A systematic proteomic study of seed filling in soybean. Establishment of high-resolution two-dimensional reference maps, expression profiles, and an interactive proteome database

Plant Physiology

Volumn 137, Issue 4, 2005, Pages 1397-1419

  Hajduch, Martin ^a   Ganapathy, Ashwin ^b   Stein, Joel W ^b   Thelen, Jay J ^a  

^a University of Missouri   (United States)

^b Department of Electrical Engineering and Computer Science   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIOSYNTHESIS; DATABASE SYSTEMS; ELECTROPHORESIS; FOOD PRODUCTS; IONIZATION; MASS SPECTROMETRY; SEED;

SEED FILLING; TWO-DIMENSIONAL GEL ELECTROPHORESIS;

PROTEINS;

BIOSYNTHESIS; DATA BASES; ELECTROPHORESIS; IONIZATION; MASS SPECTRA; PROTEINS; SEEDS; SOY BEANS;

GLYCINE MAX;

PROTEOME; VEGETABLE PROTEIN;

ARTICLE; GENETICS; ISOELECTRIC FOCUSING; ISOLATION AND PURIFICATION; MASS SPECTROMETRY; METABOLISM; PEPTIDE MAPPING; PLANT SEED; PROTEIN DATABASE; PROTEIN MICROARRAY; PROTEOMICS; SOYBEAN; TWO DIMENSIONAL GEL ELECTROPHORESIS;

DATABASES, PROTEIN; ELECTROPHORESIS, GEL, TWO-DIMENSIONAL; ISOELECTRIC FOCUSING; PEPTIDE MAPPING; PLANT PROTEINS; PROTEIN ARRAY ANALYSIS; PROTEOME; PROTEOMICS; SEEDS; SOYBEANS; SPECTROMETRY, MASS, MATRIX-ASSISTED LASER DESORPTION-IONIZATION;

EID: 20444449370     PISSN: 00320889     EISSN: None     Source Type: Journal    
DOI: 10.1104/pp.104.056614     Document Type: Conference Paper

References (64)

