Literature DB >> 12163647

Proteomic survey of metabolic pathways in rice.

Antonius Koller1, Michael P Washburn, B Markus Lange, Nancy L Andon, Cosmin Deciu, Paul A Haynes, Lara Hays, David Schieltz, Ryan Ulaszek, Jing Wei, Dirk Wolters, John R Yates.   

Abstract

A systematic proteomic analysis of rice (Oryza sativa) leaf, root, and seed tissue using two independent technologies, two-dimensional gel electrophoresis followed by tandem mass spectrometry and multidimensional protein identification technology, allowed the detection and identification of 2,528 unique proteins, which represents the most comprehensive proteome exploration to date. A comparative display of the expression patterns indicated that enzymes involved in central metabolic pathways are present in all tissues, whereas metabolic specialization is reflected in the occurrence of a tissue-specific enzyme complement. For example, tissue-specific and subcellular compartment-specific isoforms of ADP-glucose pyrophosphorylase were detected, thus providing proteomic confirmation of the presence of distinct regulatory mechanisms involved in the biosynthesis and breakdown of separate starch pools in different tissues. In addition, several previously characterized allergenic proteins were identified in the seed sample, indicating the potential of proteomic approaches to survey food samples with regard to the occurrence of allergens.

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Year:  2002        PMID: 12163647      PMCID: PMC129378          DOI: 10.1073/pnas.172183199

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  47 in total

1.  Mass spectrometric identification of proteins from silver-stained polyacrylamide gel: a method for the removal of silver ions to enhance sensitivity.

Authors:  F Gharahdaghi; C R Weinberg; D A Meagher; B S Imai; S M Mische
Journal:  Electrophoresis       Date:  1999-03       Impact factor: 3.535

2.  Functional architecture of the major light-harvesting complex from higher plants.

Authors:  E Formaggio; G Cinque; R Bassi
Journal:  J Mol Biol       Date:  2001-12-14       Impact factor: 5.469

3.  ChloroP, a neural network-based method for predicting chloroplast transit peptides and their cleavage sites.

Authors:  O Emanuelsson; H Nielsen; G von Heijne
Journal:  Protein Sci       Date:  1999-05       Impact factor: 6.725

Review 4.  Engineering starch for increased quantity and quality.

Authors:  C J Slattery; I H Kavakli; T W Okita
Journal:  Trends Plant Sci       Date:  2000-07       Impact factor: 18.313

Review 5.  Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12.

Authors:  A J Link; K Robison; G M Church
Journal:  Electrophoresis       Date:  1997-08       Impact factor: 3.535

6.  A cytosolic ADP-glucose pyrophosphorylase is a feature of graminaceous endosperms, but not of other starch-storing organs.

Authors:  D M Beckles; A M Smith; T ap Rees
Journal:  Plant Physiol       Date:  2001-02       Impact factor: 8.340

7.  Two-dimensional electrophoresis of plant proteins and standardization of gel patterns.

Authors:  A Tsugita; M Kamo; T Kawakami; Y Ohki
Journal:  Electrophoresis       Date:  1996-05       Impact factor: 3.535

8.  Direct analysis of protein complexes using mass spectrometry.

Authors:  A J Link; J Eng; D M Schieltz; E Carmack; G J Mize; D R Morris; B M Garvik; J R Yates
Journal:  Nat Biotechnol       Date:  1999-07       Impact factor: 54.908

9.  Analysis of quantitative proteomic data generated via multidimensional protein identification technology.

Authors:  Michael P Washburn; Ryan Ulaszek; Cosmin Deciu; David M Schieltz; John R Yates
Journal:  Anal Chem       Date:  2002-04-01       Impact factor: 6.986

10.  The encoded primary sequence of a rice seed ADP-glucose pyrophosphorylase subunit and its homology to the bacterial enzyme.

Authors:  J M Anderson; J Hnilo; R Larson; T W Okita; M Morell; J Preiss
Journal:  J Biol Chem       Date:  1989-07-25       Impact factor: 5.157

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  75 in total

1.  Plant proteomics: BLASTing out of a MudPIT.

Authors:  Julian P Whitelegge
Journal:  Proc Natl Acad Sci U S A       Date:  2002-08-23       Impact factor: 11.205

2.  Proteome analysis of rice tissues by two-dimensional electrophoresis: an approach to the investigation of gibberellin regulated proteins.

Authors:  N Tanaka; H Konishi; M M K Khan; S Komatsu
Journal:  Mol Genet Genomics       Date:  2003-11-21       Impact factor: 3.291

3.  Proteome reference maps of vegetative tissues in pea. An investigation of nitrogen mobilization from leaves during seed filling.

Authors:  Séverine Schiltz; Karine Gallardo; Myriam Huart; Luc Negroni; Nicolas Sommerer; Judith Burstin
Journal:  Plant Physiol       Date:  2004-08-06       Impact factor: 8.340

Review 4.  Update on plant ionomics.

Authors:  David E Salt
Journal:  Plant Physiol       Date:  2004-09       Impact factor: 8.340

Review 5.  Control of male gametophyte development.

Authors:  Sheila McCormick
Journal:  Plant Cell       Date:  2004-03-22       Impact factor: 11.277

6.  High-coverage profiling analysis of genes expressed during rice seed development, using an improved amplified fragment length polymorphism technique.

Authors:  Kiyoshi Suzuki; Atsushi Hattori; Seiko Tanaka; Takehiro Masumura; Masumi Abe; Shinichi Kitamura
Journal:  Funct Integr Genomics       Date:  2004-10-13       Impact factor: 3.410

7.  A systematic characterization of mitochondrial proteome from human T leukemia cells.

Authors:  Karim Rezaul; Linfeng Wu; Viveka Mayya; Sun-Il Hwang; David Han
Journal:  Mol Cell Proteomics       Date:  2004-12-14       Impact factor: 5.911

8.  Rice Proteome Database based on two-dimensional polyacrylamide gel electrophoresis: its status in 2003.

Authors:  Setsuko Komatsu; Keiichi Kojima; Kouji Suzuki; Kazuo Ozaki; Kenichi Higo
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

9.  Increased abundance of proteins involved in phytosiderophore production in boron-tolerant barley.

Authors:  John Patterson; Kris Ford; Andrew Cassin; Siria Natera; Antony Bacic
Journal:  Plant Physiol       Date:  2007-05-03       Impact factor: 8.340

10.  Enhanced photosynthesis and redox energy production contribute to salinity tolerance in Dunaliella as revealed by homology-based proteomics.

Authors:  Adam J Liska; Andrej Shevchenko; Uri Pick; Adriana Katz
Journal:  Plant Physiol       Date:  2004-08-27       Impact factor: 8.340

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