Multidimensional proteomic analysis of the soluble subproteome of the emerging nosocomial pathogen Ochrobactrum anthropi

Robert Leslie James Graham*, Catherine E. Pollock, S. Naomi O'Loughlin, Nigel G. Ternan, D. Brent Weatherly, Philip J. Jackson, Rick L. Tarleton, Geoff McMullan

*Corresponding author for this work

Research output: Contribution to journalArticle

13 Citations (Scopus)

Abstract

We report the first large-scale gel-free proteomic analysis of the soluble subproteome of the emerging pathogen Ochrobactrum anthropi. Utilizing our robust offline multidimensional protein identification protocol, a total of 57 280 peptides were initially identified utilizing automated MS/MS analysis software. We describe our investigation of the heuristic protein validation tool PROVALT and demonstrate its ability to increase the speed and accuracy of the curation process of large-scale proteomic datasets. PROVALT reduced our peptide list to 8517 identified peptides and further manual curation of these peptides led to a final list of 984 uniquely identified peptides that resulted in the positive identification of 249 proteins. These identified proteins were functionally classified and physiochemically characterized. A variety of typical "housekeeping" functions identified within the proteome included nucleic acid, amino and fatty acid anabolism and catabolism, glycolysis, TCA cycle, and pyruvate and selenoamino acid metabolism. In addition, a number of potential virulence factors of relevance to both plant and human disease were identified.

Original languageEnglish
Pages (from-to)3145-3153
Number of pages9
JournalJournal of Proteome Research
Volume5
Issue number11
DOIs
Publication statusPublished - Nov 2006

Keywords

  • 2D LC-MS/MS
  • Ochrobactrum anthropi
  • Pathogen
  • Proteomics

ASJC Scopus subject areas

  • Genetics
  • Biotechnology
  • Biochemistry

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