Silas G. Villas-Boas, Jens Nielsen, Jorn Smedsgaard, Michael A. E. Hansen, Ute Roessner-Tunali
Metabolome Analysis (eBook, PDF)
An Introduction
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Silas G. Villas-Boas, Jens Nielsen, Jorn Smedsgaard, Michael A. E. Hansen, Ute Roessner-Tunali
Metabolome Analysis (eBook, PDF)
An Introduction
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Providing information on the main approaches for the analysis of metabolites, this textbook: * 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.
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Providing information on the main approaches for the analysis of metabolites, this textbook: * 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.
Produktdetails
- Produktdetails
- Verlag: John Wiley & Sons
- Seitenzahl: 330
- Erscheinungstermin: 20. August 2007
- Englisch
- ISBN-13: 9780470105504
- Artikelnr.: 37290273
- Verlag: John Wiley & Sons
- Seitenzahl: 330
- Erscheinungstermin: 20. August 2007
- Englisch
- ISBN-13: 9780470105504
- Artikelnr.: 37290273
SILAS G. VILLAS-BÔAS, PHD, is a Research Scientist at AgResearch Limited in New Zealand. UTE ROESSNER, PHD, is a Post-Doctoral Fellow at the Australian Centre for Plant Functional Genomics at the University of Melbourne, Australia.? MICHAEL A. E. HANSEN, PHD, is a Post-Doctoral Fellow at BioCentrum-DTU, Technical University of Denmark. JØRN SMEDSGAARD, PHD, is an Associate Professor at the Center for Microbial Biotechnology, BioCentrum-DTU?at the Technical University of Denmark. JENS NIELSEN, PROFESSOR, Dr. techn., PHD, is the Director of the Center for Microbial Biotechnology at the Technical University of Denmark.
PREFACE. LIST OF CONTRIBUTORS. PART I: CONCEPTS AND METHODOLOGY. 1
Metabolomics in Functional Genomics and Systems Biology. 1.1 From genomic
sequencing to functional genomics. 1.2 Systems biology and metabolic
models. 1.3 Metabolomics. 1.4 Future perspectives. 2 The Chemical Challenge
of the Metabolome. 2.1 Metabolites and metabolism. 2.2 The structural
diversity of metabolites. 2.3 The number of metabolites in a biological
system. 2.4 Controlling rates and levels. 2.5 Metabolic channeling or
metabolons. 2.6 Metabolites are arranged in networks that are part of a
cellular interactome. 3 Sampling and Sample Preparation. 3.1 Introduction.
3.2 Quenching--the fi rst step. 3.3 Obtaining metabolites from biological
samples. 3.4 Metabolites in the extracellular medium. 3.5 Improving
detection via sample concentration. 4 Analytical Tools. 4.1 Introduction.
4.2 Choosing a methodology. 4.3 Starting point--samples. 4.4 Principles of
chromatography. 4.5 Chromatographic systems. 4.6 Mass spectrometry. 4.7 The
analytical work-fl ow. 4.8 Data evaluation. 4.9 Beyond the core methods.
4.10 Further reading. 5 Data Analysis. 5.1 Organizing the data. 5.2 Scales
of measurement. 5.3 Data structures. 5.4 Preprocessing of data. 5.5
Deconvolution of spectroscopic data. 5.6 Data standardization
(normalization). 5.7 Data transformations. 5.8 Similarities and distances
between data. 5.9 Clustering techniques. 5.10 Classifi cation techniques.
5.11 Integrated tools for automation, libraries, and data evaluation. PART
II: CASE STUDIES AND REVIEWS. 6 Yeast Metabolomics: The Discovery of New
Metabolic Pathways in Saccharomyces cerevisiae. 6.1 Introduction. 6.2 Brief
description of the methodology used. 6.3 Early discoveries. 6.4 Yeast
stress response gives evidence of alternative pathway for glyoxylate
biosynthesis in S. cerevisiae. 6.5 Biosynthesis of glyoxylate from glycine
in S. cerevisiae. 7 Microbial Metabolomics: Rapid Sampling Techniques to
Investigate Intracellular Metabolite Dynamics--An Overview. 7.1
Introduction. 7.2 Starting with a simple sampling device proposed by
Theobald et al. (1993). 7.3 An improved device reported by Lange et al.
