Plant fungal pathogens : methods and protocols / edited by Melvin D. Bolton, Bart P.H.J. Thomma. — New York : Humana Press, c2012. – (58.17/M592/v.835)

Contents

    CONTENTS
    
    Preface
    Contributors
    1 Fungal ABC Transporter Deletion and Localization Analysis 1
    2 Targeted Gene Replacement in Fungal Pathogens via Agrobacterium tumefaciens-Mediated Transformation 17
    3 Activity-Based Protein Profiling of Infected Plants
    4 The Use of Agroinfiltration for Transient Expression of Plant Resistance and Fungal Effector Proteins in Nicotiana benthamiana Leaves 61
    5 Proteomic Techniques for Plant-Fungal Interactions 75
    6 Identification of HR-Inducing cDNAs from Plant Pathogens via a Gateway-Compatible Binary Potato Virus X-Expression Vector
    7 Freeze-Fracture of Infected Plant Leaves in Ethanol for Scanning Electron Microscopic Study of Fungal Pathogens 107
    8 Real-Time PCR for the Quantification of Fungi In Planta 121
    9 Using Non-homologous End-Joining-Deficient Strains for Functional Gene Analyses in Filamentous Fungi 133
    10 Atomic Force Microscopy: A Tool for Studying Biophysical Surface Properties Underpinning Fungal Interactions with Plants and Substrates 151
    11 Use of the Yeast Two-Hybrid System to Identify Targets of Fungal Effectors 165
    12 Characterization of Plant-Fungal Interactions Involving Necrotrophic Effector-Producing Plant Pathogens 191
    13 Heterologous Production of Fungal Effectors in Pichiapastoris 209
    14 The Application of Laser Microdissection to Profiling Fungal Pathogen Gene Expression in planta 219
    15 Metabolomics Protocols for Filamentous Fungi 237
    16 Targeted Gene Replacement in Fungi Using a Split-Marker Approach 255
    17 Massively Parallel Sequencing Technology in Pathogenic Microbes 271
    18 Confocal Microscopy in Plant-Pathogen Interactions 295
    19 The Use of Open Source Bioinformatics Tools to Dissect Transcriptomic Data 311
    20 Population Biology of Fungal Plant Pathogens 333
    21 Polyethylene Glycol (PEG)-Mediated Transformation in Filamentous Fungal Pathogens
    22 In Vitro Induction of Infection-Related Hyphal Structures in Plant Pathogenic Fungi 377
    23 Fungicide Resistance Assays for Fungal Plant Pathogens 385
    24 Identification of Lipid-Binding Effectors.
    25 In Silico Identification and Characterization of Effector Catalogs 415
    26 Horizontal Transfer of Supernumerary Chromosomes in Fungi 427
    27 The Induction of Mycotoxins by Trichothecene Producing Fusarium Species 439
    28 Identifying Genes in Fusarium verticillioides Through Forward and Reverse Genetics 457
    29 Assessment of Autophagosome Formation by Transmission Electron Microscopy 481
    30 Fungal Plant Pathogen Detection in Plant and Soil Samples Using DNA Macroarrays
    31 Random Insertional Mutagenesis in Fungal Genomes to Identify Virulence Factors
    32 A Yeast Secretion Trap Assay for Identification of Secreted Proteins from Eukaryotic Phytopathogens and Their Plant Hosts 519
    33 Comparing Fungal Genomes: Insight into Functional and Evolutionary Processes
    34 Multigene Phylogenetic Analyses to Delimit New Species in Fungal Plant Pathogens
    35 MAP Kinase Phosphorylation and cAMP Assessment in Fungi 571
    36 A One-Step Affinity-Purification Protocol to Purify NB-LRR Immune Receptors from Plants That Mediate Resistance to Fungal Pathogens 585
    37 Karyotyping Methods for Fungi 591
    38 Isolation of Apoplastic Fluid from Leaf Tissue by the Vacuum Infiltration- Centrifugation Technique 603
    39 Gene Cloning Using Degenerate Primers and Genome Walking 611
    40 Construction of Hairpin RNA-Expressing Vectors for RNA-Mediated Gene Silencing in Fungi 623
    41 An Unbiased Method for the Quantitation of Disease Phenotypes Using a Custom-Built Macro Plugin for the Program ImageJ 635
    Index 645