Large-scale identification of Caenorhabditis elegans proteins by mutidimensional liquid chromatography - Tandem mass spectrometry

Journal of Proteome Research

Volumn 2, Issue 1, 2003, Pages 23-35

  Mawuenyega, Kwasi G ^a   Kaji, Hiroyuki ^a   Yamauchi, Yoshio ^b   Shinkawa, Takashi ^a   Saito, Haruna ^a   Taoka, Masato ^a   Takahashi, Nobuhiro ^b,c   Isobe, Toshiaki ^a,b  

^a TOKYO METROPOLITAN UNIVERSITY   (Japan)

^b Ministry of Education Culture Sports Science and Technology   (Japan)

^c TOKYO UNIVERSITY OF AGRICULTURE AND TECHNOLOGY   (Japan)

Author keywords

C. elegans; Liquid chromatography; Peptide signature; Tandem mass spectrometry

Indexed keywords

GENE PRODUCT; MEMBRANE PROTEIN; PEPTIDE; PROTEIN; PROTEOME; TRYPSIN;

ACETYLATION; AMINO ACID SEQUENCE; AMINO TERMINAL SEQUENCE; ANALYTIC METHOD; ARTICLE; AUTOMATION; CAENORHABDITIS ELEGANS; CHEMICAL MODEL; CODON; DATA ANALYSIS; DNA FINGERPRINTING; FRACTIONATION; GEL ELECTROPHORESIS; GENOME; GROWTH CURVE; HYPOTHESIS; LIQUID CHROMATOGRAPHY; MASS SPECTROMETRY; NONHUMAN; PHOSPHORYLATION; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN EXPRESSION; PROTEIN MODIFICATION; PROTEIN SECRETION; PROTEIN TARGETING; RNA TRANSLATION; SOLUBILITY; SPECTROSCOPY; TANDEM MASS SPECTROMETRY; UNINDEXED SEQUENCE; WORM;

ANIMALS; CAENORHABDITIS ELEGANS; CHROMATOGRAPHY, LIQUID; CODON; ISOELECTRIC POINT; PEPTIDES; PHOSPHORYLATION; PROTEIN PROCESSING, POST-TRANSLATIONAL; PROTEIN STRUCTURE, TERTIARY; PROTEINS; PROTEOME; SPECTROMETRY, MASS, ELECTROSPRAY IONIZATION; TRYPSIN;

CAENORHABDITIS; CAENORHABDITIS ELEGANS;

EID: 0037274597     PISSN: 15353893     EISSN: None     Source Type: Journal    
DOI: 10.1021/pr025551y     Document Type: Article

References (31)

