Metagenomics: Methods and Protocols

1. Molecular Methods to Study Complex Microbial CommunitiesMaría-Eugenia Guazzaroni, Ana Beloqui, José M. Vieites, Peter N. Golyshin, and Manuel Ferrer2. Construction of Small-Insert and Large-Insert Metagenomic LibrariesCarola Simon and Rolf Daniel3. Construction and Screening of Marine Metagenomic LibrariesNancy Weiland, Carolin Löscher, Rebekka Metzger, and Ruth Schmitz4. Metagenomic Analysis of Isotopically Enriched DNAYin Chen, Josh D. Neufeld, Marc G. Dumont, Michael W. Friedrich, and J. Colin Murrell5. Wide Host-Range Cloning for Functional MetagenomicsMargaret Wexler and Andrew W.B. Johnston6. Cloning and Expression Vectors for a Gram-Positive Host, Streptomyces lividansKristof Vrancken and Jozef Anné7. Heterologous Gene Expression in the Hyperthermophilic Archaeon Sulfolobus solfataricusAngel Angelov and Wolfgang Liebl8. Novel Tools for the Functional Expression of Metagenomic DNASonja Christina Troeschel, Thomas Drepper, Christian Leggewie, Wolfgang R. Streit, and Karl-Erich Jaeger9. Screening of Functional Promoter from Metagenomic DNA for Practical Use in Expression SystemsSo-Youn Park and Geun-Joong Kim10. Substrate-Induced Gene Expression (SIGEX) Screening: A Method for High-Throughput Screening of Metagenome LibrariesTaku Uchiyama and Kentaro Miyazaki11. Screens for Active and Stereoselective Hydrolytic EnzymesDominique Böttcher, Marlen Schmidt, and Uwe T. Bornscheuer12. Screening for Cellulase Encoding Clones in Metagenomic LibrariesNele Ilmberger and Wolfgang R. Streit13. Screening Metagenomic Libraries for Laccase ActivitiesManuel Ferrer, Ana Beloqui, and Peter N. Golyshin14. Screening for N-AHSL-Based-Signaling Interfering EnzymesPhil M. Oger and Stéphane Uroz15. Identification of Molecular Markers to Follow Up the Bioremediation of Sites Contaminated with Chlorinated CompoundsMassimo Marzorati, Annalisa Balloi, Francesca De Ferra, and Daniele Daffonchio16. Methods for the Isolationof Genes Encoding Novel PHB Cycle Enzymes from Complex Microbial CommunitiesRicardo Nordeste, Maria A. Trainer, and Trevor C. Charles17. Metagenomic Approaches to Identify and Isolate Bioactive Natural Products from Microbiota of Marine SpongesCristian Gurgui and Jörn Piel18. Screening for Novel Antibiotic Resistance GenesMindy G. Brown, Elizabeth H. Mitchell, and David L. Balkwill19. Novel Metal Resistance Genes from Microorganisms: A Functional Metagenomic ApproachJosé E. González-Pastor and Salvador Mirete20. Retrieval of Full Length Functional Genes Using Subtractive Hybridization Magnetic Bead CaptureTracy Meiring, Inonge Mulako, Marla I. Tuffin, Quinton Meyer, and Donald A. Cowan21. Detection and Isolation of Selected Genes of Interest from Metagenomic Libraries by a DNA Microarray ApproachGopal P. Pathak and Wolfgang Gärtner22. Application of DNA Microarray for Screening Metagenome Library ClonesSoo-Je Park, Jong-Chan Chae, and Sung-Keun Rhee23. MetaGenomeThreader: A Software Tool for Predicting Genes in DNA-Sequences of Metagenome ProjectsDavid J. Schmitz-Hübsch and Stefan Kurtz