6.88 | 89.1/6.41 | 59 | 4% | 2 | 1.80 | T | Chlo |
| 4026 | gi|563247 | Acetolactate synthase precursor | Xanthium sp. | 33.9/5.64 | 70.8/7.03 | 91 | 5% | 2 | 0.33 | C | Chlo |
| 0129 | gi|2493895 | Cysteine synthase | Citrullus lanatus | 35.1/4.78 | 34.5/6.25 | 79 | 7% | 2 | 2.06 | T | Cyto |
| 4115 | gi|99698 | Glutamate-ammonia ligase | Arabidopsis thaliana | 36.8/5.62 | 40.9/5.40 | 225 | 8% | 2 | 1.68 | T | Cyto |
| 2048 | gi|225432496 | Glutamine synthetase leaf isozyme, chloroplastic | Vitis vinifera | 34.1/5.26 | 48.3/7.57 | 114 | 4% | 1 | 0.18 | C | Chlo |
| 3048 | gi|121334 | Glutamine synthetase PR-1 | Phaseolus vulgaris | 25.1/5.44 | 39.3/5.78 | 117 | 4% | 2 | 0.28 | C | Cyto |
| 1049 | gi|357144704 | Glycerate dehydrogenase-like | Brachypodium distachyon | 19.9/4.61 | 42.2/6.68 | 64 | 5% | 1 | 5.37 | C | Chlo |
| 2046 | gi|288063 | Ketol-acid reductoisomerase | Arabidopsis thaliana | 33.6/5.29 | 64.3/6.55 | 112 | 5% | 2 | 0.18 | C | Chlo |
| 1054 | gi|1709006 | S-adenosylmethionine synthase 3 | Actinidia chinensis | 31.3/5.13 | 39.8/6.20 | 185 | 13% | 3 | 0.19 | C | Cyto |
| 2116 | gi|356505256 | S-adenosylmethionine synthase 3-like isoform 1 | Glycine max | 34.8/5.21 | 43.2/6.13 | 312 | 14% | 4 | 1.53 | T | Cyto |
| 5032 | gi|2821961 | Spermidine synthase | Arabidopsis thaliana | 33.3/5.81 | 32.7/4.97 | 82 | 11% | 3 | 2.03 | C | Chlo |
| Biosynthesis of secondary metabolites | |||||||||||
| 2132 | gi|53830379 | Anthocyanidin reductase | Ginkgo biloba | 37.8/5.02 | 37.6/5.63 | 89 | 4% | 2 | 0.17 | C | Chlo |
| 2218 | gi|356566889 | LOW QUALITY PROTEIN: (+)-neomenthol dehydrogenase-like | Glycine max | 39.1/5.15 | 57.9/7.49 | 55 | 2% | 2 | 1.51 | T | Cyto |
| 1048 | gi|225380888 | GDP-d-mannose-3′,5′-epimerase | Malus domestica | 21.2/4.71 | 42.9/6.25 | 79 | 8% | 2 | 2.31 | C | Cyto |
| 2239 | gi|1170029 | Glutamate-1-semialdehyde 2,1-aminomutase, chloroplastic | Hordeum vulgare | 31.1/5.07 | 49.7/6.39 | 148 | 11% | 4 | 0.10 | C | Chlo |
| Carbohydrate/Energy metabolism | |||||||||||
| 5031 | gi|344190186 | Enolase | Corylus heterophylla | 20.4/5.88 | 49.4/5.62 | 119 | 7% | 2 | 12.43 | C | Chlo |
| 2137 | gi|15221107 | Enolase 1 | Arabidopsis thaliana | 36.2/5.15 | 51.8/5.79 | 119 | 6% | 2 | 0.61 | C | Chlo |
| 7023 | gi|2982328 | Pyruvate dehydrogenase E1 β subunit | Picea mariana | 32.4/6.49 | 32.0/5.73 | 66 | 5% | 2 | 0.32 | C | Chlo |
| 4022 | gi|111660950 | ADP-glucose pyrophosphorylase small subunit | Citrus sinensis | 19.2/5.62 | 57.3/6.73 | 171 | 7% | 3 | 2.31 | C | Chlo |
| 3841 | gi|228210 | Granule-bound starch synthase | Solanum tuberosum | 80.9/5.32 | 67.1/6.92 | 138 | 2% | 1 | 0.32 | C | Chlo |
