Handbook of Molecular Microbial Ecology.Vol.2
Metagenomics in Different Habitats
(Sprache: Englisch)
The premiere two-volume reference on revelations from studying complex microbial communities in many distinct habitats
Metagenomics is an emerging field that has changed the way microbiologists study microorganisms. It involves the genomic analysis...
Metagenomics is an emerging field that has changed the way microbiologists study microorganisms. It involves the genomic analysis...
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Klappentext zu „Handbook of Molecular Microbial Ecology.Vol.2 “
The premiere two-volume reference on revelations from studying complex microbial communities in many distinct habitatsMetagenomics is an emerging field that has changed the way microbiologists study microorganisms. It involves the genomic analysis of microorganisms by extraction and cloning of DNA from a group of microorganisms, or the direct use of the purified DNA or RNA for sequencing, which allows scientists to bypass the usual protocol of isolating and culturing individual microbial species. This method is now used in laboratories across the globe to study microorganism diversity and for isolating novel medical and industrial compounds.
Handbook of Molecular Microbial Ecology is the first comprehensive two-volume reference to cover unculturable microorganisms in a large variety of habitats, which could not previously have been analyzed without metagenomic methodology. It features review articles as well as a large number of case studies, based largely on original publications and written by international experts. This second volume, Metagenomics in Different Habitats, covers such topics as:
* Viral genomes
* Metagenomics studies in a variety of habitats, including marine environments and lakes, soil, and human and animal digestive tracts
* Other habitats, including those involving microbiome diversity in human saliva and functional intestinal metagenomics; diversity of archaea in terrestrial hot springs; and microbial communities living at the surface of building stones
* Biodegradation
* Biocatalysts and natural products
A special feature of this book is the highlighting of the databases and computer programs used in each study; they are listed along with their sites in order to facilitate the computer-assisted analysis of the vast amount of data generated by metagenomic studies. Such studies in a variety of habitats are described here, which present a large number of different system-dependent approaches in greatly differing
... mehr
habitats.
Handbook of Molecular Microbial Ecology II is an invaluable reference for researchers in metagenomics, microbial ecology, microbiology, and environmental microbiology; those working on the Human Microbiome Project; microbial geneticists; and professionals in molecular microbiology and bioinformatics.
Handbook of Molecular Microbial Ecology II is an invaluable reference for researchers in metagenomics, microbial ecology, microbiology, and environmental microbiology; those working on the Human Microbiome Project; microbial geneticists; and professionals in molecular microbiology and bioinformatics.
... weniger
The premiere two-volume reference on revelations from studying complex microbial communities in many distinct habitats Metagenomics is an emerging field that has changed the way microbiologists study microorganisms. It involves the genomic analysis of microorganisms by extraction and cloning of DNA from a group of microorganisms, or the direct use of the purified DNA or RNA for sequencing, which allows scientists to bypass the usual protocol of isolating and culturing individual microbial species. This method is now used in laboratories across the globe to study microorganism diversity and for isolating novel medical and industrial compounds.
Handbook of Molecular Microbial Ecology is the first comprehensive two-volume reference to cover unculturable microorganisms in a large variety of habitats, which could not previously have been analyzed without metagenomic methodology. It features review articles as well as a large number of case studies, based largely on original publications and written by international experts. This second volume, Metagenomics in Different Habitats, covers such topics as:
- Viral genomes
- Metagenomics studies in a variety of habitats, including marine environments and lakes, soil, and human and animal digestive tracts
- Other habitats, including those involving microbiome diversity in human saliva and functional intestinal metagenomics; diversity of archaea in terrestrial hot springs; and microbial communities living at the surface of building stones
- Biodegradation
- Biocatalysts and natural products
A special feature of this book is the highlighting of the databases and computer programs used in each study; they are listed along with their sites in order to facilitate the computer-assisted analysis of the vast amount of data generated by metagenomic studies. Such studies in a variety of habitats are described here, which present a large number of different system-dependent approaches in greatly differing habitats.
