Breakfast at Tiffany's? Only with a low-abundance proteomic signature!

Electrophoresis

Volumn 33, Issue 15, 2012, Pages 2228-2239

  Boschetti, Egisto ^a   Righetti, Pier Giorgio ^b  

^a EB Consult   (France)

^b Miles Gloriosus Academy   (Italy)

Author keywords

Combinatorial ligand libraries; Food chemistry; Low abundance proteins; Mass spectrometry; Proteomics

Indexed keywords

BEER; LIBRARIES; LIGANDS; MOLECULAR BIOLOGY; PROTEINS;

ANALYTICAL TECHNOLOGY; COMBINATORIAL LIGAND LIBRARY; COMPLEX DOMAINS; FOOD CHEMISTRY; FOOD SCIENCE; GENOMICS; LIGAND LIBRARY; LOW-ABUNDANCE PROTEINS; PROTEOMICS; TRANSCRIPTOMICS;

MASS SPECTROMETRY;

VINEGAR;

ADSORPTION; BEER; BEVERAGE; CARBONATED BEVERAGE; COMBINATORIAL LIBRARY; COMBINATORIAL PEPTIDE LIGAND LIBRARY; EXTRACTION; FOOD ALLERGY; FOOD COMPOSITION; LIQUID CHROMATOGRAPHY; MASS SPECTROMETRY; MILK; NUTRITIONAL SCIENCE; PRECIPITATION; PROTEIN ANALYSIS; PROTEOMICS; REVIEW; THERMODYNAMICS; TWO DIMENSIONAL ELECTROPHORESIS; WINE;

EID: 84864918501     PISSN: 01730835     EISSN: 15222683     Source Type: Journal    
DOI: 10.1002/elps.201200003     Document Type: Review

References (110)

