ChemBridge Corporation Screening Compounds Sign up for PNAS Online eTocs
Link: Info for AuthorsLink: Editorial BoardLink: AboutLink: SubscribeLink: AdvertiseLink: ContactLink: Sitemap Link: PNAS Home
Proceedings of the National Academy of Sciences
Link: Current Issue "" Link: Archives "" Link: Online Submission ""  Link: Advanced Search

Published online on April 17, 2006, 10.1073/pnas.0506958103

This Article
Right arrow Full Text (PDF)
Right arrow Supporting Information
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a colleague
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My File Cabinet
Right arrow Download to citation manager
Right arrow Request Copyright Permission
Citing Articles
Right arrow Citing Articles via HighWire
Right arrow Citing Articles via CrossRef
Right arrow Citing Articles via Google Scholar
Google Scholar
Right arrow Articles by Dunkley, T. P. J.
Right arrow Articles by Lilley, K. S.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Dunkley, T. P. J.
Right arrow Articles by Lilley, K. S.
Right arrowPubmed/NCBI databases
*Gene*GEO Profiles
*Protein*UniGene
Social Bookmarking
Add to CiteULike   Add to Complore   Add to Connotea   Add to Del.icio.us   Add to Digg  
What's this?

Cell Biology
Mapping the Arabidopsis organelle proteome

( endomembrane | localization of organelle proteins by isotope tagging | isotope tags for relative and absolute quantitation | organelle proteomics )

Tom P. J. Dunkley *, Svenja Hester *, Ian P. Shadforth {dagger}, John Runions {ddagger}, Thilo Weimar *, Sally L. Hanton {sect}, Julian L. Griffin *, Conrad Bessant {dagger}, Federica Brandizzi {sect}, Chris Hawes {ddagger}, Rod B. Watson ¶, Paul Dupree *, and Kathryn S. Lilley *||

*Department of Biochemistry, University of Cambridge, Downing Site, Cambridge CB2 1QW, United Kingdom; {dagger}Department of Analytical Science and Informatics, Cranfield University, Silsoe MK45 4DT, United Kingdom; {ddagger}Research School of Biological and Molecular Sciences, Oxford Brookes University, Oxford OX3 0BP, United Kingdom; {sect}Department of Biology, University of Saskatchewan, 112 Science Place, Saskatoon, SK, Canada S7N 5E2; and Applied Biosystems, Lingley House, 120 Birchwood Boulevard, Warrington WA3 7QH, United Kingdom

Edited by Randy Schekman, University of California, Berkeley, CA, and approved February 27, 2006 (received for review August 11, 2005)

A challenging task in the study of the secretory pathway is the identification and localization of new proteins to increase our understanding of the functions of different organelles. Previous proteomic studies of the endomembrane system have been hindered by contaminating proteins, making it impossible to assign proteins to organelles. Here we have used the localization of organelle proteins by the isotope tagging technique in conjunction with isotope tags for relative and absolute quantitation and 2D liquid chromatography for the simultaneous assignment of proteins to multiple subcellular compartments. With this approach, the density gradient distributions of 689 proteins from Arabidopsis thaliana were determined, enabling confident and simultaneous localization of 527 proteins to the endoplasmic reticulum, Golgi apparatus, vacuolar membrane, plasma membrane, or mitochondria and plastids. This parallel analysis of endomembrane components has enabled protein steady-state distributions to be determined. Consequently, genuine organelle residents have been distinguished from contaminating proteins and proteins in transit through the secretory pathway.

Author contributions: T.P.J.D., P.D., and K.S.L. designed research; T.P.J.D., S.H., J.R., T.W., S.L.H., and F.B. performed research; I.P.S., C.B., and R.B.W. contributed new reagents/analytic tools; T.P.J.D., J.L.G., C.H., and P.D. analyzed data; and T.P.J.D. and K.S.L. wrote the paper.

