The birth and infancy of proteomic analysis in osteoarthritis research

Current Opinion in Molecular Therapeutics

Volumn 9, Issue 3, 2007, Pages 263-269

  De Ceuninck, F ^a  

^a INSTITUT DE RECHERCHES SERVIER   (France)

Author keywords

Arthritis; Biomarker; Cartilage; Chondrocyte; Mass spectrometry; Microarray; Osteoarthritis; Proteome; Synovial fluid; Two dimensional electrophoresis

Indexed keywords

AGGRECAN; AMINO ACID; BIOLOGICAL MARKER; CHEMOKINE; CHONDROITIN; COLLAGEN TYPE 10; COLLAGEN TYPE 11; COLLAGEN TYPE 12; COLLAGEN TYPE 14; COLLAGEN TYPE 2; COLLAGEN TYPE 3; COLLAGEN TYPE 6; COLLAGEN TYPE 9; INTERLEUKIN 6; INTERLEUKIN 8; KERATAN SULFATE; MATRIX METALLOPROTEINASE; MONOCYTE CHEMOTACTIC PROTEIN 1; OSTEOPROTEGERIN; THROMBOPOIETIN; VASCULOTROPIN;

BIRTH; BODY FLUID; CARTILAGE CELL; CELL CULTURE; DESORPTION; HUMAN; INFANCY; IONIZATION; ISOTOPE LABELING; LIQUID CHROMATOGRAPHY; MASS SPECTROMETRY; NONHUMAN; OSTEOARTHRITIS; PATHOPHYSIOLOGY; POLYACRYLAMIDE GEL ELECTROPHORESIS; PROTEIN MICROARRAY; PROTEOMICS; REVIEW; SURFACE ENHANCED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; TIME OF FLIGHT MASS SPECTROMETRY; TWO DIMENSIONAL ELECTROPHORESIS; WESTERN BLOTTING;

CHROMATOGRAPHY, LIQUID; ELECTROPHORESIS, GEL, TWO-DIMENSIONAL; HUMANS; MASS SPECTROMETRY; OSTEOARTHRITIS; PROTEIN ARRAY ANALYSIS; PROTEOMICS;

EID: 34250641197     PISSN: 14648431     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Review

References (35)

