GlycoFly: A database of Drosophila N-linked Glycoproteins identified using SPEG-MS techniques

Journal of Proteome Research

Volumn 10, Issue 6, 2011, Pages 2777-2784

  Baycin Hizal, Deniz ^a   Tian, Yuan ^b   Akan, Ilhan ^c   Jacobson, Elena ^a   Clark, Dean ^a   Chu, Jeffrey ^a   Palter, Karen ^c   Zhang, Hui ^b   Betenbaugh, Michael J ^a  

^a Johns Hopkins University   (United States)

^b JOHNS HOPKINS UNIVERSITY SCHOOL OF MEDICINE   (United States)

^c Temple University   (United States)

Author keywords

central nervous system; Drosophila melanogaster; GlycoFly; Glycoproteins; glycoproteomics; glycosylation site; solid phase extraction of N linked glycopeptides (SPEG) method

Indexed keywords

CHYMOTRYPSIN; DROSOPHILA PROTEIN; GLYCOPROTEIN; ION CHANNEL; TRYPSIN;

ANIMAL TISSUE; ARTICLE; CELL ADHESION; CHEMICAL BINDING; LEARNING; MASS SPECTROMETRY; MATURATION; MEMORY; NERVOUS SYSTEM DEVELOPMENT; NONHUMAN; ORGANOGENESIS; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN DATABASE; PROTEIN GLYCOSYLATION; SOLID PHASE EXTRACTION;

ANIMALS; DATABASES, PROTEIN; DROSOPHILA MELANOGASTER; DROSOPHILA PROTEINS; GLYCOPROTEINS; ONLINE SYSTEMS; PEPTIDE FRAGMENTS; PROTEOMICS; SOLID PHASE EXTRACTION; TANDEM MASS SPECTROMETRY;

DROSOPHILA MELANOGASTER;

EID: 79958187903     PISSN: 15353893     EISSN: 15353907     Source Type: Journal    
DOI: 10.1021/pr200004t     Document Type: Article

References (34)

