Results
Profiling of human plasma samples by 2DE separated hundreds of protein spots based on different isoelectric points and relative molecular masses. A typical representative 2DE profile of plasma within the range of pH 4–7 with the relative molecular mass declining from 200 kDa to 10 kDa was obtained, as demonstrated in Figure 1A . When 2DE was performed on plasma samples from diabetic patients with AMI, the profiles obtained were similar to those of the controls. The 2DE plasma protein profiles resolved in the present study were also generally comparable with those published in the Swiss-2D PAGE database 16 . For enhanced visualization and comparison, individual protein spots between the two groups were enlarged, as shown in Figure 1B . The spots were obtained from the software and tabulated according to the respective protein labels. By using Progenesis SameSpots and FDR analysis, a total of 34 highly resolved protein spots were differentially regulated (adjusted P ≤0.050). Densitometry analysis of the highly resolved spots was conducted in terms of the average normalized volumes, P -values, and fold changes. Protein spots that were statistically significant (adjusted P ≤0.050) with a minimum fold changes of 1.5 upon FDR analysis are recorded in Table 2 . Of these protein spots, 10 were significantly upregulated and 24 were significantly downregulated in T2DM patients with AMI compared with T2DM patients without AMI. These 34 protein spots of altered abundance comprised a total of 17 plasma protein clusters. Figure 1 Representative 2DE profile of the plasma proteome and cropped images of protein spots of altered abundance. Ten gels of each group of T2DM patients were analyzed by Progenesis SameSpots, and one of the gels was selected as a representative (A). Thirty-four spots of altered abundance were labelled and circled in red: 10 were significantly upregulated (Protein spots 6, 9, 10, 11, 12, 13, 14, 24, 27, and 31) and 24 were significantly downregulated (Protein spots 1, 2, 3, 4, 5, 7, 8, 15, 16, 17, 18, 19, 20, 21, 22, 23, 25, 26, 28, 29, 30, 32, 33, and 34). Representative cropped images of T2DM patients with (+AMI) and without (−AMI) AMI are shown in (B).
Table 2 Average normalised volumes of plasma protein spots of T2DM patients. Protein Spot Label Average Normalised Volume×10 7 (± SEM×10 7 ) Adjusted P -value ( P ≤0.050) Fold Change *
without AMI with AMI 1 3.351 (±0.373) 0.980 (±0.163) 0.001 −3.4 2 3.599 (±0.466) 1.191 (±0.165) 0.003 −3.0 3 4.508 (±0.285) 2.287 (±0.513) 0.021 −2.0 4 8.477 (±0.620) 5.083 (±0.715) 0.026 −1.7 5 1.301 (±0.200) 0.790 (±0.232) 0.043 −1.6 6 0.360 (±0.034) 0.935 (±0.143) 0.004 +2.6 7 6.179 (±0.342) 3.707 (±0.287) 0.006 −1.7 8 8.471 (±0.622) 5.717 (±0.422) 0.013 −1.5 9 1.501 (±0.525) 4.282 (±0.673) 0.018 +2.9 10 3.221 (±0.858) 8.209 (±1.514) 0.019 +2.5 11 3.946 (±0.782) 7.106 (±1.064) 0.044 +1.8 12 1.949 (±0.627) 6.380 (±1.086) 0.007 +3.3 13 0.186 (±0.023) 0.873 (±0.265) 0.012 +4.7 14 2.907 (±0.740) 6.633 (±1.187) 0.034 +2.3 15 1.109 (±0.138) 0.405 (±0.084) 0.009 −2.7 16 23.959 (±0.942) 15.893 (±1.488) 0.010 −1.5 17 1.757 (±0.119) 0.986 (±0.143) 0.015 −1.8 18 3.986 (±0.317) 2.405 (±0.382) 0.031 −1.7 19 5.815 (±0.683) 3.443 (±0.617) 0.032 −1.7 20 10.862 (±0.767) 7.190 (±1.413) 0.046 −1.5 21 3.854 (±0.336) 1.961 (±0.366) 0.016 −2.0 22 9.212 (±0.599) 4.863 (±0.702) 0.024 −1.9 23 0.365 (±0.094) 0.100 (±0.029) 0.022 −3.6 24 0.957 (±0.096) 1.709 (±0.229) 0.025 +1.8 25 1.712 (±0.165) 1.040 (±0.136) 0.028 −1.6 26 2.037 (±0.321) 0.908 (±0.172) 0.029 −2.2 27 4.814 (±0.663) 7.570 (±0.322) 0.035 +1.6 28 16.118 (±1.546) 10.640 (±1.434) 0.037 −1.5 29 1.752 (±0.217) 1.082 (±0.284) 0.040 −1.6 30 9.569 (±0.789) 5.985 (±1.415) 0.038 −1.6 31 1.229 (±0.120) 2.401 (±0.481) 0.041 +1.8 32 2.551 (±0.549) 1.051 (±0.256) 0.047 −2.4 33 11.263 (±1.056) 7.300 (±0.944) 0.049 −1.5 34 12.013 (±1.415) 8.069 (±1.167) 0.050 −1.5
