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E-grāmata: Metagenomics: Methods and Protocols

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  • Formāts: EPUB+DRM
  • Sērija : Methods in Molecular Biology 1539
  • Izdošanas datums: 25-Nov-2016
  • Izdevniecība: Humana Press Inc.
  • Valoda: eng
  • ISBN-13: 9781493966912
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  • Formāts: EPUB+DRM
  • Sērija : Methods in Molecular Biology 1539
  • Izdošanas datums: 25-Nov-2016
  • Izdevniecība: Humana Press Inc.
  • Valoda: eng
  • ISBN-13: 9781493966912

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This second edition explores up-to-date tools in various function-based technologies currently used in metagenomics. The chapters in this book discuss all of the working steps involved in these technologies, such as: DNA isolation from soils and marine samples followed by the construction and screening of libraries for diverse enzymes and biomolecules; current methods used to isolate DNA and construct large- and small-insert libraries from terrestrial and marine habitats; methods for establishing metagenome libraries in none-E.coli hosts; new molecular tools used for function-driven mining of metagenomic DNA; and screening protocols for a wide array of different genes encoding enzymes with relevance to biotechnology and ecology. Metagenomics: Methods and Protocols, Second Edition also provides detailed screening protocols for phosphatases, poly-hydroxyalkanoate, metabolism-related enzymes, stereoselective hydrolases, and microbial signals for the discovery of secondary metabolites. 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.



Comprehensive and cutting-edge, Metagenomics: Methods and Protocols, Second Edition is a collection of up-to-date metagenome protocols and tools for the recovery of numerous major types of biocatalysts, and allows researchers to easily setup these screens in any microbiology laboratory.





 
Preface v
Contributors ix
1 Construction of Small-Insert and Large-Insert Metagenomic Libraries
1(12)
Carola Simon
Rolf Daniel
2 Extraction of Total DNA and RNA from Marine Filter Samples and Generation of a cDNA as Universal Template for Marker Gene Studies
13(10)
Dominik Schneider
Franziska Wemheuer
Birgit Pfeiffer
Bernd Wemheuer
3 Construction and Screening of Marine Metagenomic Large Insert Libraries
23(20)
Nancy Weiland-Brauer
Daniela Langfeldt
Ruth A. Schmitz
4 Constructing and Screening a Metagenomic Library of a Cold and Alkaline Extreme Environment
43(14)
Mikkel A. Glaring
Jan K. Vester
Peter Stougaard
5 DNA-, RNA-, and Protein-Based Stable-Isotope Probing for High-Throughput Biomarker Analysis of Active Microorganisms
57(18)
Eleanor Jameson
Martin Taubert
Sara Coyotzi
Yin Chen
Ozge Eyice
Hendrik Schafer
J. Colin Murrell
Josh D. Neufeld
Marc G. Dumont
6 Assessing Bacterial and Fungal Diversity in the Plant Endosphere
75(10)
Bernd Wemheuer
Franziska Wemheuer
7 Shotgun Metagenomic Sequencing Analysis of Soft-Rot Enter obacteriaceae in Polymicrobial Communities
85(14)
James Doonan
Sandra Denman
James E. McDonald
Peter N. Golyshin
8 Cloning and Expression of Metagenomic DNA in Streptomyces lividans and Subsequent Fermentation for Optimized Production
99(46)
Yuriy Rebets
Jan Kormanec
Andriy Luzhetskyy
Kristel Bernaerts
Jozef Anne
9 Degradation Network Reconstruction Guided by Metagenomic Data
145(14)
Rafael Bargiela
Manuel Ferrer
10 Novel Tools for the Functional Expression of Metagenomic DNA
159(38)
Nadine Katzke
Andreas Knapp
Anita Loeschcke
Thomas Drepper
Karl-Erich Jaeger
11 A Microtiter Plate-Based Assay to Screen for Active and Stereoselective Hydrolytic Enzymes in Enzyme Libraries
197(8)
Dominique Bottcher
Patrick Zagel
Marlen Schmidt
Uwe T. Bornscheuer
12 Screening for Cellulase Encoding Clones in Metagenomic Libraries
205(14)
Nele Ilmberger
Wolfgang R. Streit
13 Liquid Phase Multiplex High-Throughput Screening of Metagenomic Libraries Using p-Nitrophenyl-Linked Substrates for Accessory Lignocellulosic Enzymes
219(10)
Mariette Smart
Robert J. Huddy
Don A. Cowan
Maria Trindade
14 Screening Glycosyltransferases for Polyphenol Modifications
229(8)
Nele Ilmberger
Ulrich Rabausch
15 Methods for the Isolation of Genes Encoding Novel PHA Metabolism Enzymes from Complex Microbial Communities
237(12)
Jiujun Cheng
Ricardo Nordeste
Maria A. Trainer
Trevor C. Charles
16 Function-Based Metagenomic Library Screening and Heterologous Expression Strategy for Genes Encoding Phosphatase Activity
249(12)
Genis A. Castillo Villamizar
Heiko Nacke
Rolf Daniel
17 Activity-Based Screening of Metagenomic Libraries for Hydrogenase Enzymes
261(10)
Nicole Adam
Mirjam Perner
18 Screening for N-AHSL-Based-Signaling Interfering Enzymes
271(16)
Stephane Uroz
Phil M. Oger
19 Mining Microbial Signals for Enhanced Biodiscovery of Secondary Metabolites
287
F. Jerry Reen
Jose A. Gutierrez-Barranquero
Fergal O'Gara
Erratum to 1(300)
Index 301