1. Herrero, M., Simo, C., Garcia-Canas, V., Ibanez, H., Cifuentes, A., Mass Spectrom. Rev. 2012, 31, 49-69.
2. Rist, M. J., Wenzel, U., Daniel, H., Trends Biotechnol. 2006, 24, 1-7.
3. Aiello, D., De Luca, D., Gionfriddo, E., Naccarato, A., Napoli, A., Romano, E., Russo, A., Sindona, G., Tagarelli, A., Eur. J. Mass Spectrom. 2011, 17, 1-31.
4. Chen, L., Remondetto, G. E., Subirade, M., Trends Food Sci. Technol. 2006, 17, 272-283.
5. Bernal, J., Mendiola, J. A., Ibanez, E., Cifuentes, A., J. Pharm. Biomed. Anal. 2011, 55, 758-774.
6. Goodmann, R.E., Tetteh, A. O., Curr. Allergy Asthma Rep. 2011, 11, 317-324.
7. D'Alessandro, A., Zolla, L., J. Proteome Res. 2011 (in press), PMID: 21992480.
8. Rakwal, R., Agrawal, G. K., Electrophoresis 2003, 24, 3378-3389.
9. Carbonaro, M., Trends Food Sci. Technol. 2004, 15, 209-216.
10. Dureja, H., Kaushik, D., Kumar V., Indian J. Pharmacol. 2003, 35, 363-372.
11. El Sanhoty, R., El-Rahman, A. A., Bögl, K.W., Nahrung. 2004, 48, 13-18.
12. Simó, C., Domínguez-Vega, E., Marina, M.L., García, M.C., Dinelli, G., Cifuentes, A., Electrophoresis. 2010, 31, 1175-1183.
13. Natarajan, S.S., Xu, C., Bae, H., Caperna, T. J., Garrett, W.M., J. Agric. Food Chem. 2006, 54, 3114-3120.
14. Luo, J., Ning, T., Sun, Y., Zhu, J. Zhu, Y, Lin, Q, Yang, D., J. Proteome Res. 2009, 8, 829-837.
15. Emami, K., Morris, N.J., Cockell, S. J., Golebiowska, G. Shu, Q.Y., Gatehouse, A.M., J. Agric. Food Chem. 2010, 58, 6912-6922.
16. García-Canas, V., Simó, C., León, C., Ibáñez, E., Cifuentes, A., Mass Spectrom. Rev. 2011, 30, 396-416.
17. Garcia-Lopez, M. C., Garcia-Canas, V., Marina, M.L., J. Chromatogr. A 2009, 1216, 7222-7228.
18. Sazelova, P., Kasicka, V., Ibanez, E., Cifuentes, A., J. Sep. Sci. 2009, 32, 3801-3808.
19. Rose, J.K., Bashir, S., Giovannoni, J.J., Jahn, M.M., Saravanan, R.S., Plant J. 2004, 39, 715-733.
20. Gengenheimer, P., Meth. Enzymol. 1990, 182, 174-193.
21. Carpentier, S. C., Panis, B., Vertommen, A., Swennen, R., Sergeant, K., Renaut, J., Laukens, K., Witter, E., Samyn, B., Devreese, B., Mass Spectrom. Rev. 2008, 27, 354-377.
22. Pihlström, T., Isaac, G., Waldebäck, M., Osterdahl, B.G., Markides, K. E., Analyst 2002, 127, 554-559.
23. Van Renswoude, J., Kemps, C., Meth. Enzymol. 1984, 104, 329-339.
24. Radin, N.S., Methods Enzymol. 1981, 72, 5-7.
25. Wessel, D., Flugge, U.I., Anal. Biochem. 1984, 138, 141-143.
26. Menke, W., Koenig, F., Meth. Enzymol. 1980, 69, 446-452.
27. Méchin, V., Damerval, C., Zivy, M., Meth. Mol. Biol. 2007, 355, 1-8.
28. Faurobert, M., Pelpoir, E., Chaïb, J., Methods Mol. Biol. 2007, 355, 9-14.
29. Isaacson, T., Damasceno, C. M., Saravanan, R. S., He, Y., Catalá, C., Saladié, M., Rose, J.K., Nat. Protoc. 2006, 1, 769-774.
30. Cilia, M., Fish, T., Yang, X., McLaughlin, M., Thannhauser, T.W., Gray, S., J. Biomol. Tech. 2009, 20, 201-215.
31. Rey, M., Mrázek, H., Pompach, P., Novák, P., Pelosi, L., Brandolin, G., Forest, E., Havlíček, V., Man, P., Anal. Chem. 2010, 82, 5107-5116.
32. Castro-Puyana, M., García-Cañas, V., Simó, C., Cifuentes, A., Electrophoresis 2012, 33, 147-167.
33. Zolotarjova, N., Martosella, J., Nicol, G., Bailey, J., Boyes, B. E., Barrett, W.C., Proteomics. 2005, 5, 3304-3313.
34. Thulasiraman, V., Lin, S., Gheorghiu, L., Lathrop, J., Lomas, L., Hammond, D., Boschetti, E., Electrophoresis 2005, 26, 3561-3571.
35. Shen, Z., Want, E. J., Chen, W., Keating, W., Nussbaumer, W., Moore, R., Gentle, T.M., Siuzdak, G., J. Proteome Res. 2006, 5, 3154-3160.
36. Bhattacharya, D., Mukhopadhyay, D., Chakrabarti, A., Proteomics Clin. Appl. 2007, 1, 561-564.
37. Roux-Dalvai, F., Gonzalez de Peredo, A., Simó, C., Guerrier, L., Bouyssié, D., Zanella, A., Citterio, A., Burlet-Schiltz, O., Boschetti, E., Righetti, P.G., Monsarrat B., Mol. Cell. Proteomics 2008, 7, 2254-2269.
