Monitoring Forest Damage with Mass Spectrometry-Based Metabolomics Methods / / edited by Carla Antonio, Dominic M. Desiderio, and Joseph A. Loo

• Pubblicazione: Hoboken, New Jersey : , : John Wiley & Sons, Inc., , [2024]; ©2024
• Edizione: First edition.
• Descrizione fisica: 1 online resource (467 pages)
• Disciplina: 634.9072
• Soggetto topico: Forests and forestry - Research; Metabolites; Mass spectrometry
• Persona (resp. second.): AntonioCarla; DesiderioDominic M.; LooJoseph A.
• Nota di bibliografia: Includes bibliographical references and index.
• Nota di contenuto: Cover -- Title Page -- Copyright -- Contents -- List of Contributors -- Preface -- Chapter 1 Forest Tree Metabolomics Under a Changing Climate -- 1.1 Introduction -- 1.2 Forest Damage -- 1.2.1 Abiotic Forest Damage -- 1.2.2 Biotic Forest Damage -- 1.3 Forest Tree Metabolomics -- 1.4 Conclusion and Future Perspectives -- References -- Chapter 2 Experimental Methodology for Clonal Forest Research -- 2.1 Introduction -- 2.2 Defining the Objectives of an Experiment -- 2.3 Sampling Strategies to Represent the Species -- 2.4 Planning and Establishing the Experimental Design -- 2.5 Examples of the Implementation of Field Trials to Quantify Genetic Variability within a Species -- 2.5.1 Pinus pinea L. in Portugal -- 2.5.2 Pinus pinaster Aiton in Portugal -- 2.6 Statistical Analysis and Quantification of Genetic Variability within a Species -- 2.6.1 Statistical Analysis -- 2.6.2 Genetic Parameters -- 2.6.2.1 Quantification of Genetic Variability within a Species -- 2.6.2.2 Broad‐Sense Heritability -- 2.6.2.3 Selection and Genetic Gain -- 2.7 Conclusions -- Acknowledgments -- References -- Chapter 3 Sample Preparation for Forest Tree Metabolomics -- 3.1 Experimental Design for Metabolomics -- 3.2 Sampling and Quenching of Tree Tissue Material -- 3.2.1 Leaf Sampling -- 3.2.2 Wood Tissue Sampling -- 3.2.3 Phloem Sap Sampling -- 3.2.4 Xylem Sap Sampling -- 3.2.5 Root Sampling -- 3.2.6 Techniques for Separating Cell Types in Complex Tissues -- 3.2.6.1 Laser‐assisted Microdissection -- 3.2.6.2 Fluorescence‐activated Cell Sorting -- 3.2.7 Measuring Metabolites Without Cell or Tissue Separation -- 3.3 Labeling of Tree Tissues -- 3.3.1 C‐labeling -- 3.3.1.1 Labeling of Whole Trees -- 3.3.1.2 Labeling of Tree Tissues -- 3.3.2 N‐labeling -- 3.3.2.1 Labeling Through the Canopy of Whole Trees -- 3.3.2.2 Labeling Through Roots of Whole Trees -- 3.3.2.3 Stem Injection. ; 3.3.3 Dual Labeling of C and N -- 3.4 Metabolite Extraction and Mass Spectrometry‐Based Metabolite Analysis -- 3.4.1 Untargeted and Targeted Metabolomics -- 3.4.2 Chemical Derivatization Methods -- 3.5 Conclusions -- References -- Chapter 4 Systems Biology as a Tool to Uncover Interdisciplinary Links within the Complex Forest Tree System -- 4.1 Systems Biology -- 4.2 Strategies for Data Integration and Network Analysis -- 4.2.1 Element‐Based Integration -- 4.2.2 Pathway‐Based Integration -- 4.2.3 Mathematical Integration -- 4.2.4 Integration of Transcriptomics and Metabolomics Data -- 4.2.5 Integration of Proteomics and Metabolomics Data -- 4.2.6 Integration of Multi‐omics Data -- 4.3 Integration of Genomics and Metabolomics Data -- 4.3.1 Linkage Analysis -- 4.3.2 Genome‐wide Association Studies -- 4.3.3 Genomic Selection -- 4.4 Systems Biology to Provide Clues for Metabolite Annotation in Different Tree Species in Recent Years -- 4.5 Challenges in Integrating Metabolomics and Other Omics -- 4.6 Conclusion and Future Perspectives -- References -- Chapter 5 A Workflow for Metabolomics of Forest Tree Biotic Stress Response and Applications for Management -- 5.1 