HOME HELP FEEDBACK SUBSCRIPTIONS ARCHIVE SEARCH TABLE OF CONTENTS		QUICK SEARCH:   [advanced] Author: Keyword(s): Year:  Vol:  Page:

This Article Free via Author's Choice: AC AC Full Text Full Text (PDF) Supplemental Data AC All Versions of this Article: M700273-MCP200v1 7/9/1725    most recent Submit a response Alert me when this article is cited Alert me when eLetters are posted Alert me if a correction is posted Citation Map Services Email this article to a friend Similar articles in this journal Similar articles in PubMed Alert me to new issues of the journal Download to citation manager Request Permissions Glossary Citing Articles Citing Articles via HighWire Citing Articles via Google Scholar Google Scholar Articles by Wienkoop, S. Articles by Weckwerth, W. Search for Related Content PubMed PubMed Citation Articles by Wienkoop, S. Articles by Weckwerth, W. Social Bookmarking                      What's this?

Molecular & Cellular Proteomics 7:1725-1736, 2008.
© 2008 by The American Society for Biochemistry and Molecular Biology, Inc.

---

Research

Integration of Metabolomic and Proteomic Phenotypes

Analysis of Data Covariance Dissects Starch and RFO Metabolism from Low and High Temperature Compensation Response in Arabidopsis Thaliana^*,S

Stefanie Wienkoop^,,¶, Katja Morgenthal^,¶, Florian Wolschin^¶,||, Matthias Scholz^**, Joachim Selbig and Wolfram Weckwerth^,,,¶¶

From the Max Planck Institute of Molecular Plant Physiology, 14424 Potsdam, Germany, GoFORSYS (Golmer Forschungseinrichtung für Systembiologie), Institute of Biochemistry and Biology, University of Potsdam, 14424 Potsdam, Germany, ^|| School of Life Sciences, Arizona State University, Tempe, Arizona 85287, ^** CC-FG (Competence Center - Functional Genomics), Ernst-Moritz-Arndt- University of Greifswald, Germany, Institute of Biochemistry and Biology, University of Potsdam, Germany, Department of Molecular Plant Physiology and Systems Biology, University of Vienna, Austria

Statistical mining and integration of complex molecular data including metabolites, proteins, and transcripts is one of the critical goals of systems biology (Ideker, T., Galitski, T., and Hood, L. (2001) A new approach to decoding life: systems biology. Annu. Rev. Genomics Hum. Genet. 2, 343–372). A number of studies have demonstrated the parallel analysis of metabolites and large scale transcript expression. Protein analysis has been ignored in these studies, although a clear correlation between transcript and protein levels is shown only in rare cases, necessitating that actual protein levels have to be determined for protein function analysis. Here, we present an approach to investigate the combined covariance structure of metabolite and protein dynamics in a systemic response to abiotic temperature stress in Arabidopsis thaliana wild-type and a corresponding starch-deficient mutant (phosphoglucomutase-deficient). Independent component analysis revealed phenotype classification resolving genotype-dependent response effects to temperature treatment and genotype-independent general temperature compensation mechanisms. An observation is the stress-induced increase of raffinose-family-oligosaccharide levels in the absence of transitory starch storage/mobilization in temperature-treated phosphoglucomutase plants indicating that sucrose synthesis and storage in these mutant plants is sufficient to bypass the typical starch storage/mobilization pathways under abiotic stress. Eventually, sample pattern recognition and correlation network topology analysis allowed for the detection of specific metabolite-protein co-regulation and assignment of a circadian output regulated RNA-binding protein to these processes. The whole concept of high-dimensional profiling data integration from many replicates, subsequent multivariate statistics for dimensionality reduction, and covariance structure analysis is proposed to be a major strategy for revealing central responses of the biological system under study.

CiteULike    Complore    Connotea    Del.icio.us    Digg    Reddit    Technorati    What's this?

This article has been cited by other articles:

				W. Zhang, F. Li, and L. Nie Integrating multiple 'omics' analysis for microbial biology: application and methodologies Microbiology, February 1, 2010; 156(2): 287 - 301. [Abstract] [Full Text] [PDF]