Fungal genomics : methods and protocols

1. Genome Sequencing and Assembly Manfred G. Grabherr, Evan Mauceli, and Li-Jun Ma 2. Targeted Cloning of Fungal Telomeres Mark L. Farman 3. Identification and Annotation of Repetitive Sequences in Fungal Genomes Braham Dhillon and Stephen B. Goodwin 4. Next-Generation Sequencing and Potential Applications in Fungal Genomics Phillip SanMiguel 5. Getting the Most Out of Your Fungal Microarray Data: Two Cost and Time-Effective Methods Sandra M. Mathioni, Andre Belo, Jeffrey P. Townsend, and Nicole M. Donofrio 6. Fusarium graminearum from Expression Analysis to Functional Assays Heather E. Hallen-Adams, Brad L. Cavinder, and Frances Trail 7. EST Analysis Pipeline: Use of Distributed Computing Resources Francisco Javier Gonzalez and Juan Antonio Vizcaino 8. The Application of ChIP-chip Analysis in the Rice Blast Pathogen Soonok Kim and Thomas Mitchell 9. Proteome Studies of Filamentous Fungi Scott E. Baker and Ellen A. Panisko 10. A Bioinformatics Pipeline for Sequence-Based Analyses of Fungal Biodiversity D. Lee Taylor and Shawn Huston 11. Identifying Protein Complexes by Affinity Purification and Mass Spectrometry Analysis in the Rice Blast Fungus Wende Liu, Anton Iliuk, Andy Tao, and Shengli Ding 12. Large Scale Identification of Genes Involved in Plant-Fungal Interactions Using Illumina's Sequencing-By-Synthesis Technology R. C. Venu, Yuan Zhang, Brian Weaver, Peter Carswell, Thomas K. Mitchell, Blake C. Meyers, Michael J. Boehm, and Guo-Liang Wang 13. High-Throughput Production of Gene Replacement Mutants in Neurospora crassa Gyungsoon Park, Hildur V. Colot, Patrick D. Collopy, Svetlana Krystofova, Christopher Crew, Carol Ringelberg, Liubov Litvinkova, Lorena Altamirano, Liande Li, Susan Curilla, Wei Wang, Norma Gorrochotegui-Escalante, Jay C. Dunlap, and Katherine A. Borkovich 14. Phenotypic Analysis of Neurospora crassa Gene Deletion Strains Gloria E. Turner 15. Efficient Approaches for Generating GFP Fusion and Epitope-Tagging Constructs in Filamentous Fungi Xiaoying Zhou, Guotian Li, and Jin-Rong Xu 16. Large Scale Insertional Mutagenesis in Magnaporthe oryzae by Agrobacterium tumefaciens-Mediated Transformation Xiao-Lin Chen, Jun Yang, and You-Liang Peng 17. Molecular Methods for Studying the Cryphonectria parasitica - Hypovirus Experimental System Angus L. Dawe, Rong Mu, Gloricelys Rivera, and Joanna A. Salamon 18. Metabolic Fingerprinting in Fusarium verticillioides to Determine Gene Function Jonathon E. Smith and Burton H. Bluhm 19. Tapping Genomics to Unravel Ectomycorrhizal Symbiosis Jonathan M. Plett, Barbara Montanini, Annegret Kohler, Simone Ottonello, and Francis Martin