OPEN ACCESS ARTICLE

This Article Free via Open Access: OA OA Full Text Full Text (PDF) Supplemental Data OA All Versions of this Article: 149/2/719    most recent pp.108.131300v1 Alert me when this article is cited Alert me if a correction is posted 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 Citing Articles Citing Articles via HighWire Citing Articles via CrossRef Citing Articles via Web of Science (1) Citing Articles via Google Scholar Google Scholar Articles by Huang, S. Articles by Millar, A. H. Search for Related Content PubMed PubMed Citation Articles by Huang, S. Articles by Millar, A. H. Agricola Articles by Huang, S. Articles by Millar, A. H. Related Collections The Grasses

BIOENERGETICS AND PHOTOSYNTHESIS

Experimental Analysis of the Rice Mitochondrial Proteome, Its Biogenesis, and Heterogeneity^1,[W],[OA]

Australian Research Council Centre of Excellence in Plant Energy Biology, M316, University of Western Australia, Crawley, 6009 Western Australia, Australia

Mitochondria in rice (Oryza sativa) are vital in expanding our understanding of the cellular response to reoxygenation of tissues after anaerobiosis, the crossroads of carbon and nitrogen metabolism, and the role of respiratory energy generation in cytoplasmic male sterility. We have combined density gradient and surface charge purification techniques with proteomics to provide an in-depth proteome of rice shoot mitochondria covering both soluble and integral membrane proteins. Quantitative comparisons of mitochondria purified by density gradients and after further surface charge purification have been used to ensure that the proteins identified copurify with mitochondria and to remove contaminants from the analysis. This rigorous approach to defining a subcellular proteome has yielded 322 nonredundant rice proteins and highlighted contaminants in previously reported rice mitochondrial proteomes. Comparative analysis with the Arabidopsis (Arabidopsis thaliana) mitochondrial proteome reveals conservation of a broad range of known and unknown function proteins in plant mitochondria, with only approximately 20% not having a clear homolog in the Arabidopsis mitochondrial proteome. As in Arabidopsis, only approximately 60% of the rice mitochondrial proteome is predictable using current organelle-targeting prediction tools. Use of the rice protein data set to explore rice transcript data provided insights into rice mitochondrial biogenesis during seed germination, leaf development, and heterogeneity in the expression of nucleus-encoded mitochondrial components in different rice tissues. Highlights include the identification of components involved in thiamine synthesis, evidence for coexpressed and unregulated expression of specific components of protein complexes, a selective anther-enhanced subclass of the decarboxylating segment of the tricarboxylic acid cycle, the differential expression of DNA and RNA replication components, and enhanced expression of specific metabolic components in photosynthetic tissues.

The author responsible for distribution of materials integral to the findings presented in this article in accordance with the policy described in the Instructions for Authors (www.plantphysiol.org) is: A. Harvey Millar (hmillar{at}cyllene.uwa.edu.au).

^[W] The online version of this article contains Web-only data.

^[OA] Open Access articles can be viewed online without a subscription.

www.plantphysiol.org/cgi/doi/10.1104/pp.108.131300

^* Corresponding author; e-mail hmillar{at}cyllene.uwa.edu.au.

Received October 15, 2008; accepted November 12, 2008; published November 14, 2008.

This article has been cited by other articles:

				A. Atteia, A. Adrait, S. Brugiere, M. Tardif, R. van Lis, O. Deusch, T. Dagan, L. Kuhn, B. Gontero, W. Martin, et al. A Proteomic Survey of Chlamydomonas reinhardtii Mitochondria Sheds New Light on the Metabolic Plasticity of the Organelle and on the Nature of the {alpha}-Proteobacterial Mitochondrial Ancestor Mol. Biol. Evol., July 1, 2009; 26(7): 1533 - 1548. [Abstract] [Full Text] [PDF]

				S. Huang, N. L. Taylor, J. Whelan, and A. H. Millar Refining the Definition of Plant Mitochondrial Presequences through Analysis of Sorting Signals, N-Terminal Modifications, and Cleavage Motifs Plant Physiology, July 1, 2009; 150(3): 1272 - 1285. [Abstract] [Full Text] [PDF]