1. Aigner T, Saas J, Zien A, Zimmer R, Gebhard PM, Knorr T: Analysis of differential gene expression in healthy and osteoarthritic cartilage and isolated chondrocytes by microarray analysis. Methods Mol Med (2004) 100:109-128.
2. Marshall KW, Zhang H, Nossova N: Chondrocyte genomics: Implications for disease modification in osteoarthritis. Drug Discov Today (2006) 11(17-18):825-832.
3. Baggerman G, Vierstraete E, De Loof A, Schoofs L: Gel-based versus gel-free proteomics: A review. Comb Chem High Throughput Screen (2006) 8(8):669-677.
4. Wittman-Liebold B, Graack HR, Pohl T: Two-dimensional gel electrophoresis as tool for proteomics studies in combination with protein identification by mass spectrometry. Proteomics (2006) 6(17):4688-4703.
5. Roe MR, Griffin TJ: Gel-free mass spectrometry-based high throughput proteomics: Tools for studying biological response of proteins and proteomes. Proteomics (2006) 6(17):4678-4687.
6. Stoll D, Templin MF, Bachmann J, Joos TO: Protein microarrays: Applications and future challenges. Curr Opin Drug Discovery Dev (2005) 8(2):239-252.
7. Vincourt JB, Lionneton F, Kratassiouk G, Guillemin F, Netter P, Mainard D, Magdalou J: Establishment of a reliable method for direct proteome characterization of human articular cartilage. Mol Cell Proteomics (2006) 5(10):1984-1995. • This paper describes a pilot study for future differential proteomics between normal and osteoarthritis cartilage, detailing a reproducible protocol for the analysis of the cartilage proteome, achievable from small amounts of tissue.
8. Garcia BA, Platt MD, Born TL, Shabanowitz J, Marcus NA, Hunt DF: Protein profile of osteoarthritic human articular cartilage using tandem mass spectrometry. Rapid Commun Mass Spectrom (2006) 20(20):2999- 3006. • In this study, tandem mass spectrometry is presented as a powerful tool for the rapid and accurate profiling of extracellular matrix proteins from osteoarthritis cartilage.
9. Hermansson M, Sawaji Y, Bolton M, Alexander S, Wallace A, Begum S, Wait R, Saklatvala J: Proteomic analysis of articular cartilage shows increased type II collagen synthesis in osteoarthritis and expression of inhibin βA (activin A), a regulatory molecule for chondrocytes. J Biol Chem (2004) 279(42):43514-43521.
10. De Ceuninck F, Marcheteau E, Berger S, Caliez A, Dumont V, Raes M, Anract P, Leclerc G, Boutin JA, Ferry G: Assessment of some tools for the characterization of the human osteoarthritic cartilage proteome. J Biomol Tech (2005) 16(3):256-265.
11. Zangar RC, Varnum SM, Bollinger N: Studying cellular processes and detecting disease with protein microarrays. Drug Metab Rev (2005) 37(3):473-487.
12. De Ceuninck F, Dassencourt L, Anract P: The inflammatory side of human chondrocytes unveiled by antibody microarrays. Biochem Biophys Res Commun (2004) 323(3):960-969. • This study involved the first protein microarray analysis carried out in chondrocytes, and showed that a wide range of unsuspected cytokines, chemokines and growth factors are secreted constitutively or after IL-1 or TNF treatment by human chondrocytes.
13. Goldring MB: Update on the biology of the chondrocyte and new approaches to treating cartilage diseases. Best Pract Res Clin Rheumatol (2006) 20(5):1003-1025. •• This paper provides a well-documented review on experimental approaches that may lead to elucidation of effective therapies for osteoarthritis, with emphasis on mediators that affect the function of chondrocytes and their interaction with surrounding tissues.
14. Thirion S, Berenbaum F: Culture and phenotyping of chondrocytes in primary culture. Methods Mol Med (2004) 100:1-14.
15. De Ceuninck F, Lesur C, Pastoureau P, Caliez A, Sabatini M: Culture of chondrocytes in alginate beads. Methods Mol Med (2004) 100:15-22.
16. Freyria AM, Becchi M: Changes of chondrocyte metabolism in vitro: An approach by proteomic analysis. Methods Mol Med (2004) 100:165-182.
17. Freyria AM, Ronzière MC, Marie-Boutillon M, Herbage D: Two-dimensional electrophoresis of intracellular and secreted protein synthesized by fetal bovine chondrocytes in high-density culture. Electrophoresis (1995) 16(7):1268-1272.
18. Ruiz-Romero C, Lopez-Armada MJ, Blanco FJ: Proteomic characterization of human normal articular chondrocytes: A novel tool for the study of osteoarthritis and other rheumatic diseases. Proteomics (2005) 5(12):3048-3059. • This study provided the first proteomic reference map for human normal articular chondrocytes, established by 2-DE and MALDI-TOF mass spectrometry, and is a prerequisite study for target identification in osteoarthritis chondrocytes.
19. Ruiz-Romero C, Lopez-Armada MJ, Blanco FJ: Mitochondrial proteomic characterization of human normal chondrocytes. Osteoarthr Cartil (2006) 14(6):507-518.