Representative 2DE profile of the plasma proteome and cropped images of protein spots of altered abundance. Ten gels of each group of T2DM patients were analyzed by Progenesis SameSpots, and one of the gels was selected as a representative (A). Thirty-four spots of altered abundance were labelled and circled in red: 10 were significantly upregulated (Protein spots 6, 9, 10, 11, 12, 13, 14, 24, 27, and 31) and 24 were significantly downregulated (Protein spots 1, 2, 3, 4, 5, 7, 8, 15, 16, 17, 18, 19, 20, 21, 22, 23, 25, 26, 28, 29, 30, 32, 33, and 34). Representative cropped images of T2DM patients with (+AMI) and without (−AMI) AMI are shown in (B).
Average normalised volumes of plasma protein spots of T2DM patients.
The identities of the protein spot clusters were confirmed by MS and a database search. Every spot with altered abundance in the 2DE gel slabs was subjected to MS analysis for identification. According to the MASCOT search results, protein scores greater than 54 were considered significant ( P <0.05). The results for plasma proteins were enumerated in terms of their UniProtKB accession number, theoretical pI, theoretical mass, MASCOT score, number of peptides matched, and sequence coverage (Table 3 ). MS was able to identify 12 proteins with notable changes between the experimental and control groups, including clusterin (4 protein species), haptoglobin (6 protein species), DNA repair protein RAD50 (1 protein species), serum albumin (4 protein species), apolipoprotein A-IV (2 protein species), serotransferrin (1 protein species), tetranectin (1 protein species), titin (1 protein species), retinol-binding protein 4 (2 protein species), transthyretin (1 protein species), alpha-1-antitrypsin (1 protein species), and apolipoprotein A-I (2 protein species). Eight protein spots, however, were not statistically significant: clusterin, myosin-13, zinc finger protein 445, aminoacyl tRNA synthase complex-interacting multifunctional protein 1, caspase-6 and serum amyloid A, and this is most likely due to the limited gel plugs and low protein concentration. With the exceptions of haptoglobin and myosin-13, the theoretical pI and mass values of most of the protein spots of interest were apparently comparable with the values detected from their resolved positions in the 2DE profiles shown in Figure 1 . Variations in the haptoglobin and myosin-13 values may be due to post-translational modifications and/or fragmentation of the proteins. Table 3 Mass spectrometric identification of spot clusters from plasma protein profiles. Spot Label Protein UniProtKB Accession No. Theoretical pI Theoretical Mass (kDa) MASCOT Score Peptides Matched *
Sequence Coverage (%) 1 Clusterin P10909 5.89 53.03 84 11 17 2 163 13 164 3 150 8 14 4 259 14 12 5 *
53 6 3 6 Haptoglobin P00738 6.13 45.86 135 13 16 7 72 8 5 8 60 6 5 9 119 15 24 10 202 15 24 11 287 20 14 12 *
Myosin-13 Q9UKX3 5.56 224.68 35 25 9 13 *
31 22 8 14 *
38 21 8 15 *
Zinc finger protein 445 P59923 9.50 121.28 30 10 7 16 DNA repair protein RAD50 Q92878 6.48 154.82 56 27 18 17 Serum albumin P02768 5.92 71.32 151 10 4 18 119 11 6 19 310 20 17 20 90 4 4 21 Apolipoprotein A-IV P06727 5.28 45.37 530 31 19 22 1060 45 40 23 *
