Soybean

Soybean is the largest oilseed crop in the world. Total crop value in 2007 was estimated to $20.6 billions and in the US alone soybean and soybean product exports totaled $12.9 billion. Soybean seeds are an important renewable source of biosynthetic polymers including protein and oil. By analyzing developing soybean seed using high-throughput proteomics we can improve our understanding of seed metabolism by cataloging the proteins expressed and investigating their relative expression during seed development.


Soybean seeds of cultivar Maverick were analyzed at 2, 3, 4, 5 and 6 weeks after flowering using two-dimensional gel electrophoresis and matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF-MS). Reference maps for soybean proteins with pI values between 4 to 7 (gel pI 4-7) and 3 to10 (gel pI 3-10) are available. These proteome reference maps contain clickable spots linked to expression profiles and protein identification data. Tables of protein assignments classified according to their function: protein table of MALDI-TOF-MS and protein table of LC-MS/MS along with supplementary tables, 2-DGE and Sec-MudPIT, and Supplementary Figures are also available for viewing.

 

Identified Proteins by MALDI-TOF-MS
  • Metabolism
  • Energy
  • Cell growth/division
  • Transcription
  • Protein synthesis
  • Protein destination and storage
  • Transporters
  • Intracelullar traffic
  • Cell structure
  • Signal transduction
  • Disease/defense
  • Unclear classification
  • Unclassified
  • Secondary metabolism

AGRICULTURE

Soybeans were first grown as a crop in China 5000 years ago. Contemporarily, soybeans were planted on a record 30.2 million hectare in 2000, producing 75.39 million metric tons of soybeans. Total crop value in 2000 was estimated to $12.2 billions and in US itself soybean and soybean product exports totaled $6.66 billion in 2000. Soybeans are good source of dietary proteins. Soybean oil is rich in polyunsaturated fatty acids and contains no cholesterol. (http://www.asa-europe.org/ ).

RATIONALE

Soybean seeds are an important renewable source of biosynthetic polymers including protein and oil. Analysis and comparison of gene and protein expression during the period of seed development in which the the majority of these compounds are synthesized will hopefully reveal the changes in metabolism and aid our understanding of the complex process of seed-filling. With recent technological advances in the area of mass spectrometry, high throughput identification of anonymous proteins is now possible. By analyzing developing soybean seed using high-throughput proteomics we can improve our understanding of seed metabolism by cataloging the proteins expressed and investigating their relative expression during seed development.

PROTEOMICS RESEARCH

Soybean seeds of cultivar Maverick were analyzed at 2, 3, 4, 5 and 6 weeks after flowering (WAF) using two-dimensional gel electrophoresis (2-DE) and matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF-MS). This experimental approach resulted in 679 proteins with expression profiles and MALDI-TOF-MS data (Hajduch et al., 2005). From these 679 proteins, 422 proteins were identified representing 216 non-redundant proteins. All identified proteins were classified into 14 major functional categories, based on Bevan et al (1998). The reference maps for soybean proteins involved in seed-filling were constructed. These proteome reference maps contain clickable spots linked to expression profiles during seed-filling, MALDI-TOF and protein identification data.

References:

Bevan M, Bancroft I, Bent E, Love K, Goodman H, Dean C Bergkamp R, Dirkse W, Van Staveren M, Stiekema W, Drost L, Ridley P, Hudson S-A, Parel K, Murphy G, Piffanelli P, Wedler H, Wedler E, Wambutt R, Weizenegger T, Pohl TM, Terryn N, Gielen J, Villarroel R, De Clerck R, Van Montagu M, Lecharny A, Auborg S, Gy I, Kreis M, Lao N, Kavanagh T, Hempel S, Kotter P, Entian K-D, Rieger M, Schaeffer M, Funk B, Muller-Auer S, Silvey M, James R, Monrfort A, Pons A, Puigdomenech P, Douka A, Voukelatou E, Milioni D, Hatzopoulos P, Pivandi E, Obermaier B, Hilbert H, Düsterhöft A, Moores T, Jones JDG, Eneva T, Palme K, Nenes V, Rechman S, Ansorge W, Cooke R, Berger C, Delseny M, Voet M, Volckaert G, Mewes H-W, Klosterman S, Schueller C, Chalwatzis N (1998) Analysis of 19Mb of contiguous sequence from chromosome 4 of Arabidopsis thaliana. Nature 391: 485-488

Hajduch M, Ganapathy A, Stein JW, Thelen JJ (2005) 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 Phys 137 (4):1397-419