Differential Label-free Quantitative Proteomic Analysis of Shewanella oneidensis Cultured under Aerobic and Suboxic Conditions by Accurate Mass and Time Tag Approach

We describe the application of LC-MS without the use of stable isotope labeling for differential quantitative proteomic analysis of whole cell lysates of Shewanella oneidensis MR-1 cultured under aerobic and suboxic conditions. LC-MS/MS was used to initially identify peptide sequences, and LC-FTICR...

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Bibliographic Details
Published in:	Molecular & cellular proteomics Vol. 5; no. 4; pp. 714 - 725
Main Authors:	Fang, Ruihua, Elias, Dwayne A., Monroe, Matthew E., Shen, Yufeng, Mcintosh, Martin, Wang, Pei, Goddard, Carrie D., Callister, Stephen J., Moore, Ronald J., Gorby, Yuri A., Adkins, Joshua N., Fredrickson, Jim K., Lipton, Mary S., Smith, Richard D.
Format:	Journal Article
Language:	English
Published:	United States Elsevier Inc 01-04-2006 American Society for Biochemistry and Molecular Biology
Subjects:	Amino Acid Sequence Bacterial Proteins - metabolism Chromatography, Liquid Mass Spectrometry Molecular Sequence Data Oxygen - metabolism Proteomics Shewanella - growth & development Shewanella - metabolism Shewanella oneidensis
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Summary:	We describe the application of LC-MS without the use of stable isotope labeling for differential quantitative proteomic analysis of whole cell lysates of Shewanella oneidensis MR-1 cultured under aerobic and suboxic conditions. LC-MS/MS was used to initially identify peptide sequences, and LC-FTICR was used to confirm these identifications as well as measure relative peptide abundances. 2343 peptides covering 668 proteins were identified with high confidence and quantified. Among these proteins, a subset of 56 changed significantly using statistical approaches such as statistical analysis of microarrays, whereas another subset of 56 that were annotated as performing housekeeping functions remained essentially unchanged in relative abundance. Numerous proteins involved in anaerobic energy metabolism exhibited up to a 10-fold increase in relative abundance when S. oneidensis was transitioned from aerobic to suboxic conditions.
Bibliography:	ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23 USDOE Office of Science (SC), Biological and Environmental Research (BER)
ISSN:	1535-9476 1535-9484
DOI:	10.1074/mcp.M500301-MCP200