Aa tRNA synthase P1 **
Q12904 8.61 34.62 37 4 18 24 *
Caspase-6 P55212 6.46 33.86 34 6 15 25 Serotransferrin P02787 6.81 79.28 188 21 9 26 Tetranectin P05452 5.52 22.95 70 7 28 27 Titin Q8WZ42 6.01 3,843.12 61 79 2 28 Retinol-binding protein 4 P02753 5.76 23.34 354 13 29 29 75 7 29 30 Transthyretin P02766 5.52 15.99 84 8 17 31 *
Serum amyloid A Q15423 6.28 13.58 53 5 40 32 Alpha-1-antitrypsin P01009 5.37 46.88 89 6 11 33 Apolipoprotein A-I P02647 5.56 30.76 132 20 44 34 525 40 25
* Protein spot was not significantly identified in MS analysis (MASCOT Score < 55).
** Aminoacyl tRNA synthase complex-interacting multifunctional protein 1.
Mass spectrometric identification of spot clusters from plasma protein profiles.
* Protein spot was not significantly identified in MS analysis (MASCOT Score < 55).
** Aminoacyl tRNA synthase complex-interacting multifunctional protein 1.
When the plasma proteins of altered abundance were subjected to text mining using the method of Pletscher-Frankild et al
16 , relevant clinical associations were generated (Table 4 ). According to the literature, most of the identified plasma proteins of interest had already been associated with cardiac coronary artery diseases (CADs) or atherosclerosis. From this list, tetranectin and titin were further selected for quantitative validation by sandwich ELISA. While tetranectin was chosen mainly because of its association with fibrinolysis, the selection of titin was based on its relationship with cardiac and muscle diseases and because it is a resident cardiac protein. The regulation patterns and significance levels of tetranectin and titin obtained by ELISA and 2DE were compared (Figure 2 ). ELISA was performed on ten samples from each group, and these proteins were confirmed to be present at different concentrations. From these concentrations, the abundance patterns between both the control (without AMI) and experimental groups (with AMI) were calculated and found to be similar to the initial 2DE data. Ultimately, the concentrations of the two proteins were confirmed through this method, and the ELISA and 2DE approaches both demonstrated downregulation of tetranectin and upregulation of titin in diabetic subjects with AMI. Table 4 List of significant plasma proteins associated with respective clinical diseases mined from literature 16 . Protein Diseases *
Clusterin Alzheimer's disease, limb ischemia, cancer, dementia, transient neonatal neutropenia, kidney disease, Fuch's endothelial dystrophy, intermittent claudication, atherosclerosis, diabetes mellitus, peripheral vascular disease, and coronary artery disease. Haptoglobin Anaemia, autoimmune haemolytic anaemia, mastitis, vascular disease, glucose-6-phosphate dehydrogenase deficiency, cancer, kidney disease, malaria, endometritis, liver disease, thrombocytopenia, sleeping sickness, diabetes mellitus, arthritis, tuberculosis, vaginal discharge, pneumonia, thrombotic thrombocytopenic purpura, thalassaemia, bilirubin metabolic disorder, inflammatory bowel disease, swine influenza, obesity, hepatitis B, lymphatic system disease, heart disease, diarrhea, scurvy, hepatitis C, rheumatic fever, leukopenia, and endometriosis. Myosin-13 None. Zinc finger protein 445 None. DNA repair protein RAD50 Nijmegen breakage syndrome, ataxia telangiectasia, and microcephaly. Serum albumin Kidney disease, diabetes mellitus, liver disease, hypertension, cancer, lung disease, protein-energy malnutrition, peritonitis, anemia, protein-losing enteropathy, coronary artery disease, brain disease, portal