Plant Pathology: Techniques and Protocols

ISBN-13: 9781493926190 / Angielski / Twarda / 2015 / 352 str.

Christophe Lacomme

Opis

The second edition of Plant Pathology: Techniques and Protocols covers diagnostic methods that are currently used in laboratories for a broad range of plant species and matrixes. These include serological and molecular methods that have one or more of the following characteristics: suitability for high-throughput testing, detection of a group of pathogens or of sometimes uncharacterized pathogens, detection and identification of specific pathogens, and high sensitivity. This volume discusses qualitative and quantitative tests, as well as recently developed diagnostic methods. It also provides background information on many pathogens, which are either endemic, non-endemic, or emerging and with different lifecycles that cause diseases of significant importance in a wide variety of hosts. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, background information on pathogens and the disease caused, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols and tips on troubleshooting and avoiding known pitfalls. Informative and cutting-edge, Plant Pathology: Techniques and Protocols, Second Edition is the perfect book for plant pathologists and molecular biologists who will use this information to test out the latest research in their laboratories.

Spis treści

1. Detection of the Bacterial Potato Pathogens Pectobacterium and Dickeya spp. Using Conventional and Real Time PCR
Sonia N. Humphris, Greig Cahill, John G. Elphinstone, Rachel Kelly, Neil M. Parkinson, Leighton Pritchard, Ian K. Toth, and Gerry S. Saddler

2. Detection and Identification of Phoma Pathogens of Potato Denise A’Hara

3. Diagnosis of Ramularia collo-cygni and Rhynchosporium spp in Barley
Neil Havis, James Fountaine, Kalina Gorniak, Linda Paterson, and Jeanette Taylor

4. A Real-Time Multiplex PCR Assay Used in the Identification of Closely Related Fungal Pathogens at the Species Level
Dominie G. Wright

5. Diagnostics of Tree Diseases Caused by Phytophthora Species
Vincent Mulholland, Matthew Elliot, and Sarah Green

6. Real-Time LAMP for Chalara fraxinea Diagnosis
Jenny Tomlinson and Neil Boonham

7. Loop-Mediated Isothermal Amplification Procedure (LAMP) for Detection of the Potato Zebra Chip Pathogen ‘Candidatus Liberibacter Solanacearum’
Aravind Ravindran, Julien Lévy, Elizabeth Pierson, and Dennis C. Gross

 8. Loop-Mediated Isothermal Amplification (LAMP) for Detection of Phytoplasmas in the Field
Matt Dickinson

9. Diagnosis of Phytoplasmas by Real-Time PCR Using Locked Nucleic Acid (LNA) Probes
Sabrina Palmano, Vincent Mulholland, David Kenyon, Gerry Saddler and Colin Jeffries

10. Q-Bank Phytoplasma: A DNA Bar-Coding Tool for Phytoplasma Identification
Nicoletta Contaldo, Samanta Paltrinieri, Olga Makarova, Assunta Bertaccini, and Mogens Nicolaisen

11. High-Throughput Diagnosis of Potato Cyst Nematodes in Soil Samples
Alex Reid, Fiona Evans, Vince Mulholland, Yvonne Cole, and Jon Pickup

12. Detection of Nepovirus Vector and Non-Vector Xiphinema Species in Grapevine
Cyril Van Ghelder, Alex Reid, David Kenyon, and Daniel Esmenjaud

13. Molecular and Serological Methods for the Diagnosis of Viruses in Potato Tubers
Christophe Lacomme, Ross Holmes, and Fiona Evans

14. Immunocapture-Multiplex RT-PCR for the Simultaneous Detection and Identification of Plant Viruses and Their Strains: Study Case, Potato Virus Y (PVY)
Mohamad Chikh-Ali and Alexander V. Karasev

15. Snapshot and CE-SSCP: Two Simple and Cost-Effective Methods to Reveal Genetic Variability within a Virus Species
Agnès Delaunay, Sylvie Dallot, Denis Filloux, Virginie Dupuy, Philippe Roumagnac, and Emmanuel Jacquot

16. Detection and Characterization of Viral Species/Sub-Species Using Isothermal Recombinase Polymerase Amplification (RPA) Assays
Laurent Glais and Emmanuel Jacquot

17. Virus-Testing by PCR and RT-PCR Amplification in Berry Fruit
Stuart MacFarlane, Wendy MacGavin, and Ioannis Tzanetakis

18. Metagenomics Approaches Based on Virion-Associated Nucleic Acids (VANA): An Innovative Tool for Assessing without a Priori the Viral Diversity of Plants
Denis Filloux, Sylvie Dallot, Agnès Delaunay, Serge Galzi, Emmanuel Jacquot and Philippe Roumagnac

19. Detection of Potato spindle tuber viroid and Other Related Viroids by a DIG Labeled RNA Probe
Wendy A. Monger and Colin J. Jeffries

20. Microarray Platform for the Detection of a Range of Plant Viruses and Viroids
Ian Adams, Catherine Harrison, Jenny Tomlinson, and Neil Boonham

21. Multiplex Detection of Plant Pathogens Through the Luminex Magplex Bead System
René A.A. van der Vlugt, Henry van Raaij, Marjanne de Weerdt, and Jan H.W. Bergervoet

22. Next Generation Sequencing of Elite Berry Germplasm and Data Analysis Using a Bioinformatics Pipeline for Virus Detection and Discovery
Thien Ho, Robert R. Martin and Ioannis E. Tzanetakis

23. Metagenomic Next-Generation Sequencing of Viruses Infecting Grapevines
Johan T. Burger and Hans J. Maree

24. Droplet Digital PCR for Absolute Quantification of Pathogens
Ion Gutiérrez-Aguirre, Nejc Rački, Tanja Dreo, and Maja Ravnikar