1. Takahashi, N.; Ishioka, N.; Takahashi, Y.; Putnam, F. W. J. Chromatogr. 1985, 326, 407-18.
2. Takahashi, N.; Isobe, T.; Putnam, F. W. In HPLC of Proteins, Peptides, and Polynucleotides; Hearn, M. T. W., Ed.; Verlag Chemie International: New York, 1991; pp 307-330.
3. Isobe, T.; Uchida, K.; Taoka, M.; Shinkai, F.; Manabe, T.; Okuyama, T. J. Chromatogr. 1991, 588, 115-23.
4. Takahashi, N.; Ortel, T. L.; Putnam, F. W. Proc. Natl. Acad. Sci. U.S.A. 1984, 81, 390-4.
5. Takahashi, N.; Takahashi, Y.; Isobe, T.; Putnam, F. W.; Fujita, M.; Satoh, C.; Neel, J. V. Proc. Natl. Acad. Sci. U.S.A. 1987, 84, 8001-5.
6. Takahashi, N.; Takahashi, Y.; Blumberg, B. S.; Putnam, F. W. Proc. Natl. Acad. Sci. U.S.A. 1987, 84, 4413-7.
7. Isobe, T.; Takahashi, N.; Putnam, F. W. In HPLC of Peptides and Proteins; Separation, Analysis and Conformation; Hodges, R. S., et al., Eds.; CRC Press: New York, 1991; pp 835-845.
8. Taoka, M.; Yamakuni, T.; Song, S. Y.; Yamakawa, Y.; Seta, K.; Okuyama, T.; Isobe, T. Eur. J. Biochem. 1992, 207, 615-20.
9. Taoka, M.; Isobe, T.; Okuyama, T.; Watanabe, M.; Kondo, H.; Yamakawa, Y.; Ozawa, F.; Hishinuma, F.; Kubota, M.; Minegishi, A.; Son, S. Y.; Yamakuni, T. J. Biol. Chem. 1994, 269, 9946-51.
10. Isobe, T.; Yamauchi, Y.; Taoka, M.; Takahashi, N. In Protein Analysis; Laboratory Manual; Simpson, R., Ed.; Cold Spring Harbor Laboratory Press: Cold Spring Harbor, NY, 2002, in press.
11. Link, A. J.; Eng, J.; Schieltz, D. M.; Carmack, E.; Mize, G. J.; Morris, D. R.; Garvik, B. M.; Yates, J. R., III. Nat. Biotechnol. 1999, 17, 676-82.
12. Washburn, M. P.; Wolters, D.; Yates, J. R., III Nat. Biotechnol. 2001, 19, 242-7.
13. Kaji, H.; Isobe, T. J. Chromatogr. B. 2002, in press.
14. Lewis, J.; Fleming, J. In Caenorhabditis elegans: Modern Biological Analysis of an Organism; Epstein, H. F., Shakes, D., Eds.; Academic Press: San Diego, 1995; Vol. 48, pp 3-29.
15. Perkins, D. N.; Pappin, D. J.; Creasy, D. M.; Cottrell, J. S. Electrophoresis 1999, 20, 3551-67.
16. Costanzo, M. C.; Hogan, J. D.; Cusick, M. E.; Davis, B. P.; Fancher, A. M.; Hodges, P. E.; Kondu, P.; Lengieza, C.; Lew-Smith, J. E.; Lingner, C.; Roberg-Perez, K. J.; Tillberg, M.; Brooks, J. E.; Garrels, J. I. Nucleic Acids Res. 2000, 28, 73-6.
17. WormPD: http://www.Incyte.com/sequence/proteome/databases/WormPD.shtml.
18. Hirokawa, T.; Boon-Chieng, S.; Mitaku, S. Bioinformatics 1998, 14, 378-9.
19. Mitaku, S.; Ono, M.; Hirokawa, T.; Boon-Chieng, S.; Sonoyama, M. Biophys. Chem. 1999, 82, 165-71.
20. SOSUI: http://sosui.proteome.bio.tuat.ac.jp/sosuiframe0.html.
21. Bini, L.; Heid, H.; Liberatori, S.; Geier, G.; Pallini, V.; Zwilling, R. Electrophoresis 1997, 18, 557-62.
22. Kaji, H.; Tsuji, T.; Mawuenyega, K. G.; Wakamiya, A.; Taoka, M.; Isobe, T. Electrophoresis 2000, 21, 1755-65.
23. Schrimpf, S. P.; Langen, H.; Gomes, A. V.; Wahlestedt, C. Electrophoresis 2001, 22, 1224-32.
24. Kurland, C. G. FEBS Lett. 1991, 285, 165-9.
25. Pan, A.; Dutta, C.; Das, J. Gene 1998, 215, 405-13.
26. Duret, L.; Mouchiroud, D. Proc. Natl. Acad. Sci. U.S.A. 1999, 96, 4482-7.
27. Sharp, P. M.; Li, W. H. Nucleic Acids Res. 1987, 15, 1281-95.
28. The Wellcome Trust Sanger Institute: http://www.sanger.ac.uk/Projects/C_elegans/_wormpep/.
29. Natsume, T.; Yamauchi, Y.; Nakayama, H.; Shinkawa, T.; Yanagida, M.; Takahashi, N.; Isobe, T. Anal. Chem. 2002, 74, 4725-33.
30. Borisov, O. V.; Goshe, M. B.; Conrads, T. P.; Rakov, V. S.; Veenstra, T. D.; Smith, R. D. Anal. Chem. 2002, 74, 2284-92.
31. Han, D. K.; Eng, J.; Zhou, H.; Aebersold, R. Nat. Biotechnol. 2001, 19, 946-51.