38. D'Ambrosio, C., Arena, S., Scaloni, A., Guerrier, L., Boschetti, E., Mendieta, M. E., Citterio, A., Righetti, P.G., J. Proteome Res. 2008, 7, 3461-3474.
39. D'Amato, A., Bachi, A., Fasoli, E., Boschetti, E., Peltre, G., Sénéchal, H., Righetti, P.G., J. Proteome Res. 2009, 8, 3925-3936.
40. Cellar, N.A., Kuppannan, K., Langhorst, M. L., Ni, W., Xu, P., Young, S. A., J. Chromatogr A. 2008, 861, 29-39.
41. Guerrier, L., Claverol, S., Fortis, F., Rinalducci, S., Timperio, A.M., Antonioli, P., Jandrot-Perrus, M., Boschetti, E., Righetti, P.G., J Proteome Res. 2007, 6, 4290-4303.
42. Khalf, M., Goulet, C., Vorster, J., Brunelle, F., Anguenot, R., Fliss, I., Michaud, D., Plant Biotechnol. J. 2010, 8, 155-169.
43. Li, G., Nallamilli, B.R., Tan, F., Peng, Z., Electrophoresis 2008, 29, 604-617.
44. Echan, L.A., Tang, H.Y., Ali-Khan, N., Lee, K., Speicher, D.W., Proteomics 2005, 5, 3292-3303.
45. Shi, T., Zhou, J.Y., Gritsenko, M. A., Hossain, M., Camp, D.G., Smith, R.D., Qian, W.J., Methods 2012, 56, 246-253. PMID: 21925605.
46. Polaskova, V., Kapur, A., Khan, A., Molloy, M. P., Baker, M.S., Electrophoresis 2010, 31, 471-482.
47. Stempfer, R., Kubicek, M., Lang, I.M., Christa, N., Gerner, C., Electrophoresis 2008, 29, 4316-4323.
48. Shen, Y., Kim, J., Strittmatter, E.F., Jacobs, J. M., Camp, D.G., Fang, R., Tolié, N., Moore, R.J., Smith, R.D., Proteomics 2005, 5, 4034-4045.
49. Yadav, A. K., Bhardwaj, G., Basak, T., Kumar, D., Ahmad, S., Priyadarshini, R., Singh, A.K., Dash, D., Sengupta, S., PLoS ONE 2011, 6, e24442.
50. Boschetti, E., Righetti, P. G., Proteomics 2009, 9, 1492-1510.
51. Sennels, L., Salek, M., Lomas, L., Boschetti, E., Righetti, P. G., Rappsilber, J., J Proteome Res. 2007, 6, 4055-4062.
52. Malaud, E., Piquer, D., Merle, D., Molina, L., Guerrier, L., Boschetti, E., Saussine, M., Marty-Ané, C., Albat, B., Fareh, J., Electrophoresis 2012, 33, 470-482.
53. Righetti, P. G., Boschetti, E., Kravchuk, A., Fasoli, E., Exp. Rev. Proteomics 2010, 7, 373-385.
54. Mouton-Barbosa, E., Roux-Dalvai, F., Bouyssié, D., Berger, F., Schmidt, E., Righetti, P.G., Guerrier, L., Boschetti, E., Burlet-Schiltz, O., Monsarrat, B., Gonzalez de Peredo, A., Mol. Cell. Proteomics 2010, 9, 1006-1021.
55. Fonslow, B.R., Carvalho, P.C., Academia, K., Freeby, S., Xu, T., Nakorchevsky, A., Paulus, A., Yates, J. R., J. Proteome Res. 2011, 10, 3690-3700.
56. Li, L., Sun, C.J., Freeby, S., Yee, D., Kieffer-Jaquinod, S., Guerrier, L., Boschetti, E., Lomas, L., J. Prot. Bioinform. 2009, 2, 485-494.
57. Grønborg, M., Kristiansen, T.Z., Stensballe, A., Andersen, J.S., Mol. Cell. Proteomics 2002, 1, 517-527.
58. Larsen, M.R., Thingholm, T.E., Jensen, O.N., Roepstorff, P., Jorgensen, T.J., Mol. Cell. Proteomics 2005, 4, 873-886.
59. Dayarathna, M.K., Hancock, W. S., Hincapie, M., J. Sep. Sci. 2008, 31, 1156-1166.
60. Ahn, J.Y., Lee, S.W., Kang, H. S., Jo, M., Lee, D.K., Laurell, T., Kim, S., J. Proteome Res. 2010, 9, 5568-5573.
61. You, S.-J., Udenigwe, C. C., Aluko, R.E., Wu, J., Food Res. Int. 2010, 43, 848-855.
62. Wiesner, J., Vilcinskas, A., Virulence 2010, 1, 440-464.
63. Ibrahim, H.R., Imazato, K., Ono, H., J. Agric. Food Chem. 2011, 59, 10336-10345.
64. Zimecki, M., Kruzel, M.L., J. Exp. Ther. Oncol. 2007, 6, 89-106.
65. Jo, H.-Y., Jung, W.-K., Kim, S.-K., Process Biochem. 2008, 43, 179-184.
66. Lee, S. H., Qian, Z.-J., Kim, S. K. A., Food Chem. 2010, 118, 96-102.
67. Ningappa, M.B., Srinivas, L., Toxicol. in Vitro 2008, 22, 699-709.
68. Astwood, J.D., Leach, J. N., Fuchs, R.L., Nat. Biotechnol. 1996, 14, 1269-1273.
69. Waserman, S., Watson, W., Allergy, Asthma & Clinical Immunol. 2011, 7, S7.
70. D'Amato, A., Bachi, A., Fasoli, E., Boschetti, E., Peltre, G., Sénéchal, H., Citterio, A., Righetti, P.G., J. Proteomics 2010, 73, 1368-1380.