| 3049 | gi|15223331 | Granule-bound starch synthase 1 | Arabidopsis thaliana | 24.4/5.34 | 67.5/8.76 | 175 | 5% | 2 | 0.31 | C | Chlo |
| 0740 | gi|17939849 | Mitochondrial F1 ATP synthase β subunit | Arabidopsis thaliana | 66.3/4.82 | 63.6/6.52 | 308 | 13% | 5 | 1.80 | C | Cyto |
| 2133 | gi|351767989 | Myo-inositol-1-phosphate synthase | Triticum aestivum | 39.1/5.08 | 56.3/5.64 | 67 | 4% | 2 | 0.30 | C | Cyto |
| 1025 | gi|115440691 | Os01g0817700 | Oryza sativa Japonica Group | 35.2/4.66 | 61.0/5.42 | 134 | 4% | 3 | 0.62 | T | Cyto |
| 4029 | gi|356567630 | 2-methylene-furan-3-one reductase | Glycine max | 34.1/5.64 | 42.0/8.96 | 337 | 10% | 4 | 0.11 | C | Chlo |
| 3056 | gi|255544584 | phosphoglycerate kinase, chloroplastic | Glycine max | 35.1/5.23 | 50.1/8.74 | 293 | 13% | 4 | 0.12 | C | Chlo |
| 3051 | gi|1172159 | Starch synthase | Ipomoea batatas | 21.8/5.48 | 67.9/7.47 | 171 | 13% | 5 | 0.26 | C | Chlo |
| Carbon fixation in photosynthetic organisms | |||||||||||
| 0218 | gi|118175929 | Chloroplast sedoheptulose-1,7-bisphosphatase | Morus alba var. multicaulis | 43.2/4.73 | 42.8/6.06 | 92 | 7% | 2 | 0.63 | C | Chlo |
| 2129 | gi|120664 | Glyceraldehyde-3-phosphate dehydrogenase B, chloroplastic | Spinacia oleracea | 35.4/5.11 | 48.6/6.72 | 140 | 6% | 2 | 0.58 | C | Chlo |
| 3050 | gi|15223484 | Phosphoglycerate kinase | Arabidopsis thaliana | 23.7/5.32 | 50.0/8.27 | 398 | 12% | 5 | 0.62 | C | Chlo |
| 2522 | gi|132000 | Ribulose bisphosphate carboxylase large chain | Nicotiana acuminata | 53.2/5.09 | 53.4/6.41 | 322 | 6% | 3 | 0.64 | T | Cyto |
| 3047 | gi|1006698 | Rubisco subunit binding protein, β subunit | Pseudotsuga menziesii | 19.2/5.31 | 9.7/4.37 | 151 | 18% | 1 | 9.31 | C | Chlo |
| 1024 | gi|161777955 | Ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit | Luculia pinceana | 42.8/4.89 | 52.2/6.17 | 171 | 7% | 2 | 3.16 | T | Chlo |
| 2216 | gi|161777955 | Ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit | Luculia pinceana | 40.8/5.18 | 52.2/6.17 | 238 | 7% | 3 | 2.10 | T | Chlo |
| 2047 | gi|12098 | Ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit | Afrocarpus falcatus | 34.9/5.29 | 53.1/5.91 | 121 | 3% | 2 | 0.21 | C | Chlo |
| 0223 | gi|337263422 | Chloroplast rubisco activase | Ophiopogon japonicus | 40.5/4.46 | 48.0/6.04 | 87 | 3% | 1 | 5.05 | C | Chlo |
| 0021 | gi|10720249 | Rubisco activase | Vigna radiata var. radiata | 33.4/4.51 | 48.0/7.57 | 177 | 13% | 4 | 1.79 | T | Chlo |
| 5144 | gi|4261547 | Rubisco activase | Spinacia oleracea | 40.6/6.06 | 47.8/7.67 | 141 | 3% | 1 | 2.08 | C | Chlo |
