Plant Pathogenic Fungi and Oomycetes, Softcover reprint of the original 1st ed. 2018 Methods and Protocols Methods in Molecular Biology Series, Vol. 1848

This book describes approaches for the analysis of plant pathogenic fungi that range from ecosystem composition to in vitro and wet-lab to computational analyses. Chapters detail bioinformatics protocols for genome assembly, transcriptome analysis and small RNA profiling, characterization of secondary metabolome, analysis of post-translational modification and localization of proteins, examination of virulence function and interaction with plants or other microorganisms, and targeted mutagenesis using various approaches. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.

 Authoritative and cutting-edge, Plant Pathogenic Fungi and Oomycetes: Methods and Protocols aims to provide techniques developed through a wide range of perspectives to facilitate research on a comprehensive understanding of these important filamentous pathogens.

1. Quantifying Re-association of a Facultative Endohyphal Bacterium with a Filamentous Fungus

David A. Baltrus, Joseph Spraker, and A. Elizabeth Arnold

2. Characterizing Mycoviruses

Mahtab Peyambari and Marilyn J. Roossinck

3. Analysis of Secondary Metabolites from Plant Endophytic Fungi

Jiajia Liu and Gang Liu

4. Protocols for Investigating the Leaf Mycobiome using High throughput DNA Sequencing

Shawn P. Brown, Devin R. Leopold, and Posy E. Busby

5. Characterizing Small RNAs in Filamentous Fungi using the Rice Blast Fungus, Magnaporthe oryzae, as an Example

Raman Vidhyavathi, Meyers Blake C., Dean Ralph A., and Donofrio Nicole M.

Yun Jin and Hui-Shan Guo

7. Sequential Phosphopeptide Enrichment for phosphoproteome Analysis of Filamentous Fungi: A Test Case using Magnaporthe oryzae

Yeonyee Oh, William L. Franck, and Ralph A. Dean

Xue Zhang, Zhuyun Bian, and Jin-Rong Xu

9. Visualizing the Movement of Magnaporthe oryzae Effector Proteins in Rice Cells during Infection

Kiersun Jones and Chang Hyun Khang

10. Illuminating Phytophthora Biology with Fluorescent Protein Tags

Audrey M.V. Ah-Fong, Meenakshi Kagda, and Howard S. Judelson

11. Methods for Transient Gene Expression in Wild Relatives of Potato

Sidrat Abdullahand Dennis Halterman

12. Host-induced Gene Silencing (HIGS) for Elucidating Puccinia Gene Function in Wheat

Chuntao Yin and Scot Hulbert

13. From Short Reads to Chromosome-scale Genome Assemblies

Kyle Fletcher and Richard Michelmore

Katie Baker, Gordon Stephen, Shona Strachan, Miles Armstrong, and Ingo Hein

15. A Computational Protocol to Analyze Meta-transcriptomic Data Capturing Fungal-host Interactions

Yong Zhang, Li Guo, and Li-Jun Ma

16. Application of the Cre/lox System to Construct Auxotrophic Markers for Quantitative Genetic Analyses in Fusarium graminearum

Lanelle R. Connolly, Allyson A. Erlendson, Corinne M. Fargo, Kendra K. Jackson, Morgan M.G. Pelker, Jacob W. Mazzola, Mark S. Geisler, and Michael Freitag

17. Protocol of Phytophthora capsici Transformation using the CRISPR-Cas9 System

18. Generating Gene Silenced Mutants in Phytophthora sojae

Yao Zhao, Yufei Li, Min Qiu, Wenbo Ma,and  Yuanchao Wang

Includes cutting-edge methods and protocols

Provides step-by-step detail essential for reproducible results

Contains key notes and implementation advice from the experts