Metagenomics : methods and protocols / edited by Wolfgang R. Streit, Rolf Daniel.

Contributor(s): Streit, Wolfgang R | Daniel, Rolf
Material type: TextTextSeries: Methods in molecular biology (Clifton, N.J.): v. 668.; Springer protocols (Series): Publisher: New York : Humana Press, ©2010Description: 1 online resource (xi, 341 pages) : illustrationsContent type: text Media type: computer Carrier type: online resourceISBN: 9781607618232; 1607618230Subject(s): Microbial genomics | Genetics | Genome | Publication Formats | Genomics | Investigative Techniques | Microbiology | Biology | Analytical, Diagnostic and Therapeutic Techniques and Equipment | Genetic Structures | Publication Characteristics | Genetics, Microbial | Metagenome | Metagenomics | Methods | Laboratory Manuals | Biological Science Disciplines | Genetic Phenomena | Natural Science Disciplines | Phenomena and Processes | Disciplines and Occupations | Microbial genomics | Biology | Health & Biological Sciences | Genetics | biomedische wetenschappen | biomedicine | microorganisms | genomica | genomics | humane genetica | human genetics | Medicine (General) | Geneeskunde (algemeen)Genre/Form: Electronic books. Additional physical formats: Print version:: Metagenomics.DDC classification: 572.8/6 LOC classification: QH447 | .M48 2010Online resources: Click here to access online
Contents:
Molecular Methods to Study Complex Microbial Communities / José M. Vieites, María-Eugenia Guazzaroni, Ana Beloqui, Peter N. Golyshin, and Manuel Ferrer -- Construction of Small-Insert and Large-Insert Metagenomic Libraries / Carola Simon and Rolf Daniel -- Construction and Screening of Marine Metagenomic Libraries / Nancy Weiland, Carolin Löscher, Rebekka Metzger, and Ruth Schmitz -- Metagenomic Analysis of Isotopically Enriched DNA / Yin Chen, Josh D. Neufeld, Marc G. Dumont, Michael W. Friedrich, and J. Colin Murrell -- Wide Host-Range Cloning for Functional Metagenomics / Margaret Wexler and Andrew W.B. Johnston -- Cloning and Expression Vectors for a Gram-Positive Host, Streptomyces lividans / Kristof Vrancken, Lieve Van Mellaert, and Jozef Anné -- Heterologous Gene Expression in the Hyperthermophilic Archaeon Sulfolobus solfataricus / Angel Angelov and Wolfgang Liebl -- Novel Tools for the Functional Expression of Metagenomic DNA / Sonja Christina Troeschel, Thomas Drepper, Christian Leggewie, Wolfgang R. Streit, and Karl-Erich Jaeger -- Screening of Functional Promoter from Metagenomic DNA for Practical Use in Expression Systems / So-Youn Park and Geun-Joong Kim -- Substrate-Induced Gene Expression Screening: A Method for High-Throughput Screening of Metagenome Libraries / Taku Uchiyama and Kentaro Miyazaki -- Screens for Active and Stereoselective Hydrolytic Enzymes / Dominique Böttcher, Marlen Schmidt, and Uwe T. Bornscheuer.
Screening for Cellulase-Encoding Clones in Metagenomic Libraries / Nele Ilmberger and Wolfgang R. Streit -- Screening Metagenomic Libraries for Laccase Activities / Manuel Ferrer, Ana Beloqui, and Peter N. Golyshin -- Screening for N-AHSL-Based-Signaling Interfering Enzymes / Phil M. Oger and Stéphane Uroz -- 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 -- Methods for the Isolation of Genes Encoding Novel PHB Cycle Enzymes from Complex Microbial Communities / Ricardo F. Nordeste, Maria A. Trainer, and Trevor C. Charles -- Metagenomic Approaches to Identify and Isolate Bioactive Natural Products from Microbiota of Marine Sponges / Cristian Gurgui and Jörn Piel -- Screening for Novel Antibiotic Resistance Genes / Mindy G. Brown, Elizabeth H. Mitchell, and David L. Balkwill -- Novel Metal Resistance Genes from Microorganisms: A Functional Metagenomic Approach / José E. González-Pastor and Salvador Mirete -- 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 -- Detection and Isolation of Selected Genes of Interest from Metagenomic Libraries by a DNA Microarray Approach / Gopal P. Pathak and Wolfgang Gärtner -- Application of DNA Microarray for Screening Metagenome Library Clones / Soo-Je Park, Jong-Chan Chae, and Sung-Keun Rhee -- MetaGenomeThreader: A Software Tool for Predicting Genes in DNA-Sequences of Metagenome Projects / David J. Schmitz-Hübsch and Stefan Kurtz.
Summary: 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 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.
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Includes bibliographical references and index.