| 2627 | gi|170129 | Rubisco activase precursor | Spinacia oleracea | 59.1/5.03 | 51.7/6.28 | 171 | 5% | 2 | 0.61 | T | Chlo |
| 2646 | gi|170129 | Rubisco activase precursor | Spinacia oleracea | 55.2/5.22 | 51.7/6.28 | 93 | 3% | 1 | 0.20 | C | Chlo |
| 2651 | gi|170129 | Rubisco activase precursor | Spinacia oleracea | 55.2/5.32 | 51.7/6.28 | 167 | 5% | 2 | 0.25 | C | Chlo |
| 0561 | gi|170129 | Rubisco activase precursor | Spinacia oleracea | 52.8/4.86 | 51.7/6.28 | 160 | 5% | 2 | 7.04 | C | Chlo |
| 1122 | gi|255541252 | Transketolase, putative | Ricinus communis | 38.8/5.01 | 81.6/6.52 | 199 | 8% | 5 | 1.55 | T | Chlo |
| Cellular process | |||||||||||
| 2339 | gi|20329 | Actin | Oryza sativa Indica Group | 44.2/5.09 | 42.2/5.72 | 81 | 4% | 1 | 0.48 | C | Cyto |
| 8221 | gi|227069391 | Actin 4 | Picea abies | 41.2/6.59 | 41.9/5.31 | 298 | 16% | 4 | 2.29 | T | Cyto |
| 3940 | gi|399213 | ATP-dependent Clp protease ATP-binding subunit clpA homolog CD4B, chloroplastic | Solanum lycopersicum | 110.2/5.35 | 102.4/5.86 | 207 | 4% | 3 | 0.29 | C | Chlo |
| 3939 | gi|399213 | ATP-dependent Clp protease ATP-binding subunit clpA homolog CD4B, chloroplastic | Solanum lycopersicum | 110.2/5.34 | 102.4/5.86 | 230 | 8% | 5 | 0.41 | C | Chlo |
| 4031 | gi|42561751 | ATP-dependent zinc metalloprotease FtsH 8 | Arabidopsis thaliana | 24.8/5.51 | 73.3/5.72 | 202 | 11% | 6 | 0.33 | C | Chlo |
| 2240 | gi|2492515 | ATP-dependent zinc metalloprotease FtsH, chloroplastic | Capsicum annuum | 30.2/5.29 | 71.2/6.55 | 131 | 11% | 4 | 0.41 | C | Chlo |
| 2130 | gi|728744 | Auxin-induced protein PCNT115 | Nicotiana tabacum | 35.2/5.03 | 34.3/7.10 | 120 | 9% | 3 | 0.35 | C | Nucl |
| 3055 | gi|6692685 | F12K11.22 | Arabidopsis thaliana | 30.2/5.42 | 71.0/5.81 | 248 | 12% | 6 | 0.16 | C | Chlo |
| Lipid metabolism | |||||||||||
| 3026 | gi|210110834 | β-hydroxyacyl-ACP dehydrase 1 | Arachis hypogaea | 24.3/5.31 | 24.1/9.10 | 112 | 12% | 3 | 0.27 | T | Chlo |
| 0137 | gi|29367475 | Fibrillin-like protein | Oryza sativa Japonica Group | 35.3/4.65 | 33.9/5.04 | 126 | 6% | 3 | 2.02 | T | Chlo |
| 0322 | gi|339697596 | Stearoyl-ACP desaturase | Ginkgo biloba | 44.6/4.55 | 47.2/6.14 | 157 | 14% | 4 | 1.83 | C | Chlo |
| Photosynthesis | |||||||||||
| 2134 | gi|380356155 | ATP synthase CF1 α chain (chloroplast) | Ginkgo biloba | 38.2/5.13 | 55.8/5.02 | 440 | 18% | 8 | 0.25 | C | Chlo |
| 3514 | gi|3913118 | ATP synthase subunit β, chloroplastic | Picea abies | 53.3/5.12 | 52.6/5.18 | 224 | 10% | 3 | 0.65 | T | Chlo |
| 2649 | gi|3913118 | ATP synthase subunit β, chloroplastic | Picea abies | 55.3/5.29 | 52.6/5.18 | 523 | 20% | 6 | 0.39 | C | Chlo |
