Laboratory Protocols in Fungal Biology

1. Safety Norms and Regulations in Handling Fungal Specimens
Finola E. Cliffe

2. Methods of Cryopreservation in Fungi
Ladislav 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, Nadezhda I. Chigineva

4. Fungal Specimen Collection and Processing
Anthonia O’Donovan, Vijai Kumar Gupta, Maria G. Tuohy

5. Chemical and Molecular Methods for Detection of Toxigenic Fungi and Their Mycotoxins from Major Food Crops
S. Chandra Nayaka, M. Venkata Ramana, A. C. Udayashankar, S. R. Niranjana, C. N. Mortensen, H. S. Prakash

6. Identification Key for the Major Growth Forms of Lichenized Fungi
Jeyabalan Sangeetha, 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 Ampélio Pozza, Marcelo Carvalho Alves

9. High-Resolution Imaging and Force Spectroscopy of Fungal Hyphal Cells by Atomic Force Microscopy
Biplab C. Paul, Hui Ma, Laelie A. Snook, Tanya E. S. Dahms

10. Use of Fourier-Transform Infrared (FTIR) Microscopy Method for Detection of Phyto-Fungal Pathogens
Vitaly Erukhimovitch, Mahmoud Huleihel

11. Diagnosis of Parasitic Fungi in the Plankton: Technique for Identifying and Counting Infective Chytrids Using Epifluorescence Microscopy
Télesphore Sime-Ngando, Serena Rasconi, Mélanie Gerphagnon

12. Fungal Cell Wall Analysis
Pilar Pérez, Juan C. Ribas

13. Histopathological Technique for Detection of Fungal Infections in Plants
Vijai Kumar Gupta, 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, Jose L. Lopez-Ribot

17. Screening for Compounds Exerting Antifungal Activities
Jean-Paul Ouedraogo, Ellen L. Lagendijk, Cees A. M. J. J. Hondel, Arthur F. J. Ram, Vera Meyer

18. Fluorescence In Situ Hybridization of Uncultured Zoosporic Fungi
Télesphore Sime-Ngando, Marlène Jobard, Serena Rasconi

19. Staining Techniques and Biochemical Methods for the Identification of Fungi
Jeyabalan Sangeetha, Devarajan Thangadurai

20. Protocol for the In Vivo Quantification of Superoxide Radical in Fungi
Konstantinos Grintzalis, Ioannis Papapostolou, Christos Georgiou

21. Isolation of Intact RNA from Sorted S. cerevisiae Cells for Differential Gene Expression Analysis
Jeannette Vogt, Frank Stahl, Thomas Scheper, Susann Müller

22. Quantitative PCR Analysis of Double-Stranded RNA-Mediated Gene Silencing in Fungi
José J. Vega-Bartol, Vega Tello, Jonathan Niño, Virginia Casado, José M. Díaz-Mínguez

23. Semi-Nested PCR Approach to Amplify Large 18S rRNA Gene Fragments for PCR-DGGE Analysis of Soil Fungal Communities
Miruna Oros-Sichler, Kornelia Smalla

24. Proteomic Protocols for the Study of Filamentous Fungi
Raquel González Fernández, Jesús V. Jorrín Novo

25. Detection and Quantification of Endoprotease Activity Using a Coomassie Dye-Binding Assay
Anthony J. O’Donoghue, Cathal S. Mahon

26. Protocol of a LightCycler™ PCR Assay for Detection and Quantification of Aspergillus fumigatus DNA in Clinical Samples of Neutropenic Patients
Birgit Spiess, Dieter Buchheidt

27. Application of Polymerase Chain Reaction and PCR-Based Methods Targeting Internal Transcribed Spacer Region for Detection and Species-Level Identification of Fungi
K. Lily Therese, R. Bagyalakshmi, 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, Kevin M. Turner

30. Transformation of Filamentous Fungi in Microtiter Plate
Bianca Gielesen, Marco Berg

31. Molecular Fingerprinting of Fungal Communities in Soil
Roberto A. Geremia, 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, Jonas Blomberg

34. Rapid Deletion Plasmid Construction Methods for Protoplast and Agrobacterium-based Fungal Transformation Systems
María D. García-Pedrajas, Zahi Paz, David L. Andrews, Lourdes Baeza-Montañez, Scott E. Gold

35. Improved Transformation Method for Alternaria Brassicicola and Its Applications
Yangrae Cho, Akhil Srivastava, Christopher Nguyen

36. Methods for High-Quality DNA Extraction from Fungi
Vijai Kumar Gupta, Maria G. Tuohy, 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, Kerry Chester

38. Development of a Real-Time Quantitative PCR Assay for the Assessment of Uncultured Zoosporic Fungi
Télesphore Sime-Ngando, Marlène Jobard

39. Nucleic and Protein Extraction Methods for Fungal Exopolysaccharide Producers
Jochen Schmid, Dirk Mueller-Hagen, Volker Sieber, Vera Meyer

40. Directed Evolution of a Fungal Xylanase for Improvement of Thermal and Alkaline Stability
Dawn Elizabeth Stephens, Suren Singh, 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, Hung Lee

42. Detection and Identification of Fungal Microbial Volatile Organic Compounds by HS-SPME-GC–MS
Bernhard Kluger, Susanne Zeilinger, Gerlinde Wiesenberger, Denise Schöfbeck, Rainer Schuhmacher

43. Transformation Methods for Slow-Growing Fungi
Suman Mukherjee, Rebecca Creamer

44. Enzymatic Saccharification of Lignocellulosic Biomass
Manimaran Ayyachamy, Vijai Kumar Gupta, Finola E. Cliffe, 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, Maria G. Tuohy

47. Panfungal PCR Method for Detection of Aflatoxigenic Molds
Malik M. Ahmad, Pravej Alam, M. Z. Abdin, Saleem Javed

48. Protocols for the Quantification of dsDNA and Its Fragmentation Status in Fungi
Ioannis Papapostolou, Konstantinos Grintzalis, Christos Georgiou

49. Rapid Identification and Detection of Pathogenic Fungi by Padlock Probes
Clement K. M. Tsui, Bin Wang, Cor D. Schoen, Richard C. Hamelin

50. Drug-Induced Permeabilization in Fungi
Maria D. Mayan, Alexandra McAleenan, Priscilla Braglia

51. Extraction and Characterization of Taxol: An Anticancer Drug from an Endophytic and Pathogenic Fungi
M. Pandi, P. Rajapriya, 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 Mäki

54. Bioinformatic Protocols and the Knowledge-Base for Secretomes in Fungi
Gengkon Lum, Xiang Jia Min

55. High-Throughput Functional Annotation and Data Mining of Fungal Genomes to Identify Therapeutic Targets
Gagan Garg, Shoba Ranganathan

56. Application of Support Vector Machines in Fungal Genome and Proteome Annotation
Sonal Modak, Shimantika Sharma, Prashant Prabhakar, Akshay Yadav, V. K. Jayaraman

57. Bioinformatics Tools for the Multilocus Phylogenetic Analysis of Fungi
Devarajan Thangadurai, Jeyabalan Sangeetha

Avainsanat: Life Sciences, Plant Sciences, Plant Biochemistry, Plant Breeding/Biotechnology, Microbiology