Laboratory Protocols in Fungal Biology

Laboratory Protocols in Fungal Biology presents the latest techniques in fungal biology. This book analyzes information derived through real experiments, and focuses on cutting edge techniques in the field. The book comprises 57 chapters contributed from internationally recognised scientists and researchers.

Experts in the field have provided up-to-date protocols covering a range of frequently used methods in fungal biology. Almost all important methods available in the area of fungal biology viz. taxonomic keys in fungi; histopathological and microscopy techniques; proteomics methods; genomics methods; industrial applications and related techniques; and bioinformatics tools in fungi are covered and complied in one book.

Chapters include introductions to their respective topics, list of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and notes on troubleshooting. Each chapter is self-contained and written in a style that enables the reader to progress from elementary concepts to advanced research techniques. Laboratory Protocols in Fungal Biology is a valuable tool for both beginner research workers and experienced professionals.

1. Safety Norms and Regulations in Handling Fungal Specimens Finola E. Cliffe
2. Methods of Cryopreservation in FungiLadislav Homolka
3. Long Term Preservation of Fungal Cultures in All-Russian Collection of Microorganisms (VKM): Protocols and Results Svetlana M. Ozerskaya, Natalya E. Ivanushkina, Galina A. Kochkina, Svetlana S. Eremina, Alexander N. Vasilenko, and Nadezhda I. Chigineva
4. Fungal Specimen Collection and Processing. Anthonia O'Donovan, Vijai Kumar Gupta, and Maria G. Tuohy
5. Chemical and Molecular Methods for Detection of Toxigenic Fungi and Their Mycotoxins from Major Food Crops S. Chandra Nayaka, A.C. Udayashankar, M.Venkata Ramana, S.R. Niranjana, C. N. Mortensen, and H.S. Prakash
6. Identification Key for the Major Growth Forms of Lichenized FungiJayabalan Sangeetha and Devarajan Thangadurai
7. Microscopic Methods for Analytical Studies of Fungi De-Wei Li
8. Scanning Electron Microscopy for Fungal Sample Examination Eduardo Alves, Gilvaine Ciavareli Lucas, Edson Ampelio Pozza, and Marcelo de Carvalho Alves
9. High Resolution Imaging and Force Spectroscopy of Fungal Hyphal Cells by Atomic Force Microscopy Tanya Dahms
10. Use of Fourier-Transform Infrared (FTIR) Microscopy Method For Detection of Phyto-Fungal Pathogens Vitaly Erukhimovitch and Mahmoud Huleihel
11. Diagnose of Parasitic Fungi in The Plankton: Technique for Identifying And Counting Infective Chytrids Using Epifluorescence Microscopy Telesphore Sime-Ngando, Serena Rasconi, and Melanie Gerphagnon
12. Fungal Cell Wall Analysis Pilar Perez and Juan C. Ribas
13. Histopathological Technique for Detection of Fungal Infections in Plants Vijai Kumar Gupta and Brejesh Kumar Pandey
14. Development of Media for Growth and Enumeration of Fungi from Water Segula Masaphy
15. Sabouraud Agar for Fungal Growth Janelle M. Hare
16. A Method for the Formation of Candida Biofilms in 96 Well Microtiter Plates and its Application to Antifungal Susceptibility Testing Christopher G. Pierce, Priya Uppuluri, and Jose L. Lopez-Ribot
17. Screening for Compounds Exerting Antifungal Activities Jean-Paul Ouedraogo, Ellen L. Lagendijk, Cees A.M.J.J van den Hondel, Arthur F.J. Ram, and Vera Meyer
18. Fluorescence In situ Hybridization of Uncultured Zoosporic Fungi Telesphore Sime-Ngando, Marlene Jobard, and Serena Rasconi
19. Staining Techniques and Biochemical Methods for the Identification of Fungi Jayabalan Sangeetha and Devarajan Thangadurai
20. Protocol for the In vivo Quantification of Superoxide Radical in Fungi Grintzalis Konstantinos, Papapostolou Ioannis, and Christos Georgiou
21. Isolation of Intact RNA from Sorted S. cerevisiae Cells for Differential Gene Expression Analysis Jeannette Vogt, Frank Stahl, Thomas Scheper, and Susann Muller
22. Quantitative PCR Analysis of Double-Stranded RNA-Mediated Gene Silencing in Fungi Jose Javiar de Vega-Bartol, Maria Vega Tello Hernandez, Jonathan Nino Sanchez, Virginia Casado del Castillo, and Jose M. Diaz-Minguez
23. Semi-nested PCR Approach to Amplify Large 8S rRNA Gene Fragments for PCR-DGGE Analysis of Soil Fungal Communities Miruna Oros-Sichler and Kornelia Smalla
24. Proteomic Protocols for the Study of Filamentous Fungi Raquel Gonzalez Fernandez and Jesus V. Jorrin Novo