Conflict of interest statement: No conflicts declared.

||To whom correspondence should be addressed.

Kathryn S. Lilley, E-mail: k.s.lilley{at}bioc.cam.ac.uk

www.pnas.org/cgi/doi/10.1073/pnas.0506958103
Add to CiteULike CiteULike   Add to Complore Complore   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us   Add to Digg Digg    What's this?


This article has been cited by other articles in HighWire Press-hosted journals:


Home page
 GeneticsHome page
J. Stout, E. Romero-Severson, M. O. Ruegger, and C. Chapple
Semidominant Mutations in Reduced Epidermal Fluorescence 4 Reduce Phenylpropanoid Content in Arabidopsis
Genetics, April 1, 2008; 178(4): 2237 - 2251.
[Abstract] [Full Text] [PDF]

Home page
 Plant CellHome page
L. R. Poulsen, R. L. Lopez-Marques, S. C. McDowell, J. Okkeri, D. Licht, A. Schulz, T. Pomorski, J. F. Harper, and M. G. Palmgren
The Arabidopsis P4-ATPase ALA3 Localizes to the Golgi and Requires a {beta}-Subunit to Function in Lipid Translocation and Secretory Vesicle Formation
PLANT CELL, March 1, 2008; 20(3): 658 - 676.
[Abstract] [Full Text] [PDF]

Home page
 Plant Physiol.Home page
R. F. Mills, M. L. Doherty, R. L. Lopez-Marques, T. Weimar, P. Dupree, M. G. Palmgren, J. K. Pittman, and L. E. Williams
ECA3, a Golgi-Localized P2A-Type ATPase, Plays a Crucial Role in Manganese Nutrition in Arabidopsis
Plant Physiology, January 1, 2008; 146(1): 116 - 128.
[Abstract] [Full Text] [PDF]

Home page
 Mol. Cell. ProteomicsHome page
S. Wiese, T. Gronemeyer, R. Ofman, M. Kunze, C. P. Grou, J. A. Almeida, M. Eisenacher, C. Stephan, H. Hayen, L. Schollenberger, et al.
Proteomics Characterization of Mouse Kidney Peroxisomes by Tandem Mass Spectrometry and Protein Correlation Profiling
Mol. Cell. Proteomics, December 1, 2007; 6(12): 2045 - 2057.
[Abstract] [Full Text] [PDF]

Home page
 Mol. Cell. ProteomicsHome page
A. Marmagne, M. Ferro, T. Meinnel, C. Bruley, L. Kuhn, J. Garin, H. Barbier-Brygoo, and G. Ephritikhine
A High Content in Lipid-modified Peripheral Proteins and Integral Receptor Kinases Features in the Arabidopsis Plasma Membrane Proteome
Mol. Cell. Proteomics, November 1, 2007; 6(11): 1980 - 1996.
[Abstract] [Full Text] [PDF]

Home page
 Plant CellHome page
J. J. Thelen and S. C. Peck
Quantitative Proteomics in Plants: Choices in Abundance
PLANT CELL, November 1, 2007; 19(11): 3339 - 3346.
[Full Text] [PDF]

Home page
 Plant Physiol.Home page
J. Geisler-Lee, N. O'Toole, R. Ammar, N. J. Provart, A. H. Millar, and M. Geisler
A Predicted Interactome for Arabidopsis
Plant Physiology, October 1, 2007; 145(2): 317 - 329.
[Abstract] [Full Text] [PDF]

Home page
 Plant Physiol.Home page
C. Ibar and A. Orellana
The Import of S-Adenosylmethionine into the Golgi Apparatus Is Required for the Methylation of Homogalacturonan
Plant Physiology, October 1, 2007; 145(2): 504 - 512.
[Abstract] [Full Text] [PDF]

