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Published online on August 12, 2002, 10.1073/pnas.172170199
PNAS | August 20, 2002 | vol. 99 | no. 17 | 11049-11054


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From the Cover
Biochemistry
Global analysis of the Deinococcus radiodurans proteome by using accurate mass tags

Mary S. Lipton *, Ljiljana Paa-Toli *, Gordon A. Anderson *, David J. Anderson *, Deanna L. Auberry *, John R. Battista {dagger}, Michael J. Daly {ddagger}, Jim Fredrickson §, Kim K. Hixson *, Heather Kostandarithes ¶, Christophe Masselon *, Lye Meng Markillie ¶, Ronald J. Moore *, Margaret F. Romine §, Yufeng Shen *, Eric Stritmatter *, Nikola Toli *, Harold R. Udseth *, Amudhan Venkateswaran {ddagger}, Kwong-Kwok Wong ¶, Rui Zhao *, and Richard D. Smith * ||

*Environmental Molecular Sciences Laboratory,§ Biogeochemistry, Molecular Biosciences, Pacific Northwest National Laboratory, P.O. Box 999, MSIN: K8-98, Richland, WA 99352; {dagger}Department of Biological Sciences, Louisiana State University, Baton Rouge, LA 70803; and{ddagger} Department of Pathology, Uniformed Services University of the Health Sciences, Bethesda, MD 20814

Edited by Samuel Karlin, Stanford University, Stanford, CA, and approved June 26, 2002 (received for review March 22, 2002)

Understanding biological systems and the roles of their constituents is facilitated by the ability to make quantitative, sensitive, and comprehensive measurements of how their proteome changes, e.g., in response to environmental perturbations. To this end, we have developed a high-throughput methodology to characterize an organism's dynamic proteome based on the combination of global enzymatic digestion, high-resolution liquid chromatographic separations, and analysis by Fourier transform ion cyclotron resonance mass spectrometry. The peptides produced serve as accurate mass tags for the proteins and have been used to identify with high confidence >61% of the predicted proteome for the ionizing radiation-resistant bacterium Deinococcus radiodurans. This fraction represents the broadest proteome coverage for any organism to date and includes 715 proteins previously annotated as either hypothetical or conserved hypothetical.

Abbreviations: LC, liquid chromatography; FTICR, Fourier transform ion cyclotron resonance; PMT, potential mass tag; AMT, accurate mass tag; MS/MS, tandem MS; TCA, tricarboxylic acid cycle; MMA, mass measurement accuracy; log, logarithm; SOD, superoxide dismutase

|| To whom reprint requests should be addressed. E-mail: rds{at}pnl.gov.

This paper was submitted directly (Track II) to the PNAS office.

See commentary on page 10943.


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Related Commentary in PNAS:

New technology may reveal mechanisms of radiation resistance in Deinococcus radiodurans
Jan Mrázek
PNAS 2002 99: 10943-10944. [Extract] [Full Text]  



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