1. Ahn BM, Kim YK, Kim SY, Kim MW, Oh SE (2003) Suppression of lipoxygenase by hydrogen peroxide in soybean (Glycine max L cv PALDAL) suspension cells. Korean J Genet 25: 251-259
2. Bate NJ, Niu XP, Wang YW, Reimann KS, Helentjaris TG (2004) An invertase inhibitor from maize localizes to the embryo surrounding region during early kernel development. Plant Physiol 134: 246-254
3. Beachy RN, Jarvis NP, Barton KA (1981) Biosynthesis of subunits of the soybean 7S storage protein. J Mol Appl Genet 1: 19-27
4. Bevan M, Bancroft I, Bent E, Love K, Goodman H, Dean C, Bergkamp R, Dirkse W, Van Staveren M, Stiekema W, et al (1998) Analysis of 1.9 Mb of contiguous sequence from chromosome 4 of Arabidopsis thaliana. Nature 391: 485-488
5. Borisjuk L, Rolletschek H, Radchuk R, Weschke W, Wobus U, Weber H (2004) Seed development and differentiation: a role for metabolic regulation. Plant Biol 6: 375-386
6. Bradford M (1976) A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Chem 72: 248-254
7. Bunker TW, Koetje DS, Stephenson LC, Creelman RA, Mullet JE, Grimes HD (1995) Sink limitation induces the expression of multiple soybean vegetative lipoxygenase mRNAs while the endogenous jasmonic acid level remains low. Plant Cell 7: 1319-1331
8. Burks AW, Cockrell G, Connaughton C, Helm RM (1994) Epitope specificity and immunoaffinity purification of the major peanut allergen, Ara h I. J Allergy Clin Immunol 93: 743-750
9. Comparot S, Lingiah G, Martin T (2003) Function and specificity of 14-3-3 proteins in the regulation of carbohydrate and nitrogen metabolism. J Exp Bot 54: 595-604
10. Di Venere A, Salucci ML, van Zadelhoff G, Veldink G, Mei G, Rosato N, Finazzi-Agro A, Maccarrone M (2003) Structure-to-function relationship of mini-lipoxygenase, a 60-kDa fragment of soybean lipoxygenase-1 with lower stability but higher enzymatic activity. J Biol Chem 278: 18281-18288
11. Dubbs WE, Grimes HD (2000) Specific lipoxygenase isoforms accumulate in distinct regions of soybean pod walls and mark a unique cell layer. Plant Physiol 123: 1269-1279
12. Eastmond PJ, Rawsthorne S (2000) Coordinate changes in carbon partitioning and plastidial metabolism during the development of oilseed rape embryo. Plant Physiol 122: 767-774
13. Farmer EE, Ryan CA (1992) Octadecanoid precursors of jasmonic acid activate the synthesis of wound-inducible proteinase inhibitors. Plant Cell 4: 129-134
14. Gallardo K, Job C, Groot SP, Puype M, Demol H, Vandekerckhove J, Job D (2002) Proteomics of Arabidopsis seed germination. A comparative study of wild-type and gibberellin-deficient seeds. Plant Physiol 129: 823-837
15. Gallardo K, Le Signor C, Vandekerckhove J, Thompson RD, Burstin J (2003) Proteomics of Medicago truncatula seed development established the time frame of diverse metabolic processes related to reserve accumulation. Plant Physiol 133: 664-682
16. Gifford RM, Evans RT (1981) Photosynthesis, carbon partitioning, and yield. Annu Rev Plant Physiol 32: 485-509
17. Girke T, Todd J, Ruuska S, White J, Benning C, Ohlrogge J (2000) Microarray analysis of developing Arabidopsis seeds. Plant Physiol 124: 1570-1581
18. Grimes HD, Overvoorde PJ, Ripp K, Franceschi VR, Hitz WD (1992) A 62-kD sucrose binding protein is expressed and localized in tissues actively engaged in sucrose transport. Plant Cell 4: 1561-1574
19. Goldberg RB, Hoschek RB, Ditta G, Breidenbach RW (1981) Developmental regulation of cloned superabundant embryo mRNAs in soybean. Dev Biol 83: 218-231
20. Gunstone FD (2001) Soybeans pace boost in oilseed production. Inform 11: 1287-1289
21. Harada JJ, Barker SJ, Goldberg RB (1989) Soybean beta-conglycinin genes are clustered in several DNA regions and are regulated by transcriptional and posttranscriptional processes. Plant Cell 1: 415-425
22. Heim U, Weber H, Baumlein H, Wobus U (1993) A sucrose synthase gene of Vicia faba L.: expression pattern in developing seeds in relation to starch synthesis and metabolic regulation. Planta 191: 394-401
23. Herman EM, Larkins BA (1999) Protein storage bodies and vacuoles. Plant Cell 11: 601-613
24. Herman EM, Helm RM, Jung R, Kinney AJ (2003) Genetic modification removes an immunodominant allergen from soybean. Plant Physiol 132: 36-43
25. Hill JE, Breidenbach RW (1974) Proteins of soybean seeds. II. Accumulation of the major protein components during seed development and maturation. Plant Physiol 53: 747-751
26. Hurkman WJ, Tanaka CK (1986) Solubilization of plant membrane proteins for analysis by two-dimensional gel electrophoresis. Plant Physiol 81: 802-806
27. Hymowitz T (1973) Electrophoretic analysis of SBTI-A2 in the USDA soybean germplasm collection. Crop Sci 13: 420-421
28. Kalinski AJ, Melroy DL, Dwivedi RS, Herman EM (1992) A soybean vacuolar protein (P34) related to thiol proteases which is synthesized as a glycoprotein precursor during seed maturation. J Biol Chem 267: 12068-12076
29. Kalinski AJ, Weisemann J, Matthews BF, Herman EM (1990) Molecular cloning of a protein associated with soybean oil bodies which is homologous to thiol proteases of the papain family. J Biol Chem 265: 13843-13848
30. Keppler LD, Novacky A (1987) The initiation of membrane lipid peroxidation during bacteria-induced hypersensitive reactions. Physiol Mol Plant Pathol 30: 233-245
31. Kerninghan BW, Richie DM (1978) The C programming language. Prentice-Hall Software Press, Englewood Cliffs, NJ
32. King SP, Lunn JE, Furbank RT (1997) Carbohydrate content and enzyme metabolism in developing canola siliques. Plant Physiol 114: 153-160