Introduction -- 5.2 Methods -- 5.2.1 Research Question -- 5.2.2 Sample Selection and Processing -- 5.2.3 Analytical Methods -- 5.2.4 Chemometrics -- 5.2.5 Pre‐processing -- 5.2.6 Classification -- 5.2.7 Regression -- 5.2.8 Variable Selection -- 5.2.9 Validation -- 5.2.10 Available Tools for Analyzing Metabolomics Data -- 5.3 Application -- 5.3.1 Detection of Diseased and Pest‐Infected Trees -- 5.3.2 Identifying Resistant Trees -- 5.3.3 Landscape‐Level Applications -- 5.4 Case Studies -- 5.4.1 Ash -- 5.4.2 Oak -- 5.4.3 Pine -- 5.5 Conclusions and Future Perspectives -- Acknowledgments -- References -- Chapter 6 Analysis of Volatile Organic Compounds -- 6.1 Plant Volatile Organic Compounds. ; 6.1.1 Ecological and Physiological Functions of Plant VOCs -- 6.1.1.1 VOCs and Biotic Stresses -- 6.1.1.2 VOCs and Abiotic Stresses -- 6.1.2 Controls of Plant VOC Emissions -- 6.1.2.1 Constitutive VOC Emissions -- 6.1.2.2 Stress‐Induced VOC Emissions -- 6.2 Methodologies for Detecting Plant VOCs -- 6.2.1 Static Headspace Analysis -- 6.2.2 Dynamic Headspace Analysis -- 6.2.3 Eddy Covariance -- 6.3 Analytical Systems for Measuring Plant VOCs -- 6.3.1 Thermal Desorption Gas Chromatography Mass Spectrometry -- 6.3.1.1 Sample Collection -- 6.3.1.2 TD-GC-MS Measurements -- 6.3.1.3 Qualitative Analysis -- 6.3.1.4 Blank Measurements -- 6.3.1.5 Internal Standard -- 6.3.1.6 Quantitative Analysis -- 6.3.1.7 Deconvolution -- 6.3.1.8 Applications of TD-GC-MS in Plant VOC Analysis -- 6.3.2 Proton Transfer Reaction Mass Spectrometry -- 6.3.2.1 General Principles and Analytical Instrument Development -- 6.3.2.2 Quantification of VOC Concentrations: Direct Calibration and Theoretical Calculation -- 6.3.2.3 Application of PTR-MS in Plant VOCs Analysis -- 6.3.2.4 Computational Approaches to Analyze PTR-MS Data -- 6.4 Concluding Remarks and Future Perspectives -- References -- Chapter 7 Assessing Specialized Metabolites in Tree Bark Using Wide‐Targeted LC-MS Analysis -- 7.1 Introduction -- 7.2 Materials and Methods -- 7.2.1 Plant Cultivation and Sampling -- 7.2.2 Sample Aliquoting -- 7.2.3 Extraction of Specialized Metabolites from Tree Bark Tissue -- 7.2.4 LC-MS Analysis of Polar Fractions -- 7.3 Data Analysis -- 7.3.1 Peak Evaluation -- 7.3.2 Peak Annotation -- 7.3.2.1 Tandem Mass Spectrometry (MS/MS, MSn) -- 7.3.2.2 Reference Plant Compounds and Extracts with Literature Data -- 7.3.2.3 Database Search -- 7.3.2.4 Mutant Analysis -- 7.3.2.5 Peak Annotation by the Prediction of Pathway -- 7.4 Data Interpretation -- 7.5 Conclusions and Future Perspectives -- References. ; Chapter 8 Plant Hormone Analysis in Forest Tree Species -- 8.1 Importance of Forest Tree Species -- 8.2 Plant Hormones and Their Roles in Plant Physiology, Biochemistry, and Development -- 8.2.1 Main Plant Hormones Involved in the Interaction of Plants with Their Environment -- 8.3 Forest Tree Sampling -- 8.3.1 Issues Related to Forest Tree Population Structure and Distribution -- 8.3.2 Practical Aspects Related to Forest Tree Tissue Harvesting and Preservation -- 8.3.3 Important Considerations Regarding the Extraction of Plant Hormones -- 8.4 Analytical Methods for Plant Hormone Analysis and Profiling -- 8.5 Applications of Plant Hormone Profiling to Understand Forest Tree Physiology -- 8.6 Future Prospects in Plant Hormone Analysis -- Acknowledgments -- References -- Chapter 9 Metabolomics of Nutrient‐Deprived Forest Trees -- 9.1 Introduction -- 9.2 Macronutrient Deficiency and Wood Production -- 9.2.1 Nitrogen -- 9.2.2 Phosphorus -- 9.2.3 Potassium -- 9.2.4 Calcium -- 9.2.5 Sulphur -- 9.2.6 Magnesium -- 9.2.7 Micronutrients -- 9.3 General Use of