71. Shahali, Y., Sutra, J. P., Fasoli, E., D'Amato, A., Righetti, P.G., Poncet, P., Boschetti, E., Sénéchal, H., J. Proteomics 2012, in press.
72. Agrawal, G. K., Rakwal, R., Proteomics 2011, 11, 1630-1649.
73. Crofts, A. J., Crofts, N., Whitelegge, J.P., Okita, T.W., Planta 2010, 231, 1261-1276.
74. Xu, Y., Wang, B. C., Zhu, Y.X., Biochem. Biophys. Res. Commun. 2007, 358, 808-812.
75. Hajduch, M., Hearne, L.B., Miernyk, J. A., Casteel, J. E., Joshi, T., Agrawal, G.K., Song, Z., Zhou, M., Xu, D., Thelen, J.J., Plant Physiol. 2010, 152, 2078-2087.
76. Arena, S., Renzone, G., Novi, G., Paffetti, A., Bernardini, G., Santucci, A., Scaloni A., Proteomics 2010, 10, 3414-3434.
77. Karamanova, L., Fukal, L., Kodicek, M., Rauch, P., Mills, E., Morgan M., Food Agric. Immunol. 2003, 15, 77-91.
78. D'Alessandro, A., Zolla, L., Scaloni, A., Mol. Biosyst. 2011, 7, 579-597.
79. Cunsolo, V., Muccilli, V., Fasoli, E., Saletti, R., Righetti, P. G., Foti, S. J. Proteomics 2011, 74, 2083-2099.
80. Liao, Y., Alvarado, R., Phinney, B., Lönnerdal, B., J. Proteome Res. 2011, 10, 1746-1754.
81. Farinazzo, A., Restuccia, U., Bachi, A., Guerrier, L., Fortis, F., Boschetti, E., Fasoli, E., Citterio, A., Righetti, P. G., J. Chromatogr A. 2009, 1216, 1241-1252.
82. Fasoli, E., D'Amato, A., Kravchuk, A.V., Boschetti, E., Bachi, A., Righetti, P. G., J. Proteomics 2011, 74, 127-136.
83. Mann, K., Mann, M. Proteome Sci. 2011, 9, 7.
84. Kašička V., Electrophoresis 1999, 20, 3084-3105.
85. Kašička V., Electrophoresis 2001, 22, 4139-4162.
86. Kašička V., Electrophoresis 2003, 24, 4013-4046.
87. Kašička V., Electrophoresis 2006, 27, 142-175.
88. Kašička V., Electrophoresis 2008, 29, 179-206.
89. Kašička V., Electrophoresis 2010, 31, 122-146.
90. Kašička V., Electrophoresis 2012, 33, 48-73.
91. Cereda, A., Kravchuk, A. V., D'Amato, A., Bachi, A., Righetti, P. G., J. Proteomics 2010, 73, 1732-1739.
92. D'Amato, A., Kravchuk, A.V., Bachi, A., Righetti, P.G., J. Proteomics 2010, 73, 2370-2377.
93. D'Amato, A., Fasoli, E., Kravchuk, A.V., Righetti P.G., J. Proteome Res. 2011, 10, 3789-3801.
94. Fasoli, E., Aldini, G., Regazzoni, L., Kravchuk, A.V., Citterio, A., Righetti, P.G., J. Proteome Res. 2010, 9, 5262-5269.
95. Weber, P., Steinhart, H., Paschke, A., J. Agric. Food Chem. 2009, 57, 8399-8405.
96. Monaci, L., Losito, I., Palmisano, F., Visconti, A., J. Chromatogr. A 2010, 1217, 4300-4305.
97. Monaci, L., Losito, I., Palmisano, F., Godula, M., Visconti, A., Food Additives Contaminants Part A, 28(10), 1304-1314.
98. Palmisano, G., Antonacci, D., Larsen, M. R., J. Proteome Res. 2010, 9, 6148-6159.
99. Wigand, P., Tenzer, S., Schild, H., Decker, H., J. Agric. Food Chem. 2009, 57, 4328-4333.
100. Cilindre, C., Jégou, S., Hovasse, A., Schaeffer, C., Castro, A. J., Clément, C., Van Dorsselaer, A., Jeandet, P., Marchal, R., J. Proteome Res. 2008, 7, 1199-1208.
101. Kwon, S. W., J. Agric. Food Chem. 2004, 52, 7258-7263.
102. Tolin, S., Pasini, G., Curioni, A., Arrigoni, G., Masi, A., Mainente, F., Simonato, B., Food Control 2012, 23, 87-94.
103. Giribaldi, M., Giuffrida, M. G., J. Proteomics 2010, 73, 1647-1655.
104. Ferreira, R. B., Picarra-Pereira, M. A., Sara Monteiro, S., Loureiro, V.B., Teixeira, A.R., Trends Food Sci. Technol. 2002, 12, 230-239.
105. Moreno-Arribas, M. V., Pueyo, E., Polo, M. C., Anal. Chim. Acta 2002, 458, 63-75.
106. Fasoli, E., D'Amato, A., Kravchuk, A. V., Citterio, A., Righetti, P. G., J. Proteomics 2011, 74, 1080-1090.
107. D'Amato, A., Fasoli, E., Righetti, P.G., J. Proteomics 2012, 75, 914-920.
108. D'Amato, A., Fasoli, E., Kravchuk, A. V., Righetti, P. G., J. Proteome Res. 2011, 10, 2684-2686.
109. Di Girolamo, F., D'Amato, A., Righetti, P.G., J. Proteomics 2011, 75, 718-724.
110. Fasoli, E., D'Amato, A., Citterio, A., Righetti, P.G. J. Proteomics 2012, 75, 1960-1965.