hypertension, cerebrovascular disease, hepatitis B, hypersensitivity reaction type II disease, Alzheimer's disease, hyperthyroidism, pneumocystosis, cholera, sarcoidosis, schistosomiasis, periodontal disease, uveitis, fatty liver disease, myopathy, leprosy, meningoencephalitis, dermatitis, gallbladder disease, eosinophilia, diphtheria, exanthem, atherosclerosis, diarrhohea, bilirubin metabolic disorder, hyperglycaemia, diabetic retinopathy, heart disease, inflammatory bowel disease, cholestasis, obesity, esophageal varix, hypersensitivity reaction type I disease, arthritis, decubitus ulcer, metabolic acidosis, peripheral vascular disease, neuropathy, varicose veins, tuberculosis, ovarian hyperstimulation syndrome, metabolic syndrome X, asthma, hyperthyroxinaemia, lipid metabolism disorder, hyperparathyroidism, leukopenia, pancreatitis, thrombocytopenia, hepatitis C, autonomic neuropathy, meningitis, rhinitis, amyloidosis, lymphatic system disease, arthus reaction, multiple sclerosis, pulmonary embolism, neonatal jaundice, hypercalcemia, bronchitis, cholangitis, intestinal obstruction, acquired immunodeficiency syndrome, urticaria, dementia, hypoglycaemia, acute cystitis, cystic fibrosis, hypothyroidism, short bowel syndrome, tetanus, malaria, portal vein thrombosis, hyperhomocysteinaemia, mastitis, hyperphosphatemia, vasculitis, osteoporosis, hyperuricemia, hypertensive retinopathy, thyrotoxicosis, bronchiectasis, tropical sprue, pyuria, otitis media, hyperinsulinism, substance abuse, polycystic kidney disease, atrial fibrillation, polyneuropathy, alcohol dependence, capillary leak syndrome, peptic ulcer disease, conjunctivitis, visceral leishmaniasis, bacteriuria, cataract, pneumothorax, macroglobulinaemia, disseminated intravascular coagulation, measles, toxic encephalopathy, primary immunodeficiency disease, steatorrhoea, hepatitis A, infertility, toxic megacolon, aortic aneurysm, pericarditis, hypokalemia, influenza, peripheral artery disease, compartment syndrome, calcinosis, stomatitis, pericardial effusion, cryoglobulinaemia, intermittent claudication, anorexia nervosa, alopecia, dengue disease, porphyria, hypoparathyroidism, candidiasis, pain agnosia, gastroenteritis, hepatic vein thrombosis, macular retinal edema, synovitis, rabies, constipation, syphilis, fascioliasis, pertussis, mediastinitis, limb ischaemia, and goiter. Apolipoprotein A-IV Carotenaemia, obesity, coronary artery disease, atherosclerosis, lattice corneal dystrophy, diabetes mellitus, Guillain-Barre syndrome, and lipid metabolism disorder. Aa tRNA synthase P1 **
Neuritis and cancer. Caspase-6 Huntington's disease, cancer, Alzheimer's disease, and acute hemorrhagic conjunctivitis. Serotransferrin Haemochromatosis, anaemia, congenital disorder of glycosylation, substance abuse, kidney disease, liver disease, cancer, alcohol dependence, protein-energy malnutrition, thalassaemia, diabetes mellitus, haemosiderosis, atransferrinemia, cholera, lung disease, restless legs syndrome, porphyria cutanea tarda, aceruloplasminemia, hepatitis C, protein-losing enteropathy, alzheimer's disease, arthritis, hypertension, meningitis, diphteria, malaria, vitamin B12 deficiency, diarrhea, brain disease, obesity, eye disease, coronary artery disease, inflammatory bowel disease, arthropathy, Parkinson's disease, heart disease, metabolic syndrome X, hepatitis B, fatty liver disease, cerebrovascular disease, atherosclerosis, male infertility, dementia, hypersensitivity reaction type II disease, peritonitis, sleeping sickness, withdrawal