20. Catterall JB, Rowan AD, Sarsfield S, Saklatvala J, Wait R, Cawston TE: Development of a novel 2D proteomics approach for the identification of proteins secreted by primary chondrocytes after stimulation by IL-1 and oncostatin M. Rheumatol (2006) 45(9):1101-1109.
21. Kato T, Xiang Y, Nakamura H, Nishioka K: Neoantigens in osteoarthritic cartilage. Curr Opin Rheumatol (2004) 16(5):604-608.
22. Lorenz P, Ruschpler P, Koczan D, Stiehl P, Thiesen HJ: From transcriptome to proteome: Differentially expressed proteins identified in synovial tissue of patients suffering from rheumatoid arthritis and osteoarthritis by an initial screen with a panel of 791 antibodies. Proteomics (2003) 3(6):991-1002.
23. Tilleman K, Van Beneden K, Dhondt A, Hoffman I, De Keyser F, Veys E, Elewaut D, Deforce D: Chronically inflamed synovium from spondyloarthropathy and rheumatoid arthritis investigated by protein expression profiling followed by tandem mass spectrometry. Proteomics (2005) 5(8):2247-2257.
24. Dasuri K, Antonovici M, Chen K, Wong K, Standing K, Ens W, El-Gabalawy H, Wilkins JA: The synovial proteome: Analysis of fibroblast-like synoviocytes. Arthritis Res Ther (2004) 6(2):R161-R168.
25. Sinz A, Bantscheff M, Mikkat S, Ringel B, Drynda S, Kekow J, Thiesen HJ, Glocker MO: Mass spectrometric proteome analyses of synovial fluids and plasmas from patients suffering from rheumatoid arthritis and comparison to reactive arthritis or osteoarthritis. Electrophoresis (2002) 23(19):3445-3456.
26. Yamagiwa H, Sarkar G, Charlesworth C, McCormick DJ, Bolander ME: Two-dimensional gel electrophoresis of synovial fluid: Method for detecting candidate markers of osteoarthritis. J Orthop Sci (2003) 8(4):482-490.
27. Liao H, Wu J, Kuhn E, Chin W, Chang B, Jones MD, O'Neil S, Clauser KR, Karl J, Hasler F, Roubenoff R et al: Use of mass spectrometry to identify protein biomarkers of disease severity in the synovial fluid and serum of patients with rheumatoid arthritis. Arthritis Rheum (2004) 50(12):3792-3803.
28. Uchida T, Fukawa A, Uchida M, Fujita K, Saito K: Application of novel protein biochip technology for detection and identification of rheumatoid arthritis biomarkers in synovial fluid. J Proteome Res (2002) 1(6):495-499.
29. Seibert V, Wiesner A, Buschmann T, Meuer J: Surface-enhanced laser desorption time-of-flight mass spectrometry (SELDI TOF-MS) and ProteinChip technology in proteomics research. Pathol Res Pract (2004) 200(2):83-94.
30. Xiang Y, Sekine T, Nakamura H, Imajoh-Ohmi S, Fukuda H, Nishioka K, Kato T: Proteomic surveillance of autoimmunity in osteoarthritis. Identification of triosephosphate isomerase as an autoantigen in patients with osteoarthritis. Arthritis Rheum (2004) 50(5):1511-1521. • Based on the hypothesis that autoantigens may be implicated in the pathophysiology of osteoarthritis, this paper describes the developement of a simple but efficient method to confirm that autoantibodies against specific proteins existed in osteoarthritis patients.
31. Xiang Y, Sekine T, Nakamura H, Imajoh-Ohmi S, Fukuda H, Yudoh K, Masuko-Hongo K, Nishioka K, Kato T: Fibulin is a target of autoimmunity predominantly in patients with osteoarthritis. J Immunol (2006) 176(5):3196-3204.
32. de Seny D, Fillet M, Meuwis MA, Geurts P, Lutteri L, Ribbens C, Bours V, Wehenkel L, Piette J, Malaise M, Merville MP: Discovery of new rheumatoid arthritis biomarkers using the surface-enhanced laser desorption/ionization time-of-flight mass spectrometry ProteinChip approach. Arthritis Rheum (2005) 52(12):3801-3812.
33. Alban A, David SO, Bjorkesten L, Andersson C, Sloge E, Lewis S, Currie I: A novel experimental design for comparative two-dimensional gel analysis: Two-dimensional difference gel electrophoresis incorporating a pooled internal standard. Proteomics (2003) 3(1):36-44.
34. Shiio Y, Aebersold R: Quantitative proteome analysis using isotope-coded affinity tags and mass spectrometry. Nat Protocols (2006) 1(1):139-145. • This paper describes a step-by-step protocol for the isotope coded affinity tag analysis method. This method is suitable for the analysis of complex samples including those dedicated to target or biomarker discovery in osteoarthritis.
35. Ong SE, Blagoev B, Kratchmarova I, Kristensen DB, Steen H, Pandey A, Mann M: Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics. Mol Cell Proteomics (2002) 1(5):376-386. • This paper describes a strategy inspired by the isotope coded affinity tag analysis method, but dedicated to differential proteomics in cell culture systems. The strategy may be suitable for differential analyses between normal and osteoarthritis cultured chondrocytes.