Fungal Secondary Metabolism: Methods and Protocols

ISBN-13: 9781493959600 / Angielski / Miękka / 2016 / 288 str.

Nancy P. Keller; Geoffrey Turner

Opis

This Methods in Molecular Biology (TM) volume provides key methodologies for accessing and exploiting natural product information provided by the genomes of filamentous fungi. Includes materials and reagents lists, step-by-step protocols and troubleshooting tips.

Recenzje

From the book reviews:

"The book 'Fungal Secondary Metabolism: Methods and protocols' present methodologies currently used for accessing and discovering the information on natural products in the genome of filamentous fungi. ... Should be available in all college, research laboratories and university libraries since this information will be very useful for researchers who study fungal secondary metabolites. In addition, this information will be helpful for any researcher working on the fungal genomics." (K. W. Thilini Chethana and Kevin D. Hyde, Fungal Diversity, December, 2014)

"This is very much a how-to-do book, prepared by two particularly distinguished mycologists, and designed for those wishing to investigate the chemical possibilities of filamentous fungi. ... Steps to be commended are detailed and practical procedures illustrated, accompanied by discussions of the strength and weaknesses of different packages. ... The editors and publishers must be congratulated in the extent to which they have managed to marshal their contributors into such a common and lucid style." (IMA Fungus, Vol. 3 (2), 2012)

Spis treści

1. Library Preparation and Data Analysis Packages for Rapid Genome Sequencing

            Kyle R. Pomraning, Kristina M. Smith, Erin L. Bredeweg, Lanelle R. Connolly, Pallavi A. Phatale, and Michael Freitag

2. Bioinformatics Approaches and Software for Detection of Secondary Metabolic Gene Clusters

            Natalie D. Fedorova, Venkatesh Moktali, and Marnix H. Medema

3. Media and Growth Conditions for Induction of Secondary Metabolite Production

            Jens C. Frisvad

4. Manipulating Filamentous Fungus Chemical Phenotypes by Growth on Nutritional Arrays

            José R. Tormo, Francisco J. Asensio, and Gerald F. Bills

5. The “FERMEX” Method for Metabolite-Enriched Fungal Extracts

            Gerald F. Bills, Anne W. Dombrowski, and Michael A. Goetz

6. The Chemical Identification and Analysis of Aspergillus nidulans Secondary Metabolites

            James F. Sanchez and Clay C.C. Wang

7. Detection and Purification of Non-Ribosomal Peptide Synthetase Products in Neosartorya fischeri

            Beate Wollinsky and Shu-Ming Li

8. Production, Detection, and Purification of Clavine-Type Ergot Alkaloids

            Christiane Wallwey and Shu-Ming Li

9. Analysis of Volatile Compounds Emitted by Filamentous Fungi Using Solid Phase Microextraction - Gas Chromatography/Mass Spectrometry (SPME-GC/MS)

            Ludmila V. Roze, Randolph M. Beaudry, and John E. Linz

10. Tools for Manipulation of Secondary Metabolism Pathways: Rapid Promoter Replacements and Gene Deletions in Aspergillus nidulans

            C. Elizabeth Oakley, Heather Edgerton-Morgan, and Berl R. Oakley

11. Fast and Easy Method for Construction of Plasmid Vectors Using Modified Quick-Change Mutagenesis

            Jin Woo Bok and Nancy P. Keller

12. Reconstitution of a Secondary Metabolite Biosynthetic Pathway in a Heterologous Fungal Host

            Takayuki Itoh, Tetsuo Kushiro, and Isao Fujii

13. Multi-Copy Genetic Screen in Aspergillus nidulans

            Hee Soo Park and Jae-Hyuk Yu

14. Identification of Protein Complexes from Filamentous Fungi with Tandem Affinity Purification

            Özgür Bayram, Özlem Sarikaya Bayram, Oliver Valerius, Bastian Jöhnk, and Gerhard H. Braus

15. Correlating Secondary Metabolite Production with Genetic Changes Using Differential Analysis of 2D NMR Spectra

            Ry R. Forseth and Frank C. Schroeder

16. Chromatin Immunoprecipitation (ChIP) Analysis in Filamentous Fungi

            Yazmid Reyes-Dominguez, Stefan Boedi, and Joseph Strauss

17. Targeted Proteomics for Metabolic Pathway Optimization

            Tanveer S. Batth, Jay D. Keasling, and Christopher J. Petzold

18. Investigation of In Vivo Protein Interactions in Aspergillus Spores

            Kwang Cheol Jeong and Jae-Hyuk Yu

19. Purification of a Vesicle-Vacuole (V) Fraction from Aspergillus

            Anindya Chanda, Ludmila V. Roze, and John E. Linz

20. Use of the Hollow Fiber Assay for the Discovery of Novel Anticancer Agents from Fungi

            Cedric J. Pearce, Daniel D. Lantvit, Qi Shen, David Jarjoura, Xiaoli Zhang, Nicholas H. Oberlies, David J. Kroll, Mansukh C. Wani, Jimmy Orjala, Djaja D. Soejarto, Norman R. Farnsworth, Esperanza J. Carcache de Blanco, James R. Fuchs, A. Douglas Kinghorn, and Steven M. Swanson

21. Molecular Analysis of Fungal Gene Expression upon Interkingdom Competition with Insects

            Ulrike Fohgrub and Frank Kempken

            José R. Tormo, Francisco J. Asensio, and Gerald F. Bills

Blurb

Filamentous fungi have long been known for their ability to produce an enormous range of unusual chemical compounds known as secondary metabolites, many of which have potentially useful antibiotic or pharmacological properties. Recent focus on fungal genomics coupled with advances in detection and molecular manipulation techniques has galvanized a revitalization of this field.  Fungal Secondary Metabolism: Methods and Protocols is aimed at providing the key methodologies currently in use and necessary for accessing and exploiting the natural product information provided by the genomes of this large and varied kingdom. Written by active researchers in the field, the chapters deal with all the steps necessary, from optimization of fungal culture conditions for metabolite production, through rapid genome sequencing and bioinformatics, and genetic manipulations for functional analysis, to detection and testing of metabolites. In addition, chapters on basic science address approaches to the genetic regulation, protein biochemistry, and cellular localization of the biosynthetic pathways. 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.

 

Practical and hands-on, Fungal Secondary Metabolism: Methods and Protocols encourages new investigators to enter the field and expands upon the expertise and range of skills of those already researching fungal natural products.