1. Varki, A. Biological roles of oligosaccharides: all of the theories are correct Glycobiology 1993, 3 (2) 97-130 (Pubitemid 23132602)
2. Jones, J.; Krag, S. S.; Betenbaugh, M. J. Controlling N-linked glycan site occupancy Biochim. Biophys. Acta 2005, 1726 (2) 121-37 (Pubitemid 41572252)
3. Varki, A.; Sharon, N. Historical Background and Overview. Essentials of Glycobiology, 2 nd ed.; Varki, A.; Cummings, R. D.; Esko, J. D.; Freeze, H. H.; Stanley, P.; Bertozzi, C. R.; Hart, G. W.; Etzler, M. E., Eds; CSH Press: New York, 2008.
4. Vandenborre, G.; Van Damme, E. J.; Ghesquiere, B.; Menschaert, G.; Hamshou, M.; Rao, R. N.; Gevaert, K.; Smagghe, G. Glycosylation signatures in Drosophila: fishing with lectins J. Proteome Res. 2010, 9 (6) 3235-42
5. Ohtsubo, K.; Marth, J. D. Glycosylation in cellular mechanisms of health and disease Cell 2006, 126 (5) 855-67 (Pubitemid 44310784)
6. Martin, P. T. Glycobiology of the neuromuscular junction J. Neurocytol. 2003, 32 (5-8) 915-29 (Pubitemid 39011269)
7. Miossec-Chauvet, E.; Mikaeloff, Y.; Heron, D.; Merzoug, V.; Cormier-Daire, V.; de Lonlay, P.; Matthijs, G.; Van Hulle, C.; Ponsot, G.; Seta, N. Neurological presentation in pediatric patients with congenital disorders of glycosylation type Ia Neuropediatrics 2003, 34 (1) 1-6 (Pubitemid 36457219)
8. Martin-Rendon, E.; Blake, D. J. Protein glycosylation in disease: new insights into the congenital muscular dystrophies Trends Pharmacol. Sci. 2003, 24 (4) 178-83 (Pubitemid 36428819)
9. Haecker, A.; Bergman, M.; Neupert, C.; Moussian, B.; Luschnig, S.; Aebi, M.; Mannervik, M. Wollknauel is required for embryo patterning and encodes the Drosophila ALG5 UDP-glucose:dolichyl-phosphate glucosyltransferase Development 2008, 135 (10) 1745-9
10. Tomiya, N.; Narang, S.; Lee, Y. C.; Betenbaugh, M. J. Comparing N-glycan processing in mammalian cell lines to native and engineered lepidopteran insect cell lines Glycoconj. J. 2004, 21 (6) 343-60 (Pubitemid 39434562)
11. Kim, K.; Lawrence, S. M.; Park, J.; Pitts, L.; Vann, W. F.; Betenbaugh, M. J.; Palter, K. B. Expression of a functional Drosophila melanogaster N-acetylneuraminic acid (Neu5Ac) phosphate synthase gene: evidence for endogenous sialic acid biosynthetic ability in insects Glycobiology 2002, 12 (2) 73-83 (Pubitemid 34428930)
12. Koles, K.; Lim, J. M.; Aoki, K.; Porterfield, M.; Tiemeyer, M.; Wells, L.; Panin, V. Identification of N-glycosylated proteins from the central nervous system of Drosophila melanogaster Glycobiology 2007, 17 (12) 1388-403 (Pubitemid 350131315)
13. ten Hagen, K. G.; Zhang, L.; Tian, E.; Zhang, Y. Glycobiology on the fly: developmental and mechanistic insights from Drosophila Glycobiology 2009, 19 (2) 102-11
14. Aoki, K.; Perlman, M.; Lim, J. M.; Cantu, R.; Wells, L.; Tiemeyer, M. Dynamic developmental elaboration of N-linked glycan complexity in the Drosophila melanogaster embryo J. Biol. Chem. 2007, 282 (12) 9127-42 (Pubitemid 47093502)
15. Li, X. J.; Yi, E. C.; Kemp, C. J.; Zhang, H.; Aebersold, R. A software suite for the generation and comparison of peptide arrays from sets of data collected by liquid chromatography-mass spectrometry Mol. Cell. Proteomics 2005, 4 (9) 1328-40 (Pubitemid 41448720)
16. Tian, Y.; Zhou, Y.; Elliott, S.; Aebersold, R.; Zhang, H. Solid-phase extraction of N-linked glycopeptides Nat. Protoc. 2007, 2 (2) 334-9 (Pubitemid 47040048)
17. Zhang, H.; Li, X. J.; Martin, D. B.; Aebersold, R. Identification and quantification of N-linked glycoproteins using hydrazide chemistry, stable isotope labeling and mass spectrometry Nat. Biotechnol. 2003, 21 (6) 660-6 (Pubitemid 36638093)
18. Zhou, Y.; Aebersold, R.; Zhang, H. Isolation of N-linked glycopeptides from plasma Anal. Chem. 2007, 79 (15) 5826-37 (Pubitemid 47229834)
19. Zhang, H.; Loriaux, P.; Eng, J.; Campbell, D.; Keller, A.; Moss, P.; Bonneau, R.; Zhang, N.; Zhou, Y.; Wollscheid, B.; Cooke, K.; Yi, E. C.; Lee, H.; Peskind, E. R.; Zhang, J.; Smith, R. D.; Aebersold, R. UniPep - a database for human N-linked glycosites: a resource for biomarker discovery Genome Biol. 2006, 7 (8) R73
20. Emery, P. Protein extraction from Drosophila heads Methods Mol. Biol. 2007, 362, 375-7 (Pubitemid 350183181)
21. Tomiya, N.; Howe, D.; Aumiller, J. J.; Pathak, M.; Park, J.; Palter, K. B.; Jarvis, D. L.; Betenbaugh, M. J.; Lee, Y. C. Complex-type biantennary N-glycans of recombinant human transferrin from Trichoplusia ni insect cells expressing mammalian [beta]-1,4-galactosyltransferase and [beta]-1,2-N- acetylglucosaminyltransferase II Glycobiology 2003, 13 (1) 23-34 (Pubitemid 36372512)
22. GlycoFly: A Database for Drosophila Glycoproteins. http://betenbaugh.jhu. edu/GlycoFly.
23. FlyBase: A Database of Drosophila Genes & Genomes. http://flybase.org/.
24. MySQL. http://www.mysql.com/.
25. Yurist-Doutsch, S.; Chaban, B.; VanDyke, D. J.; Jarrell, K. F.; Eichler, J. Sweet to the extreme: protein glycosylation in Archaea Mol. Microbiol. 2008, 68 (5) 1079-84 (Pubitemid 351670196)
26. Zielinska, D. F.; Gnad, F.; Wisniewski, J. R.; Mann, M. Precision mapping of an in vivo N-glycoproteome reveals rigid topological and sequence constraints Cell 2010, 141 (5) 897-907
27. Stevens, A.; Jacobs, J. R. Integrins regulate responsiveness to slit repellent signals J. Neurosci. 2002, 22 (11) 4448-55 (Pubitemid 37465661)
28. Yamamoto, A.; Zwarts, L.; Callaerts, P.; Norga, K.; Mackay, T. F.; Anholt, R. R. Neurogenetic networks for startle-induced locomotion in Drosophila melanogaster Proc. Natl. Acad. Sci. U.S.A. 2008, 105 (34) 12393-8
29. de la Pompa, J. L.; Garcia, J. R.; Ferrus, A. Genetic analysis of muscle development in Drosophila melanogaster Dev. Biol. 1989, 131 (2) 439-54 (Pubitemid 19054780)
30. Yager, J.; Richards, S.; Hekmat-Scafe, D. S.; Hurd, D. D.; Sundaresan, V.; Caprette, D. R.; Saxton, W. M.; Carlson, J. R.; Stern, M. Control of Drosophila perineurial glial growth by interacting neurotransmitter-mediated signaling pathways Proc. Natl. Acad. Sci. U.S.A. 2001, 98 (18) 10445-50 (Pubitemid 32803039)
31. Huang, Y.; Stern, M. In vivo properties of the Drosophila inebriated-encoded neurotransmitter transporter J. Neurosci. 2002, 22 (5) 1698-708 (Pubitemid 35386288)
32. Banerjee, S.; Pillai, A. M.; Paik, R.; Li, J.; Bhat, M. A. Axonal ensheathment and septate junction formation in the peripheral nervous system of Drosophila J. Neurosci. 2006, 26 (12) 3319-29
33. Waddell, S.; Quinn, W. G. Flies, genes, and learning Annu. Rev. Neurosci. 2001, 24, 1283-309 (Pubitemid 32695260)
34. Grotewiel, M. S.; Beck, C. D.; Wu, K. H.; Zhu, X. R.; Davis, R. L. Integrin-mediated short-term memory in Drosophila Nature 1998, 391 (6666) 455-60 (Pubitemid 28086538)