| 6151 | gi|119904 | Nicotinamide adenine dinucleotide phosphate (NADP) reductase, leaf isozyme, chloroplastic | Pisum sativum | 37.4/6.09 | 40.5/8.56 | 119 | 6% | 1 | 4.41 | C | Chlo |
| 6152 | gi|119904 | NADP reductase, leaf isozyme, chloroplastic | Pisum sativum | 37.5/6.11 | 40.5/8.56 | 146 | 6% | 1 | 8.67 | C | Chlo |
| 1052 | gi|131390 | Oxygen-evolving enhancer protein 2, chloroplastic | Pisum sativum | 29.8/4.81 | 28.2/8.29 | 158 | 18% | 3 | 1.79 | C | Chlo |
| 1118 | gi|225423755 | Photosystem II stability/assembly factor HCF136, chloroplastic | Vitis vinifera | 36.1/5.09 | 44.5/6.92 | 370 | 19% | 6 | 0.50 | C | Chlo |
| 3024 | gi|351726724 | Rieske iron-sulphur protein precursor | Glycine max | 24.8/5.23 | 24.5/9.01 | 95 | 18% | 3 | 2.37 | T | Chlo |
| Protein metabolism | |||||||||||
| 0641 | gi|15222729 | Chaperonin 60 subunit β 1 | Arabidopsis thaliana | 57.9/4.79 | 64.2/6.21 | 57 | 2% | 1 | 1.94 | C | Chlo |
| 6020 | gi|123601 | Heat shock 70 kDa protein | Glycine max | 31.3/5.71 | 71.3/5.37 | 415 | 10% | 6 | 2.49 | T | Cyto |
| 5033 | gi|585273 | Heat shock 70 kDa protein | Solanum tuberosum | 33.4/6.02 | 73.3/6.37 | 190 | 3% | 2 | 7.63 | C | Mito |
| 3719 | gi|357112870 | Heat shock cognate 70 kDa protein 2-like | Brachypodium distachyon | 66.7/5.45 | 71.6/5.09 | 259 | 10% | 5 | 1.51 | T | Cyto |
| 0846 | gi|357112870 | Heat shock cognate 70 kDa protein 2-like | Brachypodium distachyon | 70.2/4.49 | 71.6/5.09 | 355 | 11% | 6 | 2.26 | C | Cyto |
| 2628 | gi|24637539 | Heat shock protein 60 | Prunus dulcis | 58.8/5.04 | 58.1/5.26 | 102 | 5% | 2 | 0.66 | T | Cyto |
| 2848 | gi|166919370 | Chloroplast heat shock protein 70-1 | Ipomoea nil | 81.3/5.18 | 74.5/5.14 | 497 | 9% | 5 | 0.48 | C | Chlo |
| 2045 | gi|124245039 | Chloroplast heat shock protein 70 (HSP70) | Cucumis sativus | 35.1/5.26 | 75.5/5.18 | 721 | 16% | 10 | 0.34 | C | Chlo |
| 0039 | gi|242076604 | Hypothetical protein SORBIDRAFT_06g023840 | Sorghum bicolour | 19.3/4.55 | 85.3/5.42 | 151 | 8% | 4 | 7.75 | C | Chlo |
| 3023 | gi|224084924 | Proteasome subunit β type 3-2 family protein | Populus trichocarpa | 27.2/5.23 | 23.1/5.18 | 215 | 17% | 3 | 2.41 | T | Cyto |
| 0038 | gi|255576477 | Plastid-specific 30S ribosomal protein 3, chloroplast precursor | Ricinus communis | 19.8/4.41 | 20.4/7.79 | 116 | 11% | 3 | 4.20 | C | Chlo |
| 2042 | gi|13094963 | Initiation factor eIF5-A | Manihot esculenta | 18.5/5.09 | 17.8/5.60 | 73 | 10% | 2 | 0.54 | C | Nucl |
| 1119 | gi|402753 | Translation elongation factor EF-G | Glycine max | 37.1/5.12 | 77.9/5.04 | 69 | 4% | 2 | 0.35 | C | Chlo |
