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| The Arabidopsis thaliana chloroplast proteome reveals pathway abundance and novel protein functions |
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| Author(s): Kleffmann T, Russenberger D, von Zychlinski A, Christopher W, Sjolander K, Gruissem W, Baginsky S |
| Source: CURRENT BIOLOGY Volume: 14 Issue: 5 Pages: 354-362 Published: MAR 9 2004 |
| Times Cited: 144 References: 33 |
| Abstract: Background: Chloroplasts are plant cell organelles of cyanobacterial origin. They perform essential metabolic and biosynthetic functions of global significance, including photosynthesis and amino acid biosynthesis. Most of the proteins that constitute the functional chloroplast are encoded in the nuclear genome and imported into the chloroplast after translation in the cytosol. Since protein targeting is difficult to predict, many nuclear-encoded plastid proteins are still to be discovered. Results: By tandem mass spectrometry, we identified 690 different proteins from purified Arabidopsis chloroplasts. Most proteins could be assigned to known protein complexes and metabolic pathways, but more than 30% of the proteins have unknown functions, and many are not predicted to localize to the chloroplast. Novel structure and function prediction methods provided more informative annotations for proteins of unknown functions. While near-complete protein coverage was accomplished for key chloroplast pathways such as carbon fixation and photosynthesis, fewer proteins were identified from pathways that are downregulated in the light. Parallel RNA profiling revealed a pathway-dependent correlation between transcript and relative protein abundance, suggesting gene regulation at different levels. Conclusions: The chloroplast proteome contains many proteins that are of unknown function and not predicted to localize to the chloroplast. Expression of nuclear-encoded chloroplast genes is regulated at multiple levels in a pathway-dependent context. The combined shotgun proteomics and RNA profiling approach is of high potential value to predict metabolic pathway prevalence and to define regulatory levels of gene expression on a pathway scale.
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| Document Type: Article |
| Language: English |
| Reprint Address: Baginsky, S (reprint author), Swiss Fed Inst Technol, ETH Zentrum, Inst Plant Sci, LFW E51-1,Univ Str 2, CH-8092 Zurich, Switzerland |
Addresses:
1. Swiss Fed Inst Technol, ETH Zentrum, Inst Plant Sci, CH-8092 Zurich, Switzerland
2. Swiss Fed Inst Technol, ETH Zentrum, Funct Genomics Ctr Zurich, CH-8092 Zurich, Switzerland
3. Univ Calif Berkeley, Dept Bioengn, Berkeley, CA 94720 USA |
| Publisher: CELL PRESS, 1100 MASSACHUSETTS AVE, CAMBRIDGE, MA 02138 USA |
| Subject Category: Biochemistry & Molecular Biology |
| IDS Number: 803HQ |
| ISSN: 0960-9822 |
| DOI: 10.1016/j.cub.2004.02.039 |
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