Mass Spectrometry‐Based Metabolomics to Study Wood -- 9.4 Tree Nutrition and Metabolome -- 9.4.1 Nitrogen -- 9.4.2 Phosphorus -- 9.4.3 Potassium -- 9.4.4 Mycorrhization -- 9.5 Final Remarks -- Acknowledgments -- References -- Chapter 10 The Impact of Drought on Plant Metabolism in Quercus Species - From Initial Response to Recovery -- 10.1 Introduction -- 10.2 Primary Metabolic Pathways and Metabolite Levels -- 10.2.1 Changes in Leaf Metabolism with Drought Stress Intensity -- 10.2.2 Variation Among Organs - Mobilization of Carbohydrates as a Mechanism of Drought Acclimation -- 10.3 Secondary Metabolic Pathways and Metabolite Levels -- 10.4 The Transport of Metabolites within the Plant - Transport Rates and Sap Composition -- 10.5 The Release of Metabolites Outside the Plant -- 10.5.1 Root Exudates. ; 10.5.2 Volatile Organic Compounds -- 10.6 Conclusions -- References -- Further Reading/Resources -- Chapter 11 Metabolomics of Forest Tree Responses to Fluctuations of Temperature and Elevated Atmospheric CO2 -- 11.1 Introduction -- 11.2 Metabolic Response of Trees to Temperature Changes -- 11.3 Temperature Effect on Primary Metabolism -- 11.3.1 Carbohydrates and Photosynthesis -- 11.3.2 Respiratory Metabolism -- 11.3.3 Amino Acids and Proteins -- 11.4 Temperature Effect on Secondary Metabolism -- 11.4.1 Oxidative Stress -- 11.4.2 Phenylpropanoid Pathway -- 11.4.3 Lignin and Cell Wall -- 11.4.4 Disease Response to Abiotic (Heat) Stress -- 11.5 Effects of Elevated CO2 on Tree Metabolism -- 11.5.1 CO2 Fixation in Plants and Climate Predictions about Atmospheric CO2 -- 11.5.2 Elevated CO2 and Plant Metabolism -- 11.5.3 Elevated CO2 and Tree Metabolism -- 11.6 CO2 Effects on Isoprene Emissions -- 11.7 CO2 and Plant Productivity -- 11.8 Acclimation After a Long Period of CO2 Exposure -- 11.9 The Interactive Effect of Elevated CO2 and High Temperature in Trees -- 11.10 Conclusions and Future Perspectives -- Acknowledgments -- References -- Chapter 12 Integration of Primary Metabolism with Physiological and Anatomical Data to Assess Dutch Elm Disease Susceptibility in Three Elm Species - A Case Study -- 12.1 Impacts of Dutch Elm Disease on Plant Metabolism and Its Modulation by Climate -- 12.2 Material and Methods -- 12.2.1 Plant Material and Experimental Design -- 12.2.2 O. novo‐ulmi Inoculation -- 12.2.3 Measurements -- 12.2.3.1 Stomatal Conductance -- 12.2.3.2 Crown Wilting -- 12.2.3.3 Primary Metabolites -- 12.2.3.4 Xylem Anatomy -- 12.2.4 Data Analysis -- 12.3 Results -- 12.3.1 Drought Effects on Stomatal Conductance, Xylem Anatomy, and Primary Metabolism -- 12.3.2 Impact of O. novo‐ulmi on Crown Wilting, Xylem Anatomy, and Primary Metabolism. ; 12.4 Discussion.
• Sommario/riassunto: "This book covers the challenges and resources mass spectrometry-based metabolomics provides in support of forest tree research, with the goal to better understand the mechanisms and metabolic landscapes (i.e., primary and secondary metabolites, including phytohormones, and other specialized secondary metabolites) of forest tree species in response to our undeniably-changing climate. This book focuses on many economically- and ecologically-important forest tree genera such as Pinus, Populus, Picea, Eucalyptus, Quercus, Castanea, and Ulmus."--
• Titolo autorizzato: Monitoring Forest Damage with Mass Spectrometry-Based Metabolomics Methods
• ISBN: 1-119-86875-0; 1-119-86873-4
• Formato: Materiale a stampa
• Livello bibliografico: Monografia
• Lingua di pubblicazione: Inglese
• Record Nr.: 9910830531103321
• Lo trovi qui: Univ. Federico II
• Serie: Wiley series on methods and applications in data mining.