disorder, anorexia nervosa, and cystic fibrosis. Tetranectin Inhalation anthrax, byssinosis, cancer, and vascular disease. Titin Myopathy, myasthaenia gravis, thymoma, heart disease, meconium aspiration syndrome, amyloidosis, respiratory failure, rippling muscle disease, Lambert-Eaton myasthaenic syndrome, asphyxia neonatorum, and pneumothorax. Retinol-binding protein 4 Obesity, diabetes mellitus, metabolic syndrome X, fatty liver disease, Matthew-Wood syndrome, polycystic ovary syndrome, lipid metabolism disorder, hyperglycaemia, ariboflavinosis, hypervitaminosis A, hypertension, hyperinsulinsism, atherosclerosis, and kidney disease. Transthyretin Amyloidosis, polyneuropathy, protein-energy malnutrition, carpal tunnel syndrome, hyperthyroxinaemia, neuropathy, autonomic neuropathy, atrial fibrillation, kidney disease, cancer, Alzheimer's disease, liver disease, heart disease, diarrhea, diabetes mellitus, decubitus ulcer, choroid plexus papilloma, cerebrovascular disease, hypothyroidism, myopathy, dementia, eye disease, hypervitaminosis A, hyperthyroidism, anorexia nervosa, carotenemia, thyrotoxicosis, anemia, brain disease, pneumonia, hypertension, Crohn's disease, cholestasis, short bowel syndrome, obesity, pancreatitis, phenylketonuria, blepharochalasis, and chronic obstructive pulmonary disease. Serum amyloid A Amyloidosis, familial Mediterranean fever, anemia, splenic artery aneurysm, rheumatoid arthritis, atherosclerosis, cancer, kidney disease, and coronary artery disease. Alpha-1-antitrypsin Alpha-1-antitrypsin deficiency, chronic obstructive pulmonary disease, protein-losing enteropathy, liver disease, cancer, bronchitis, cystic fibrosis, fibromyalgia, bronchiectasis, histiocytosis, pancreatitis, vasculitis, skin disease, cholestasis, Crohn's disease, rheumatoid arthritis, asthma, adult respiratory distress syndrome, hypersensitivity reaction type II disease, diarrhoea, kidney disease, interstitial lung disease, colitis, pneumothorax, hepatitis B, constrictive pericarditis, pneumonia, steatorrhoea, disseminated intravascular coagulation, congenital disorder of glycosylation, otitis media, diabetes mellitus, haemochromatosis, coronary artery disease, periodontal disease, uveitis, granular cell tumour, cutaneous fibrous histiocytoma, and portal hypertension. Apolipoprotein A-I Atherosclerosis, coronary artery disease, lipid metabolism disorder, diabetes mellitus, metabolic syndrome X, obesity, amyloidosis, hypertension, cerebrovascular disease, kidney disease, liver disease, cancer, heart disease, arthritis, polycystic ovary syndrome, hyperinsulinism, hyper homocysteinemia, arcus senilis, peripheral vascular disease, Alzheimer's disease, hyperlycaemia, dysbaric osteonecrosis, and hypothyroidism.
* The complete list of associated diseases related to plasma proteins. The Z-score and confidence level corresponding to each protein were determined using the text-mining database. In statistics, Z-score denotes how many standard deviations an element or datum is from the mean whereas confidence level refers to the likelihood of all possible samples that can be expected to include the true population parameter.
** Aminoacyl tRNA synthase complex-interacting multifunctional protein 1.
Figure 2 Analysis of plasma tetranectin and titin by 2DE and ELISA. Similar patterns of plasma tetranectin and titin were obtained using 2DE (A) and ELISA (B). However, the P -value for tetranectin was not as significant as that obtained through the 2DE approach. : T2DM patients without AMI, : T2DM patients with AMI.