Molecular Methods to Study Complex Microbial Communities / José M. Vieites, María-Eugenia Guazzaroni, Ana Beloqui, Peter N. Golyshin, and Manuel Ferrer -- Construction of Small-Insert and Large-Insert Metagenomic Libraries / Carola Simon and Rolf Daniel -- Construction and Screening of Marine Metagenomic Libraries / Nancy Weiland, Carolin Löscher, Rebekka Metzger, and Ruth Schmitz -- Metagenomic Analysis of Isotopically Enriched DNA / Yin Chen, Josh D. Neufeld, Marc G. Dumont, Michael W. Friedrich, and J. Colin Murrell -- Wide Host-Range Cloning for Functional Metagenomics / Margaret Wexler and Andrew W.B. Johnston -- Cloning and Expression Vectors for a Gram-Positive Host, Streptomyces lividans / Kristof Vrancken, Lieve Van Mellaert, and Jozef Anné -- Heterologous Gene Expression in the Hyperthermophilic Archaeon Sulfolobus solfataricus / Angel Angelov and Wolfgang Liebl -- Novel Tools for the Functional Expression of Metagenomic DNA / Sonja Christina Troeschel, Thomas Drepper, Christian Leggewie, Wolfgang R. Streit, and Karl-Erich Jaeger -- Screening of Functional Promoter from Metagenomic DNA for Practical Use in Expression Systems / So-Youn Park and Geun-Joong Kim -- Substrate-Induced Gene Expression Screening: A Method for High-Throughput Screening of Metagenome Libraries / Taku Uchiyama and Kentaro Miyazaki -- Screens for Active and Stereoselective Hydrolytic Enzymes / Dominique Böttcher, Marlen Schmidt, and Uwe T. Bornscheuer.

Screening for Cellulase-Encoding Clones in Metagenomic Libraries / Nele Ilmberger and Wolfgang R. Streit -- Screening Metagenomic Libraries for Laccase Activities / Manuel Ferrer, Ana Beloqui, and Peter N. Golyshin -- Screening for N-AHSL-Based-Signaling Interfering Enzymes / Phil M. Oger and Stéphane Uroz -- 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 -- Methods for the Isolation of Genes Encoding Novel PHB Cycle Enzymes from Complex Microbial Communities / Ricardo F. Nordeste, Maria A. Trainer, and Trevor C. Charles -- Metagenomic Approaches to Identify and Isolate Bioactive Natural Products from Microbiota of Marine Sponges / Cristian Gurgui and Jörn Piel -- Screening for Novel Antibiotic Resistance Genes / Mindy G. Brown, Elizabeth H. Mitchell, and David L. Balkwill -- Novel Metal Resistance Genes from Microorganisms: A Functional Metagenomic Approach / José E. González-Pastor and Salvador Mirete -- 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 -- Detection and Isolation of Selected Genes of Interest from Metagenomic Libraries by a DNA Microarray Approach / Gopal P. Pathak and Wolfgang Gärtner -- Application of DNA Microarray for Screening Metagenome Library Clones / Soo-Je Park, Jong-Chan Chae, and Sung-Keun Rhee -- MetaGenomeThreader: A Software Tool for Predicting Genes in DNA-Sequences of Metagenome Projects / David J. Schmitz-Hübsch and Stefan Kurtz.

Print version record.

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 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.

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