(2001). 7.4 Sampling tube device by Weuster-Botz (1997). 7.5 Fully
automated device by Schaefer et al. (1999). 7.6 The stopped-fl ow technique
by Buziol et al. (2002). 7.7 The BioScope: a system for continuous-pulse
experiments. 7.8 Conclusions and perspectives. 8 Plant Metabolomics. 8.1
Introduction. 8.2 History of plant metabolomics. 8.3 Plants, their
metabolism and metabolomics. 8.4 Specifi c challenges in plant
metabolomics. 8.5 Applications of metabolomics approaches in plant
research. 8.6 Future perspectives. 9 Mass Profi ling of Fungal Extract from
Penicillium Species. 9.1 Introduction. 9.2 Methodology for screening of
fungi by DiMS. 9.3 Discussion. 9.4 Conclusion. 10 Metabolomics in Humans
and Other Mammals. 10.1 Introduction. 10.2 A brief history of mammalian
metabolomics. 10.3 Sample preparation for mammalian metabolomics studies.
10.4 Sample analysis. 10.5 Applications. 10.6 Future outlook. INDEX.
Metabolomics in Functional Genomics and Systems Biology. 1.1 From genomic
sequencing to functional genomics. 1.2 Systems biology and metabolic
models. 1.3 Metabolomics. 1.4 Future perspectives. 2 The Chemical Challenge
of the Metabolome. 2.1 Metabolites and metabolism. 2.2 The structural
diversity of metabolites. 2.3 The number of metabolites in a biological
system. 2.4 Controlling rates and levels. 2.5 Metabolic channeling or
metabolons. 2.6 Metabolites are arranged in networks that are part of a
cellular interactome. 3 Sampling and Sample Preparation. 3.1 Introduction.
3.2 Quenching--the fi rst step. 3.3 Obtaining metabolites from biological
samples. 3.4 Metabolites in the extracellular medium. 3.5 Improving
detection via sample concentration. 4 Analytical Tools. 4.1 Introduction.
4.2 Choosing a methodology. 4.3 Starting point--samples. 4.4 Principles of
chromatography. 4.5 Chromatographic systems. 4.6 Mass spectrometry. 4.7 The
analytical work-fl ow. 4.8 Data evaluation. 4.9 Beyond the core methods.
4.10 Further reading. 5 Data Analysis. 5.1 Organizing the data. 5.2 Scales
of measurement. 5.3 Data structures. 5.4 Preprocessing of data. 5.5
Deconvolution of spectroscopic data. 5.6 Data standardization
(normalization). 5.7 Data transformations. 5.8 Similarities and distances
between data. 5.9 Clustering techniques. 5.10 Classifi cation techniques.
5.11 Integrated tools for automation, libraries, and data evaluation. PART
II: CASE STUDIES AND REVIEWS. 6 Yeast Metabolomics: The Discovery of New
Metabolic Pathways in Saccharomyces cerevisiae. 6.1 Introduction. 6.2 Brief
description of the methodology used. 6.3 Early discoveries. 6.4 Yeast
stress response gives evidence of alternative pathway for glyoxylate
biosynthesis in S. cerevisiae. 6.5 Biosynthesis of glyoxylate from glycine
in S. cerevisiae. 7 Microbial Metabolomics: Rapid Sampling Techniques to
Investigate Intracellular Metabolite Dynamics--An Overview. 7.1
Introduction. 7.2 Starting with a simple sampling device proposed by
Theobald et al. (1993). 7.3 An improved device reported by Lange et al.