List of significant plasma proteins associated with respective clinical diseases mined from literature 16 .
* The complete list of associated diseases related to plasma proteins. The Z-score and confidence level corresponding to each protein were determined using the text-mining database. In statistics, Z-score denotes how many standard deviations an element or datum is from the mean whereas confidence level refers to the likelihood of all possible samples that can be expected to include the true population parameter.
** Aminoacyl tRNA synthase complex-interacting multifunctional protein 1.
Analysis of plasma tetranectin and titin by 2DE and ELISA. Similar patterns of plasma tetranectin and titin were obtained using 2DE (A) and ELISA (B). However, the P -value for tetranectin was not as significant as that obtained through the 2DE approach. : T2DM patients without AMI, : T2DM patients with AMI.
Materials|Methods
This study was conducted among diabetic Malaysian subjects according to the Declaration of Helsinki and approved by the Ethical Committee (Institutional Review Board) of the University of Malaya Medical Centre (UMMC) (REF NO 1003.10(1)) and Faculty of Dentistry, University of Malaya (DF OB1404/0020(L)). Experimental samples used in the study were collected from patients admitted to the UMMC Cardiology and Coronary Care Wards, and control samples were collected from patients attending the outpatients' clinic at UMMC Medical Clinic. Samples from admitted patients were collected within three days following onset of AMI, depending on the patients' medical status. Each volunteer was interviewed and requested to complete a questionnaire concerning personal and health information, including smoking and alcohol drinking habits, health and dental problems, radiation exposure, major surgical procedures, and antibiotic prescriptions. Informed written consent was obtained from every patient prior to plasma collection. Blood samples were obtained by peripheral venous puncture and collected into plastic whole blood tubes with spray-coated dipotassium EDTA. Within 1 h of collection, the blood samples were centrifuged at 1500× g for 15 min at 4 °C. The resulting supernatant, or plasma, was immediately divided into 100 μL aliquots and stored at -80 °C. Following 15 months of subject enrollment, 43 admitted patients and 34 outpatients were recruited for this study. The exclusion criteria for recruited subjects were pregnancy, smoking during the previous three months, antibiotic use during the previous three months, and prior major surgeries. In accordance with these exclusion criteria, plasma samples from 20 subjects were finally chosen for proteomic analysis. The demographics and clinical characteristics of subjects involved in the study are shown in Table 1 . Table 1 Demographics and clinical characteristics of subjects. Parameter T2DM without AMI ( n =10) T2DM with AMI ( n =10) Sex (M:F 1 ) 6:4 10:0 (%) 60:40 100:0 Ethnicity (M:C:I 2 ) 5:1:4 5:0:5 (%) 50:10:40 50:0:50 Age (year) 3
56.7±8.4 50.0±7.8 HbA1c (%) 3
8.98±2.30 9.51±2.42
1 M:F – Male: Female of the Malaysian subjects
2 M:C:I – Malay: Chinese: Indian of the Malaysian subjects
3 Values are expressed in mean±SD
Demographics and clinical characteristics of subjects.
1 M:F – Male: Female of the Malaysian subjects
2 M:C:I – Malay: Chinese: Indian of the Malaysian subjects
3 Values are expressed in mean±SD
Initially, 4.5 μL (approximately 315 μg of protein) of plasma was incubated in sample buffer (9 mol/L urea, 60 mmol/L DTT, 2% v/v IPG buffer pH 4–7, 0.5% v/v Triton X-100) for 30 min and then in rehydration buffer (8 mol/L urea, 0.5% v/v IPG buffer pH 4–7, 0.5% v/v Triton X-100, 0.002% w/v Orange G) for another 30 min at room temperature, with a final volume of 200 μL. The final ratio of sample buffer to rehydration buffer was 1:3. Once the mixture was completely dissolved, one Immobiline DryStrip Gel (pH 4–7 linear, 11 cm, GE Healthcare, Uppsala, Sweden) was passively rehydrated with the mixture and kept in a sealed environment for a minimum of 12 h at room temperature. Isoelectric focusing (IEF) was performed on the other strips with an Ettan IPGphor 3 Isoelectric Focusing Unit (GE Healthcare, Uppsala, Sweden), and they were maintained at 20 °C. With a maximum current of 50 μA per strip, the rehydrated IPG gel strips were electrophoresed at 500 V for 1 h (step and hold), 1000 V for 1 h (gradient), 6000 V for 2.5 h (gradient), and 6000 V for 55 min (step and hold).