Home page
 Plant Physiol.Home page
U. G. Schmidt, A. Endler, S. Schelbert, A. Brunner, M. Schnell, H. E. Neuhaus, D. Marty-Mazars, F. Marty, S. Baginsky, and E. Martinoia
Novel Tonoplast Transporters Identified Using a Proteomic Approach with Vacuoles Isolated from Cauliflower Buds
Plant Physiology, September 1, 2007; 145(1): 216 - 229.
[Abstract] [Full Text] [PDF]

Home page
 Mol. Cell. ProteomicsHome page
J. J. Benschop, S. Mohammed, M. O'Flaherty, A. J. R. Heck, M. Slijper, and F. L. H. Menke
Quantitative Phosphoproteomics of Early Elicitor Signaling in Arabidopsis
Mol. Cell. Proteomics, July 1, 2007; 6(7): 1198 - 1214.
[Abstract] [Full Text] [PDF]

Home page
 J Exp BotHome page
L. Bown, S. Kusaba, F. Goubet, L. Codrai, A. G. Dale, Z. Zhang, X. Yu, K. Morris, T. Ishii, C. Evered, et al.
The ectopically parting cells 1-2 (epc1-2) mutant exhibits an exaggerated response to abscisic acid
J. Exp. Bot., May 1, 2007; 58(7): 1813 - 1823.
[Abstract] [Full Text] [PDF]

Home page
 Plant Physiol.Home page
J. Wang, Y. Li, S. W. Lo, S. Hillmer, S. S.M. Sun, D. G. Robinson, and L. Jiang
Protein Mobilization in Germinating Mung Bean Seeds Involves Vacuolar Sorting Receptors and Multivesicular Bodies
Plant Physiology, April 1, 2007; 143(4): 1628 - 1639.
[Abstract] [Full Text] [PDF]

Home page
 Mol. Cell. ProteomicsHome page
M. Jaquinod, F. Villiers, S. Kieffer-Jaquinod, V. Hugouvieux, C. Bruley, J. Garin, and J. Bourguignon
A Proteomics Dissection of Arabidopsis thaliana Vacuoles Isolated from Cell Culture
Mol. Cell. Proteomics, March 1, 2007; 6(3): 394 - 412.
[Abstract] [Full Text] [PDF]

Home page
 Genome Res.Home page
S. Tanner, Z. Shen, J. Ng, L. Florea, R. Guigo, S. P. Briggs, and V. Bafna
Improving gene annotation using peptide mass spectrometry
Genome Res., February 1, 2007; 17(2): 231 - 239.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
J. L. Heazlewood, R. E. Verboom, J. Tonti-Filippini, I. Small, and A. H. Millar
SUBA: the Arabidopsis Subcellular Database
Nucleic Acids Res., January 12, 2007; 35(suppl_1): D213 - D218.
[Abstract] [Full Text] [PDF]

Home page
 J. Cell Biol.Home page
G. H.H. Borner, M. Harbour, S. Hester, K. S. Lilley, and M. S. Robinson
Comparative proteomics of clathrin-coated vesicles
J. Cell Biol., November 20, 2006; 175(4): 571 - 578.
[Abstract] [Full Text] [PDF]

Home page
 Plant Physiol.Home page
Y. Miao, P. K. Yan, H. Kim, I. Hwang, and L. Jiang
Localization of Green Fluorescent Protein Fusions with the Seven Arabidopsis Vacuolar Sorting Receptors to Prevacuolar Compartments in Tobacco BY-2 Cells
Plant Physiology, November 1, 2006; 142(3): 945 - 962.
[Abstract] [Full Text] [PDF]

Home page
 ScienceHome page
S. Dharmasiri, R. Swarup, K. Mockaitis, N. Dharmasiri, S. K. Singh, M. Kowalchyk, A. Marchant, S. Mills, G. Sandberg, M. J. Bennett, et al.
AXR4 Is Required for Localization of the Auxin Influx Facilitator AUX1
Science, May 26, 2006; 312(5777): 1218 - 1220.
[Abstract] [Full Text] [PDF]