Label-free quantitative proteomics for the extremely thermophilic bacterium Caldicellulosiruptor obsidiansis reveal distinct abundance patterns upon growth on cellobiose, crystalline cellulose, and switchgrass

J Proteome Res. 2011 Dec 2;10(12):5302-14. doi: 10.1021/pr200536j. Epub 2011 Nov 8.

Abstract

Mass spectrometric analysis of Caldicellulosiruptor obsidiansis cultures grown on four different carbon sources identified 65% of the cells' predicted proteins in cell lysates and supernatants. Biological and technical replication together with sophisticated statistical analysis were used to reliably quantify protein abundances and their changes as a function of carbon source. Extracellular, multifunctional glycosidases were significantly more abundant on cellobiose than on the crystalline cellulose substrates Avicel and filter paper, indicating either disaccharide induction or constitutive protein expression. Highly abundant flagellar, chemotaxis, and pilus proteins were detected during growth on insoluble substrates, suggesting motility or specific substrate attachment. The highly abundant extracellular binding protein COB47_0549 together with the COB47_1616 ATPase might comprise the primary ABC-transport system for cellooligosaccharides, while COB47_0096 and COB47_0097 could facilitate monosaccharide uptake. Oligosaccharide degradation can occur either via extracellular hydrolysis by a GH1 β-glycosidase or by intracellular phosphorolysis using two GH94 enzymes. When C. obsidiansis was grown on switchgrass, the abundance of hemicellulases (including GH3, GH5, GH51, and GH67 enzymes) and certain sugar transporters increased significantly. Cultivation on biomass also caused a concerted increase in cytosolic enzymes for xylose and arabinose fermentation.

Publication types

  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Bacterial Proteins / analysis
  • Bacterial Proteins / chemistry*
  • Carbohydrate Metabolism
  • Carbon / chemistry
  • Cellobiose / chemistry*
  • Cellulose / chemistry*
  • Culture Media / chemistry
  • Fermentation
  • Glycoside Hydrolases / chemistry
  • Gram-Positive Bacteria / chemistry*
  • Gram-Positive Bacteria / enzymology
  • Gram-Positive Bacteria / growth & development
  • Mass Spectrometry
  • Poaceae / chemistry*
  • Protein Transport
  • Proteomics / methods*
  • Reproducibility of Results
  • Solubility

Substances

  • Bacterial Proteins
  • Culture Media
  • Cellobiose
  • Carbon
  • Cellulose
  • Glycoside Hydrolases
  • hemicellulase