(2001). 7.4 Sampling tube device by Weuster-Botz (1997). 7.5 Fully
automated device by Schaefer et al. (1999). 7.6 The stopped-fl ow technique
by Buziol et al. (2002). 7.7 The BioScope: a system for continuous-pulse
experiments. 7.8 Conclusions and perspectives. 8 Plant Metabolomics. 8.1
Introduction. 8.2 History of plant metabolomics. 8.3 Plants, their
metabolism and metabolomics. 8.4 Specifi c challenges in plant
metabolomics. 8.5 Applications of metabolomics approaches in plant
research. 8.6 Future perspectives. 9 Mass Profi ling of Fungal Extract from
Penicillium Species. 9.1 Introduction. 9.2 Methodology for screening of
fungi by DiMS. 9.3 Discussion. 9.4 Conclusion. 10 Metabolomics in Humans
and Other Mammals. 10.1 Introduction. 10.2 A brief history of mammalian
metabolomics. 10.3 Sample preparation for mammalian metabolomics studies.
10.4 Sample analysis. 10.5 Applications. 10.6 Future outlook. INDEX.
PREFACE. LIST OF CONTRIBUTORS. PART I: CONCEPTS AND METHODOLOGY. 1
Metabolomics in Functional Genomics and Systems Biology. 1.1 From genomic
sequencing to functional genomics. 1.2 Systems biology and metabolic
models. 1.3 Metabolomics. 1.4 Future perspectives. 2 The Chemical Challenge
of the Metabolome. 2.1 Metabolites and metabolism. 2.2 The structural
diversity of metabolites. 2.3 The number of metabolites in a biological
system. 2.4 Controlling rates and levels. 2.5 Metabolic channeling or
metabolons. 2.6 Metabolites are arranged in networks that are part of a
cellular interactome. 3 Sampling and Sample Preparation. 3.1 Introduction.
3.2 Quenching--the fi rst step. 3.3 Obtaining metabolites from biological
samples. 3.4 Metabolites in the extracellular medium. 3.5 Improving
detection via sample concentration. 4 Analytical Tools. 4.1 Introduction.
4.2 Choosing a methodology. 4.3 Starting point--samples. 4.4 Principles of
chromatography. 4.5 Chromatographic systems. 4.6 Mass spectrometry. 4.7 The
analytical work-fl ow. 4.8 Data evaluation. 4.9 Beyond the core methods.
4.10 Further reading. 5 Data Analysis. 5.1 Organizing the data. 5.2 Scales
of measurement. 5.3 Data structures. 5.4 Preprocessing of data. 5.5
Deconvolution of spectroscopic data. 5.6 Data standardization
(normalization). 5.7 Data transformations. 5.8 Similarities and distances
between data. 5.9 Clustering techniques. 5.10 Classifi cation techniques.
5.11 Integrated tools for automation, libraries, and data evaluation. PART
II: CASE STUDIES AND REVIEWS. 6 Yeast Metabolomics: The Discovery of New
Metabolic Pathways in Saccharomyces cerevisiae. 6.1 Introduction. 6.2 Brief
description of the methodology used. 6.3 Early discoveries. 6.4 Yeast
stress response gives evidence of alternative pathway for glyoxylate
biosynthesis in S. cerevisiae. 6.5 Biosynthesis of glyoxylate from glycine
in S. cerevisiae. 7 Microbial Metabolomics: Rapid Sampling Techniques to
Investigate Intracellular Metabolite Dynamics--An Overview. 7.1
Introduction. 7.2 Starting with a simple sampling device proposed by
Theobald et al. (1993). 7.3 An improved device reported by Lange et al.
(2001). 7.4 Sampling tube device by Weuster-Botz (1997). 7.5 Fully
automated device by Schaefer et al. (1999). 7.6 The stopped-fl ow technique
by Buziol et al. (2002). 7.7 The BioScope: a system for continuous-pulse
experiments. 7.8 Conclusions and perspectives. 8 Plant Metabolomics. 8.1
Introduction. 8.2 History of plant metabolomics. 8.3 Plants, their
metabolism and metabolomics. 8.4 Specifi c challenges in plant
metabolomics. 8.5 Applications of metabolomics approaches in plant
research. 8.6 Future perspectives. 9 Mass Profi ling of Fungal Extract from
Penicillium Species. 9.1 Introduction. 9.2 Methodology for screening of
fungi by DiMS. 9.3 Discussion. 9.4 Conclusion. 10 Metabolomics in Humans
and Other Mammals. 10.1 Introduction. 10.2 A brief history of mammalian
metabolomics. 10.3 Sample preparation for mammalian metabolomics studies.