33. Konradova H, Lipavska H, Albrechtova J, Vreugdenhil D (2002) Sucrose metabolism during somatic and zygotic embryogeneses in Norway spruce: content of soluble saccharides and localisation of key enzyme activities. J Plant Physiol 159: 387-396
34. Kramer JA, Johnson KR, Dunham WR, Sands RH, Funk MO Jr (1994) Position 713 is critical for catalysis but not iron binding in soybean lipoxygenase 3. Biochemistry 33: 15017-15022
35. Kunitz M (1945) Crystallization of trypsin inhibitor from soybean. Science 101: 668-669
36. Mienke DW, Chen J, Beachy RN (1981) Expression of storage-protein genes during soybean seed development. Planta 153: 130-139
37. Miernyk JA, Dennis DT (1983) Mitochondrial, plastid, and cytosolic isozymes of hexokinase from developing endosperm of Ricinus communis. Arch Biochem Biophys 226: 458-468
38. Mooney BP, Thelen JJ (2004) High-throughput peptide mass fingerprinting of soybean seed protein: automated workflow and utility of UniGene expressed sequence tag databases for protein identification. Phytochemistry 65: 1733-1744
39. Ogawa T, Samoto M, Takahashi K (2000) Soybean allergens and hypoallergenic soybean products. J Nutr Sci Vitaminol 46: 271-279
40. Ogawa T, Tsuji H, Kitamura K, Zhu UL, Hirano H, Nishikawa K (1993) Identification of the soybean allergenic protein, Gly m Bd 30 K, with the soybean seed 34-kDa oil-body-associated protein. Biosci Biotechnol Biochem 57: 1030-1033
41. Orf JH, Hymowitz T (1979) Inheritance of the absence of the Kunitz trypsin inhibitor in seed protein of soybeans. Crop Sci 19: 107-109
42. Quirce S, Fernandez-Nieto M, Polo F, Sastre J (2002) Soybean trypsin inhibitor is an occupational inhalant allergen. J Allergy Clin Immunol 109: 178
43. Pappin DJC, Hojrup P, Bleasby AJ (1993) Rapid identification of proteins by peptide-mass fingerprinting. Curr Biol 3: 327-332
44. Reinbothe S, Reinbothe C, Lehmann J, Becker W, Apel K, Parthier B (1994) JIP60, a methyl jasmonate-induced ribosome-inactivating protein involved in plant stress reactions. Proc Natl Acad Sci USA 91: 7012-7016
45. Roberts MR (2003) 14-3-3 proteins find new partners in plant cell signaling. Trends Plant Sci 8: 218-223
46. Roberts RC, Briggs DR (1965) Isolation and characterization of the 7S component of soybean globulins. Cereal Chem 42: 71-85
47. Rubel A, Rinne W, Canvin DT (1972) Protein oil and fatty acid in developing soybean seeds. Crop Sci 12: 739-741
48. Ruuska SS, Girke T, Benning C, Ohlrogge JB (2002) Contrapuntal networks of gene expression during Arabidopsis seed filling. Plant Cell 14: 1191-1206
49. Saravitz DM, Siedow JN (1996) The differential expression of wound-inducible lipoxygenase genes in soybean leaves. Plant Physiol 110: 287-299
50. Schiltz S, Gallardo K, Huart M, Negrono L, Sommerer N, Burstin J (2004) Proteome reference maps of vegetable tissue in pea. An investigation of nitrogen mobilization from leaves during seed filling. Plant Physiol 135: 2241-2260
51. Schuler MA, Ladin BF, Fryer G, Pollaco JG, Beachy RN (1982b) Structural sequences are conserved in the genes coding for the α, α′ and β subunits of the soybean seed storage protein and other seed proteins. Nucleic Acids Res 10: 8245-8260
52. Schuler MA, Schmitt ES, Beachy RN (1982a) Closely related families of genes code for the alpha and alpha' subunits of the soybean 7S storage protein complex. Nucleic Acids Res 10: 8225-8244
53. Shibata D, Steczko J, Dixon JE, Andrews PC, Hermodson M, Axelrod B (1988) Primary structure of soybean lipoxygenase L-2. J Biol Chem 263: 6816-6821
54. Singh L, Wilson CM, Hadley HH (1969) Genetic differences in soybean trypsin inhibitor separated by disk electrophoresis. Crop Sci 9: 489-491
55. Tang GQ, Hardin SC, Dewey R, Huber SC (2003) A novel C-terminal proteolytic processing of cytosolic pyruvate kinase, its phosphorylation and degradation by the proteasome in developing soybean seeds. Plant J 34: 77-93
56. Thanh VH, Shibasaki K (1976) Heterogeneity of beta-conglycinin. Biochim Biophys Acta 181: 404-409
57. Thelen JJ, Ohlrogge JB (2002) Metabolic engineering of fatty acid biosynthesis in plants. Metab Eng 4: 12-21
58. Tsuji H, Okada N, Yamanishi R, Bando N, Kimoto M, Ogawa T (1995) Measurement of Gly m Bd 30 K, a major soybean allergen, in soybean products by a sandwich enzyme-linked immunosorbent assay. Biosci Biotechnol Biochem 59: 150-151
59. Wang KJ, Kaizuma N, Takahata Y, Hatakeyama S (1996) Detection of two new variants of soybean Kunitz trypsin inhibitor through electrophoresis. Breed Sci 46: 39-44
60. Wang KJ, Takahata Y, Ito K, Zhao YP, Tsutsumi K, Kaizuma N (2001) Genetic characterization of a novel soybean Kunitz trypsin inhibitor. Breed Sci 51: 185-190
61. White JA, Todd J, Newman T, Focks N, Girke T, Martínez de Ilárduya O, Jaworski JG, Ohlrogge JB, Benning C (2000) A new set of Arabidopsis expressed sequence tags from developing seeds: the metabolic pathway from carbohydrates to seed oil. Plant Physiol 124: 1582-1594
62. Yang Z, Zhang L, Diao F, Huang M, Wu N (2004) Sucrose regulates elongation of carrot somatic embryo radicles as a signal molecule. Plant Mol Biol 54: 441-459
63. Yazdi-Samadi B, Rinne RW, Seif RD (1977) Components of developing soybean seeds: oil protein sugars starch organic acids and amino acids. Agron J 69: 481-486
64. Zhao SW, Wang H (1992) A new electrophoretic variant of SBTi-A2 in soybean seed protein. Soybean Genetics Newsletter 19: 22-24