Prior to sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE), one 8%–18% gradient SDS-PAGE gel with a total volume of approximately 24 mL was prepared for each strip. Upon completion of IEF, the focused strips were equilibrated for 15 min in SDS equilibration buffer (75 mmol/L Tris, pH 8.8, 6 mol/L urea, 29.3% v/v glycerol, 2% w/v SDS) containing 1% w/v DDT on an orbital shaker. The solution was then replaced by equilibration buffer containing 4.5% w/v iodoacetamide for another 15 min with gentle shaking. Subsequently, SDS-PAGE was performed using an SE 600 Ruby Electrophoresis System (GE Healthcare, Uppsala, Sweden) filled with anode buffer, pH 8.8 (45.4 mol/L Tris), at 18 °C on 8%-18% gradient gels containing SDS with the strips sealed in place with 0.5% w/v agarose in SDS-electrophoresis buffer (25 mmol/L Tris, 192 mmol/L glycine, 0.1% w/v SDS). SDS-PAGE was performed at 50 V for 0.5 h, followed by 600 V for 1.5 h. The maximum current and power were 40 mA and 25 W per gel, respectively.
An MS-compatible silver staining protocol was performed according to the method previously described, with slight modifications 13 . The procedure was carried out on an orbital shaker, as all of the steps in the staining technique required gentle shaking. After gel electrophoresis, the gel slabs were soaked in fixing solution (40% v/v ethanol, 10% v/v acetic acid) for at least 30 min. The gels were then incubated in sensitizing solution (30% v/v ethanol, 0.5 mol/L sodium acetate trihydrate, 8 mmol/L sodium thiosulfate) for at least another 30 min. Following three consecutive 15 min washes with double-distilled water, the solution was substituted with silver solution (14.72 mmol/L silver nitrate) and left to shake for 20 min. Subsequently, the gel slabs were quickly washed twice and immersed in developing solution (235.9 mmol/L sodium carbonate, 0.2% v/v formaldehyde). The protein spots were developed until a sufficient resolution was reached. The solution was then replaced with stop solution (39.2 mmol/L EDTA disodium dihydrate) to prevent overstaining. After washing with double-distilled water three times, the developed gel slabs were then stored at 4 °C.
After staining, the 2DE gels were scanned at 600 dpi using ImageScanner III (GE Healthcare, Uppsala, Sweden). Image analysis was performed using Progenesis SameSpots (version 4.5, Nonlinear Dynamics, UK & USA). Ten gel images with the best resolution were chosen to represent each group and used for further analysis. In brief, the gel images were aligned to adjust all of the spots accurately in the exact same location. After calculating the background-corrected abundance, the normalized volume was calculated for each protein spot that was detected by the software. The volumes for both groups were compared to determine the respective fold changes and P -values (unpaired t -test) of the protein spots as calculated by the image analysis software. Each protein spot of altered abundance was expressed as averaged normalized volume±standard error of the mean (SEM). The P -values later underwent false discovery rate (FDR) analysis based on the method described by Benjamini-Hochberg 14 . This statistical analysis was performed with the help of a statistician, and the formula was prepared in a Microsoft Excel file at an alpha value of 0.05. Each of the highly resolved plasma protein spots that was statistically significant (adjusted P ≤0.050) with fold changes of at least 1.5 was subsequently selected for MS analysis. As a result, 34 plasma spots were selected for subsequent experiments. The protein spots, ranging from 1 to 2 mm in diameter with the desired significance level were manually excised from the silver-stained 2DE gels and pooled from all similar gels to maximize the confident MS results. The gel plugs were then kept hydrated in double-distilled water for further protein identification.