25. Detection and Quantification of Endoprotease Activity Using a Coomassie Dye-Binding Assay Anthony J. O'Donoghue and Cathal S. Mahon
26. Protocol of a LightCyclerO PCR Assay for Detection and Quantification of Aspergillus fumigatus DNA in Clinical Samples of Neutropenic Patients Birgit Spiess and Dieter Buchheidt
27. Application of Polymerase Chain Reaction (PCR) and PCR Based Methods Targeting Internal Transcribed Spacer (ITS) for Detection and Species Level Identification of Fungi K. Lily Therese, R. Bagyalakshmi, and H. N. Madhavan
28. Real-Time PCR Assay in Fungi Naomichi Yamamoto
29. Quantitative Sampling Methods for the Analysis of Fungi: Air Sampling Mary C. O'Loughlin, Katherine D. Turner, and Kevin M. Turner
30. Transformation of Filamentous Fungi in Microtiter Plate Bianca Gielesen and Marco van den Berg
31. Molecular Fingerprinting of Fungal Communities in Soil Roberto A. Geremia and Lucie Zinger
32. Development of Microsatellite Markers from Fungal DNA Based on Shotgun Pyrosequencing Shaobin Zhong
33. Multiplex and Quantifiable Detection of Infectious Fungi Using Padlock Probes, General qPCR and Suspension Microarray Readout Magnus Jobs, Ronnie Eriksson, and Jonas Blomberg
34. Rapid Deletion Plasmid Construction Methods for Protoplast and Agrobacterium-based Fungal Transformation Systems Maria D. Garcia-Pedrajas, Zahi Paz, David L. Andrews, Lourdes Baeza-Montanez, and Scott E. Gold
35. Improved Transformation Method for Alternaria brassicicola and its Applications Yangrae Cho, Akhil Srivastava, and Christopher Nguyen
36. Methods for High Quality DNA Extraction from Fungi Vijai Kumar Gupta, Maria G. Tuohy and Rajeeva Gaur
37. Production of Recombinant Proteins from Pichia pastoris: Interfacing Fermentation and Immobilized Metal Ion Affinity Chromatography Berend Tolner, Gaurav Bhavsar, Bride Foster, Kim Vigor, and Kerry Chester
38. Development of a Real-Time Quantitative PCR Assay for the Assessment of Uncultured Zoosporic Fungi Telesphore Sime-Ngando and Marlene Jobard
39. Nucleic and Protein Extraction Methods for Fungal Exopolysaccharide Producers Jochen Schmid, Dirk Mueller-Hagen, Volker Sieber, and Vera Meyer
40. Directed Evolution of A Fungal Xylanase for Improvement of Thermal and Alkaline Stability Dawn Elizabeth Stephens, Suren Singh, and Kugen Permaul
41. Genome Shuffling Protocol for the Pentose-Fermenting Yeast Scheffersomyces stipitis Paramjit K. Bajwa, Nicole K. Harner, Terri L. Richardson, Sukhdeep Sidhu, Marc B. Habash, Jack T. Trevors, and Hung Lee
42. Detection and Identification of Fungal Microbial Volatile Organic Compounds by HS-SPME-GC-MSBernhard Kluger, Susanne Zeilinger, Gerlinde Wiesenberger, Denise Schofbeck, and Rainer Schuhmacher
43. Transformation Methods for Slow Growing Fungi Suman Mukherjee and Rebecca Creamer
44. Enzymatic Saccharification of lignocellulosic biomass Manimaran Ayyachamy, Vijai Kumar Gupta, Finola E. Cliffe, and Maria G. Tuohy
45. Protoplast Fusion Techniques in Fungi Annie Juliet Gnanam
46. Large Scale Production of Lignocellulolytic Enzymes in Thermophilic Fungi Manimaran Ayyachamy, Mary Shier, and Maria G. Tuohy
47. Panfungal PCR Method for Detection of Aflatoxigenic Molds Malik M. Ahmad, Pravej Alam, M. Z. Abdin, and Saleem Javed
48. Protocols for the Quantification of dsDNA and Its Fragmentation Status in Fungi Ioannis Papapostolou, Konstantinos Grintzalis, and Christos Georgiou
49. Rapid Identii-- cation and Detection of Pathogenic Fungi by Padlock Probes Clement K. M. Tsui, Bin Wang, Cor D. Schoen, and Richard C. Hamelin
50. Drug-Induced Permeabilization in Fungi Maria D. Mayan, Alexandra MacAleenan, and Priscilla Braglia
51. Extraction and Characterization of Taxol: An Anticancer Drug from an Endophytic And Pathogenic Fungi M. Pandi P. Rajapriya and P. T. Manoharan
52. Identification of Mycotoxigenic Fungi using an Oligonucleotide Microarray Eugenia Barros
53. DNA Microarray-Based Detection and Identification of Fungal Specimens Minna Maki
54. Bioinformatic Protocols and the Knowledge-Base for Secretomes in FungiGengkon Lum and Xiang Jia Min
55. High-Throughput Functional Annotation and Data Mining of Fungal Genomes to Identify Therapeutic Targets Gagan Garg and Shoba Ranganathan
56. Application of Support Vector Machines in Fungal Genome and Proteome Annotation Sonal Modak, Shimantika Sharma, Prashant Prabhakar, Akshay Yadav, and V. K. Jayaraman
57. Bioinformatics Tools for the Multilocus Phylogenetic Analysis of Fungi Devarajan Thangadurai and Jayabalan Sangeetha