| 2135 | gi|218312 | chloroplast elongation factor TuB (EF-TuB) | Nicotiana sylvestris | 37.4/5.16 | 46.8/5.70 | 240 | 10% | 3 | 0.05 | C | Chlo |
| Redox homeostasis | |||||||||||
| 4015 | gi|224091909 | 2-cys peroxiredoxin | Populus trichocarpa | 32.5/5.35 | 28.9/6.84 | 191 | 19% | 6 | 0.09 | T | Chlo |
| 1051 | gi|220898265 | Ascorbate peroxidase | Ginkgo biloba | 29.1/4.77 | 27.7/5.81 | 118 | 11% | 2 | 2.38 | C | Chlo |
| 0040 | gi|294861514 | Cytosolic ascorbate peroxidase 2 | Rubia cordifolia | 18.4/4.49 | 16.8/5.34 | 135 | 15% | 1 | 5.36 | C | Cyto |
| 0041 | gi|220898261 | FeSOD | Ginkgo biloba | 25.2/4.68 | 27.2/6.76 | 312 | 38% | 5 | 1.94 | C | Chlo |
| 1028 | gi|373842096 | Peroxiredoxin | Tamarix hispida | 19.8/4.74 | 17.6/6.08 | 83 | 10% | 1 | 0.43 | T | Cyto |
| 5015 | gi|45643751 | Copper-zinc superoxide dismutase | Citrullus lanatus | 20.2/5.75 | 15.1/5.05 | 120 | 17% | 2 | 1.53 | T | Cyto |
| Unclassified | |||||||||||
| 2128 | gi|242079005 | Hypothetical protein SORBIDRAFT_07g019320 | Sorghum bicolour | 35.5/5.09 | 46.7/4.83 | 195 | 8% | 2 | 0.33 | C | Chlo |
| 4014 | gi|297720697 | Os01g0915900 | Oryza sativa Japonica Group | 26.6/5.74 | 28.3/8.75 | 57 | 8% | 1 | 1.71 | T | Nucl |
| 5019 | gi|224143607 | Predicted protein | Populus trichocarpa | 32.1/5.71 | 31.8/5.26 | 262 | 18% | 4 | 1.53 | T | Chlo |
| 6117 | gi|224080984 | Predicted protein | Populus trichocarpa | 34.9/5.62 | 42.5/5.69 | 113 | 15% | 5 | 0.66 | T | Chlo |
| 1227 | gi|116791600 | Unknown | Picea sitchensis | 40.9/5.05 | 21.0/8.48 | 143 | 7% | 2 | 1.51 | T | Cyto |
| 1327 | gi|116787373 | Unknown | Picea sitchensis | 44.9/4.86 | 65.8/5.69 | 159 | 7% | 3 | 0.63 | C | Chlo |
| 0642 | gi|148909901 | Unknown | Picea sitchensis | 57.6/4.59 | 63.4/5.12 | 118 | 5% | 2 | 2.29 | C | Chlo |
a Spot number corresponds to the differentially accumulated proteins indicated in Figure 2; b Accession number according to the National Center for Biotechnology Information (NCBI) database; c The names and species of the proteins obtained by MASCOT software; d The experimental mass (kDa) and pI of the identified proteins were calculated by PDQuest; e The theoretical mass (kDa) and pI values of the identified proteins were retrieved from the protein database; f MASCOT score after searching against the database; g The sequence coverage percentage of identified proteins; h Number of identified peptides (Peptide sequences were shown in Table S1); i The protein abundance ratio (YL/GL); j Type of extracts. T: total leaf proteins; C: chloroplast; k Sub-cellular localization. Chlo: Chloroplast, Cyto: Cytoplasmic, Nucl: Nuclear, Mito: Mitochondrial.