For in-gel tryptic digestion, the gel plugs were destained with 15 mmol/L potassium ferricyanide/50 mmol/L sodium thiosulfate for 15 min with shaking until they turned transparent. The gel plugs were then reduced in 10 mmol/L DTT/100 mmol/L ammonium bicarbonate for 30 min at 60 °C, followed by alkylation in 55 mmol/L iodoacetamide/100 mmol/L ammonium bicarbonate for 20 min in the dark at room temperature. The plugs were then washed three times with 50% acetonitrile/100 mmol/L ammonium bicarbonate for 20 min with shaking, followed by dehydration with 100% acetonitrile for 15 min with shaking and centrifugation in a speed vacuum at low speed at ambient temperature until the gel plugs were completely dry. The plugs were digested in 6 ng/μL trypsin in 50 mmol/L ammonium bicarbonate at 37 °C. On the following day, the peptide mixtures were extracted twice with 50% and 100% acetonitrile sequentially and concentrated in a speed vacuum. The dried peptides were subsequently reconstituted with 0.1% formic acid and desalted using Zip Tip C18 Micropipette Tips.
Peptide mixtures were analyzed using a 5800 MALDI TOF/TOF Analyzer (AB SCIEX, USA). The tryptic-digested peptides were crystallized with an α-cyano-4-hydroxycinnamic acid matrix solution (6 mg/mL α-cyano-4-hydroxycinnamic acid, 70% acetonitrile, 0.1% v/v TFA aqueous solution) and spotted onto a 384-well MALDI target plate. The MS results were automatically acquired with a trypsin autodigest exclusion list, and the 20 most intense precursor ions were selected for MS/MS analysis, with a minimum S/N of at least 10. MS and MS/MS acquisition and interpretation were carried out using TOF/TOF Series Explorer Software (version 4.0, AB SCIEX, USA). The spectra were then processed and analyzed using ProteinPilot Software (version 4.5, AB SCIEX, USA) and the in-house MASCOT Program (Matrix Science, UK) to search for peptide mass fingerprints and MS/MS data. Both combined MS and MS/MS searches were conducted against the UniProt database (Last updated: July 31, 2017) with the following search parameters: Homo sapiens; trypsin enzyme; one missed cleavage; peptide mass tolerance at 100 ppm; fragment mass tolerance at 0.2 Da; fixed and variable modifications, including cysteine carbamidomethylation and methionine oxidation, respectively; and inclusion of monoisotopic masses. According to the MASCOT search results, protein scores greater than 54 were considered significant ( P <0.05).
Analysis of the identified proteins and respective cardiac associations from a text-mining database 15 led to the further selection of plasma tetranectin and titin for analysis by competitive ELISA. This immunoassay employed the quantitative sandwich enzyme immunoassay technique. Based on the manufacturer's instructions, protein determination was performed on two antibodies specific to tetranectin and titin. In principle, the microtiter plate provided by the manufacturer was pre-coated beforehand with a specific antibody. For each protein, ten samples and the standard were pipetted into the appropriate microtiter plate wells. In theory, any desired analyte present in the samples was bound by the immobilized antibody. Upon removing any unbound substances, a biotin-conjugated antibody specific to its analyte was added. After washing, avidin conjugated to horseradish peroxidase was added to each microplate well and incubated. Following a wash to remove any unbound avidin-enzyme reagent, 3, 3', 5, 5'-tetramethylbenzidine substrate was added to the wells. Only those wells containing the desired analyte, biotin-conjugated antibody, and enzyme-conjugated avidin exhibited a change in color. The intensity of the developed color was proportional to the amount of analyte bound in the initial step. The color development of the enzyme-substrate reaction was terminated by the addition of sulfuric acid solution, and the color intensity was measured spectrophotometrically at a wavelength of 450 nm. The concentration of analyte in the samples was then determined by comparing the optical density of the samples to the standard curve generated for each antigen.