10.4 Sample analysis. 10.5 Applications. 10.6 Future outlook. INDEX.
Metabolomics in Functional Genomics and Systems Biology. 1.1 From genomic
sequencing to functional genomics. 1.2 Systems biology and metabolic
models. 1.3 Metabolomics. 1.4 Future perspectives. 2 The Chemical Challenge
of the Metabolome. 2.1 Metabolites and metabolism. 2.2 The structural
diversity of metabolites. 2.3 The number of metabolites in a biological
system. 2.4 Controlling rates and levels. 2.5 Metabolic channeling or
metabolons. 2.6 Metabolites are arranged in networks that are part of a
cellular interactome. 3 Sampling and Sample Preparation. 3.1 Introduction.
3.2 Quenching--the fi rst step. 3.3 Obtaining metabolites from biological
samples. 3.4 Metabolites in the extracellular medium. 3.5 Improving
detection via sample concentration. 4 Analytical Tools. 4.1 Introduction.
4.2 Choosing a methodology. 4.3 Starting point--samples. 4.4 Principles of
chromatography. 4.5 Chromatographic systems. 4.6 Mass spectrometry. 4.7 The
analytical work-fl ow. 4.8 Data evaluation. 4.9 Beyond the core methods.
4.10 Further reading. 5 Data Analysis. 5.1 Organizing the data. 5.2 Scales
of measurement. 5.3 Data structures. 5.4 Preprocessing of data. 5.5
Deconvolution of spectroscopic data. 5.6 Data standardization
(normalization). 5.7 Data transformations. 5.8 Similarities and distances
between data. 5.9 Clustering techniques. 5.10 Classifi cation techniques.
5.11 Integrated tools for automation, libraries, and data evaluation. PART
II: CASE STUDIES AND REVIEWS. 6 Yeast Metabolomics: The Discovery of New
Metabolic Pathways in Saccharomyces cerevisiae. 6.1 Introduction. 6.2 Brief
description of the methodology used. 6.3 Early discoveries. 6.4 Yeast
stress response gives evidence of alternative pathway for glyoxylate
biosynthesis in S. cerevisiae. 6.5 Biosynthesis of glyoxylate from glycine
in S. cerevisiae. 7 Microbial Metabolomics: Rapid Sampling Techniques to
Investigate Intracellular Metabolite Dynamics--An Overview. 7.1
Introduction. 7.2 Starting with a simple sampling device proposed by
Theobald et al. (1993). 7.3 An improved device reported by Lange et al.
(2001). 7.4 Sampling tube device by Weuster-Botz (1997). 7.5 Fully
automated device by Schaefer et al. (1999). 7.6 The stopped-fl ow technique
by Buziol et al. (2002). 7.7 The BioScope: a system for continuous-pulse
experiments. 7.8 Conclusions and perspectives. 8 Plant Metabolomics. 8.1
Introduction. 8.2 History of plant metabolomics. 8.3 Plants, their
metabolism and metabolomics. 8.4 Specifi c challenges in plant
metabolomics. 8.5 Applications of metabolomics approaches in plant
research. 8.6 Future perspectives. 9 Mass Profi ling of Fungal Extract from
Penicillium Species. 9.1 Introduction. 9.2 Methodology for screening of
fungi by DiMS. 9.3 Discussion. 9.4 Conclusion. 10 Metabolomics in Humans
and Other Mammals. 10.1 Introduction. 10.2 A brief history of mammalian
metabolomics. 10.3 Sample preparation for mammalian metabolomics studies.
10.4 Sample analysis. 10.5 Applications. 10.6 Future outlook. INDEX.