Laboratory Protocols in Fungal Biology: Current Methods in Fungal Biology

Front Matter....Pages i-xxv
Safety Norms and Regulations in Handling Fungal Specimens....Pages 1-7
Methods of Cryopreservation in Fungi....Pages 9-16
Long-Term Preservation of Fungal Cultures in All-Russian Collection of Microorganisms (VKM): Protocols and Results....Pages 17-65
Fungal Specimen Collection and Processing....Pages 67-72
Chemical and Molecular Methods for Detection of Toxigenic Fungi and Their Mycotoxins from Major Food Crops....Pages 73-90
Identification Key for the Major Growth Forms of Lichenized Fungi....Pages 91-112
Microscopic Methods for Analytical Studies of Fungi....Pages 113-131
Scanning Electron Microscopy for Fungal Sample Examination....Pages 133-150
High-Resolution Imaging and Force Spectroscopy of Fungal Hyphal Cells by Atomic Force Microscopy....Pages 151-160
Use of Fourier-Transform Infrared (FTIR) Microscopy Method for Detection of Phyto-Fungal Pathogens....Pages 161-167
Diagnosis of Parasitic Fungi in the Plankton: Technique for Identifying and Counting Infective Chytrids Using Epifluorescence Microscopy....Pages 169-174
Fungal Cell Wall Analysis....Pages 175-196
Histopathological Technique for Detection of Fungal Infections in Plants....Pages 197-200
Development of Media for Growth and Enumeration of Fungi from Water....Pages 201-209
Sabouraud Agar for Fungal Growth....Pages 211-216
A Method for the Formation of Candida Biofilms in 96 Well Microtiter Plates and Its Application to Antifungal Susceptibility Testing....Pages 217-223
Screening for Compounds Exerting Antifungal Activities....Pages 225-230
Fluorescence In Situ Hybridization of Uncultured Zoosporic Fungi....Pages 231-236
Staining Techniques and Biochemical Methods for the Identification of Fungi....Pages 237-257
Protocol for the In Vivo Quantification of Superoxide Radical in Fungi....Pages 259-264
Isolation of Intact RNA from Sorted S. cerevisiae Cells for Differential Gene Expression Analysis....Pages 265-277
Quantitative PCR Analysis of Double-Stranded RNA-Mediated Gene Silencing in Fungi....Pages 279-287
Semi-Nested PCR Approach to Amplify Large 18S rRNA Gene Fragments for PCR-DGGE Analysis of Soil Fungal Communities....Pages 289-298
Proteomic Protocols for the Study of Filamentous Fungi....Pages 299-308
Detection and Quantification of Endoprotease Activity Using a Coomassie Dye-Binding Assay....Pages 309-313
Protocol of a LightCycler™ PCR Assay for Detection and Quantification of Aspergillus fumigatus DNA in Clinical Samples of Neutropenic Patients....Pages 315-320
Application of Polymerase Chain Reaction and PCR-Based Methods Targeting Internal Transcribed Spacer Region for Detection and Species-Level Identification of Fungi....Pages 321-330
Real-Time PCR Assay in Fungi....Pages 331-336
Quantitative Sampling Methods for the Analysis of Fungi: Air Sampling....Pages 337-341
Transformation of Filamentous Fungi in Microtiter Plate....Pages 343-347
Molecular Fingerprinting of Fungal Communities in Soil....Pages 349-356
Development of Microsatellite Markers from Fungal DNA Based on Shotgun Pyrosequencing....Pages 357-362
Multiplex and Quantifiable Detection of Infectious Fungi Using Padlock Probes, General qPCR, and Suspension Microarray Readout....Pages 363-373
Rapid Deletion Plasmid Construction Methods for Protoplast and Agrobacterium -based Fungal Transformation Systems....Pages 375-393
Improved Transformation Method for Alternaria Brassicicola and Its Applications....Pages 395-401
Methods for High-Quality DNA Extraction from Fungi....Pages 403-406
Production of Recombinant Proteins from Pichia pastoris : Interfacing Fermentation and Immobilized Metal Ion Affinity Chromatography....Pages 407-420
Development of a Real-Time Quantitative PCR Assay for the Assessment of Uncultured Zoosporic Fungi....Pages 421-426
Nucleic and Protein Extraction Methods for Fungal Exopolysaccharide Producers....Pages 427-434
Directed Evolution of a Fungal Xylanase for Improvement of Thermal and Alkaline Stability....Pages 435-446
Genome Shuffling Protocol for the Pentose-Fermenting Yeast Scheffersomyces stipitis ....Pages 447-454
Detection and Identification of Fungal Microbial Volatile Organic Compounds by HS-SPME-GC–MS....Pages 455-465
Transformation Methods for Slow-Growing Fungi....Pages 467-473
Enzymatic Saccharification of Lignocellulosic Biomass....Pages 475-481
Protoplast Fusion Techniques in Fungi....Pages 483-488
Large-Scale Production of Lignocellulolytic Enzymes in Thermophilic Fungi....Pages 489-494
Panfungal PCR Method for Detection of Aflatoxigenic Molds....Pages 495-499
Protocols for the Quantification of dsDNA and Its Fragmentation Status in Fungi....Pages 501-504
Rapid Identification and Detection of Pathogenic Fungi by Padlock Probes....Pages 505-517
Drug-Induced Permeabilization in Fungi....Pages 519-522
Extraction and Characterization of Taxol: An Anticancer Drug from an Endophytic and Pathogenic Fungi....Pages 523-527
Identification of Mycotoxigenic Fungi Using an Oligonucleotide Microarray....Pages 529-534
DNA Microarray-Based Detection and Identification of Fungal Specimens....Pages 535-544
Bioinformatic Protocols and the Knowledge-Base for Secretomes in Fungi....Pages 545-557
High-Throughput Functional Annotation and Data Mining of Fungal Genomes to Identify Therapeutic Targets....Pages 559-564
Application of Support Vector Machines in Fungal Genome and Proteome Annotation....Pages 565-577
Bioinformatics Tools for the Multilocus Phylogenetic Analysis of Fungi....Pages 579-592
Back Matter....Pages 593-604