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Using quantitative proteomics of Arabidopsis roots and leaves to predict metabolic activity
Author(s) -
Mooney Brian P.,
Miernyk Jan A.,
Michael Greenlief C.,
Thelen Jay J.
Publication year - 2006
Publication title -
physiologia plantarum
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.351
H-Index - 146
eISSN - 1399-3054
pISSN - 0031-9317
DOI - 10.1111/j.1399-3054.2006.00746.x
Subject(s) - proteome , biology , proteomics , arabidopsis thaliana , metabolism , arabidopsis , secondary metabolism , quantitative proteomics , botany , biochemistry , gene , biosynthesis , mutant
Proteins isolated from developing roots and leaves of Arabidopsis thaliana were separated by high‐resolution two‐dimensional (2‐D) electrophoresis. The resulting 2‐D proteome maps are markedly different. Quantitative analysis of root and leaf protein spot pairs revealed that in most instances there was at least a 1.5‐fold differential. Peptide mass fingerprint analysis of the 288 most abundant 2‐D spots from each organ allowed 156 and 126 protein assignments for roots and leaves, respectively, 54 of which were common. Metabolism‐related proteins accounted for 20% of assignments in samples from both organs, whereas energy‐related proteins comprised 25 and 18% of leaf and root samples, respectively. Proteins involved in disease resistance and defense encompass 13% of root proteins, but only 7% of leaf proteins. Comparison of protein abundance with transcript abundance, using previously reported microarray data, yielded a correlation coefficient of approximately 0.6, suggesting that it is inappropriate to make protein level or metabolic conclusions based solely upon data from transcript profiling. A comparative model of root and leaf metabolism was developed, based upon protein rather than transcript abundance. The model indicates elevated one‐carbon and tricarboxylic acid metabolism in roots relative to leaves.