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Metagenomics

Methods and Protocols

Series: Methods in Molecular Biology

by Wolfgang R. Streit, Rolf Daniel and Wolfgang Streit

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Main description:

Metagenomics has proven to be a powerful tool for exploring the ecology, metabolic profiling, and comparison of complex microbial communities as well as its important applications in the mining of metagenomes for genes encoding novel biocatalysts and drug molecules for bioindustries. In Metagenomics: Methods and Protocols, expert researches provide an overview and introduction to basic methods commonly used in laboratories that have a strong background in microbial metagenomics. The book attempts to address all of the working steps involved in this crucial field, beginning with DNA isolation from soils and marine samples and continuing with the construction and screening of libraries, along with key advise involving bioinformatic tools available to analyze large metagenomic sequence data sets. Written in the highly successful Methods in Molecular Biology (TM) series format, chapters include brief 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, Metagenomics: Methods and Protocols serves as a very complete guide to available screening protocols for all major biocatalysts in order to allow for the easy setup of these screens in any microbiology lab.

Contents:

1. Molecular Methods to Study Complex Microbial Communities
Maria-Eugenia Guazzaroni, Ana Beloqui, Jose M. Vieites, Peter N. Golyshin, and Manuel Ferrer

2. Construction of Small-Insert and Large-Insert Metagenomic Libraries
Carola Simon and Rolf Daniel

3. Construction and Screening of Marine Metagenomic Libraries
Nancy Weiland, Carolin Loescher, Rebekka Metzger, and Ruth Schmitz

4. Metagenomic Analysis of Isotopically Enriched DNA
Yin Chen, Josh D. Neufeld, Marc G. Dumont, Michael W. Friedrich, and J. Colin Murrell

5. Wide Host-Range Cloning for Functional Metagenomics
Margaret Wexler and Andrew W.B. Johnston

6. Cloning and Expression Vectors for a Gram-Positive Host, Streptomyces lividans
Kristof Vrancken and Jozef Anne

7. Heterologous Gene Expression in the Hyperthermophilic Archaeon Sulfolobus solfataricus
Angel Angelov and Wolfgang Liebl

8. Novel Tools for the Functional Expression of Metagenomic DNA
Sonja Christina Troeschel, Thomas Drepper, Christian Leggewie, Wolfgang R. Streit, and Karl-Erich Jaeger

9. Screening of Functional Promoter from Metagenomic DNA for Practical Use in Expression Systems
So-Youn Park and Geun-Joong Kim

10. Substrate-Induced Gene Expression (SIGEX) Screening: A Method for High-Throughput Screening of Metagenome Libraries
Taku Uchiyama and Kentaro Miyazaki

11. Screens for Active and Stereoselective Hydrolytic Enzymes
Dominique Boettcher, Marlen Schmidt, and Uwe T. Bornscheuer

12. Screening for Cellulase Encoding Clones in Metagenomic Libraries
Nele Ilmberger and Wolfgang R. Streit

13. Screening Metagenomic Libraries for Laccase Activities
Manuel Ferrer, Ana Beloqui, and Peter N. Golyshin

14. Screening for N-AHSL-Based-Signaling Interfering Enzymes
Phil M. Oger and Stephane Uroz

15. Identification of Molecular Markers to Follow Up the Bioremediation of Sites Contaminated with Chlorinated Compounds
Massimo Marzorati, Annalisa Balloi, Francesca De Ferra, and Daniele Daffonchio

16. Methods for the Isolationof Genes Encoding Novel PHB Cycle Enzymes from Complex Microbial Communities
Ricardo Nordeste, Maria A. Trainer, and Trevor C. Charles

17. Metagenomic Approaches to Identify and Isolate Bioactive Natural Products from Microbiota of Marine Sponges
Cristian Gurgui and Joern Piel

18. Screening for Novel Antibiotic Resistance Genes
Mindy G. Brown, Elizabeth H. Mitchell, and David L. Balkwill

19. Novel Metal Resistance Genes from Microorganisms: A Functional Metagenomic Approach
Jose E. Gonzalez-Pastor and Salvador Mirete

20. Retrieval of Full Length Functional Genes Using Subtractive Hybridization Magnetic Bead Capture
Tracy Meiring, Inonge Mulako, Marla I. Tuffin, Quinton Meyer, and Donald A. Cowan

21. Detection and Isolation of Selected Genes of Interest from Metagenomic Libraries by a DNA Microarray Approach
Gopal P. Pathak and Wolfgang Gartner

22. Application of DNA Microarray for Screening Metagenome Library Clones
Soo-Je Park, Jong-Chan Chae, and Sung-Keun Rhee

23. MetaGenomeThreader: A Software Tool for Predicting Genes in DNA-Sequences of Metagenome Projects
David J. Schmitz-Hubsch and Stefan Kurtz

PRODUCT DETAILS

ISBN-13: 9781607618225
Publisher: Springer (Humana Press Inc.)
Publication date: September, 2010
Pages: 352
Weight: 867g
Availability: Available
Subcategories: Genetics

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