Providing information on the main approaches for the analysis of metabolites, Metabolome Analysis:

• Covers basic methodologies in sample preparation and separation techniques, as well as the most recent techniques of mass spectrometry
• Differentiates between primary and secondary metabolites
• Includes four chapters discussing successful metabolome studies of different organisms
• Highlights the analytical challenges of studying metabolites
• Illustrates applications of metabolome analysis through the use of case studies

Contents

Part I: Concepts and Methodology

Metabolomics in Functional Genomics and Systems Biology

• From genomic sequencing to functional genomics
• Systems biology and metabolic models
• Metabolomics

The Chemical Challenge of the Metabolome

• Metabolites and metabolism
• The structural diversity of metabolites
• The number of metabolites in a biological system
• Controlling rates and levels
• Metabolic channeling or metabolons
• Metabolites are arranged in networks that are part of a cellular interactome

Sampling and Sample Preparation

• Quenching—the first step
• Obtaining metabolites from biological samples
• Metabolites in the extracellular medium
• Improving detection via sample concentration

Analytical Tools

• Choosing a methodology
• Starting point—samples
• Principles of chromatography
• Chromatographic systems
• Mass spectrometry
• The analytical work-flow
• Data evaluation\
• Beyond the core methods

Data Analysis

• Organizing the data
• Scales of measurement
• Data structures
• Preprocessing of data
• Deconvolution of spectroscopic data.
• Data standardization (normalization)
• Data transformations
• Similarities and distances between data
• Clustering techniques
• Classification techniques
• Integrated tools for automation, libraries, and data evaluation

Part II: Case Studies and Reviews

Yeast Metabolomics: The Discovery of New Metabolic Pathways in Saccharomyces cerevisiae

• Brief description of the methodology used
• Early discoveries
• Yeast stress response gives evidence of alternative pathway for glyoxylate biosynthesis in S. cerevisiae
• Biosynthesis of glyoxylate from glycine in S. cerevisiae

Microbial Metabolomics: Rapid Sampling Techniques to Investigate Intracellular Metabolite Dynamics—An Overview

• Starting with a simple sampling device proposed by Theobald et al. (1993)
• An improved device reported by Lange et al. (2001)
• Sampling tube device by Weuster-Botz (1997)
• Fully automated device by Schaefer et al. (1999)
• The stopped-fl ow technique by Buziol et al. (2002)
• The BioScope: a system for continuous-pulse experiments
• Conclusions and perspectives

Plant Metabolomics

• History of plant metabolomics
• Plants, their metabolism and metabolomics
• Specifi c challenges in plant metabolomics
• Applications of metabolomics approaches in plant research

Mass Profi ling of Fungal Extract from Penicillium Species

• Methodology for screening of fungi by DiMS.
• Discussion

Metabolomics in Humans and Other Mammals

• A brief history of mammalian metabolomics
• Sample preparation for mammalian metabolomics studies
• Sample analysis
• Applications

Index

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