Handbook of Molecular Microbial Ecology II is an invaluable reference for researchers in metagenomics, microbial ecology, microbiology, and environmental microbiology; those working on the Human Microbiome Project; microbial geneticists; and professionals in molecular microbiology and bioinformatics.ity in human saliva and functional intestinal metagenomics; diversity of archaea in terrestrial hot springs; and microbial communities living at the surface of building stones
- Biodegradation
- Biocatalysts and natural products
A special feature of this book is the highlighting of the databases and computer programs used in each study; they are listed along with their sites in order to facilitate the computer-assisted analysis of the vast amount of data generated by metagenomic studies. Such studies in a variety of habitats are described here, which present a large number of different system
Handbook of Molecular Microbial Ecology is the first comprehensive two-volume reference to cover unculturable microorganisms in a large variety of habitats, which could not previously have been analyzed without metagenomic methodology. It features review articles as well as a large number of case studies, based largely on original publications and written by international experts. This second volume, Metagenomics in Different Habitats, covers such topics as:
- Viral genomes
- Metagenomics studies in a variety of habitats, including marine environments and lakes, soil, and human and animal digestive tracts
- Other habitats, including those involving microbiome diversity in human saliva and functional intestinal metagenomics; diversity of archaea in terrestrial hot springs; and microbial communities living at the surface of building stones
- Biodegradation
- Biocatalysts and natural products
A special feature of this book is the highlighting of the databases and computer programs used in each study; they are listed along with their sites in order to facilitate the computer-assisted analysis of the vast amount of data generated by metagenomic studies. Such studies in a variety of habitats are described here, which present a large number of different system-dependent approaches in greatly differing habitats.
Handbook of Molecular Microbial Ecology II is an invaluable reference for researchers in metagenomics, microbial ecology, microbiology, and environmental microbiology; those working on the Human Microbiome Project; microbial geneticists; and professionals in molecular microbiology and bioinformatics.ity in human saliva and functional intestinal metagenomics; diversity of archaea in terrestrial hot springs; and microbial communities living at the surface of building stones
- Biodegradation
- Biocatalysts and natural products
A special feature of this book is the highlighting of the databases and computer programs used in each study; they are listed along with their sites in order to facilitate the computer-assisted analysis of the vast amount of data generated by metagenomic studies. Such studies in a variety of habitats are described here, which present a large number of different system
Inhaltsverzeichnis zu „Handbook of Molecular Microbial Ecology.Vol.2 “
Preface xiiiContributors xv
1. Introduction 1
Frans J. de Bruijn
Part 1 Viral Genomes
2. Viral Metagenomics 5
Shannon J. Williamson
3. Methods in Viral Metagenomics 15
Rebecca Vega Thurber
4. Metagenomic Contrasts of Viruses in Soil and Aquatic Environments 25
K. Eric Wommack, Sharath Srinivasiah, Mark R. Liles, Jaysheel Bhavsar, Shellie Bench, Kurt E. Williamson, and Shawn W. Polson
5. Biodiversity and Biogeography of Phages in Modern Stromatolites and Thrombolites 37
Christelle Desnues, Beltran Rodriguez-Brito, Steve Rayhawk, Scott Kelley, Tuong Tran, Matthew Haynes, Hong Liu, Mike Furlan, Linda Wegley, Betty Chau, Yijun Ruan, Dana Hall, Florent E. Angly, Robert A. Edwards, Linlin Li, Rebecca Vega Thurber, R. Pamela Reid, Janet Siefert, Valeria Souza, David L. Valentine, Brandon K. Swan, Mya Breitbart, and Forest Rohwer
6. Assembly of Viral Metagenomes from Yellowstone Hot Springs Reveals Phylogenetic Relationships and Host Co-Evolution 45
Thomas W. Schoenfeld and David Mead
7. Next-Generation Sequencing and Metagenomic Analysis: A Universal Diagnostic Tool in Plant Pathology 63
Ian P. Adams, Rachel H. Glover, Wendy A. Monger, Richard Thwaites, Rick Mumford, Elena Jackeviciene, Meletele Navalinskiene, Marija Samuitiene, and Neil Boonham
8. Direct Metagenomic Detection of Viral Pathogens in Human Specimens Using an Unbiased High-Throughput Sequencing Approach 73
Takaaki Nakaya, Shota Nakamura, Yoshiko Okamoto, Yoshiyuki Nagai, Jun Kawai, Yoshihide Hayashizaki, Tetsuya Iida, and Toshihiro Horii
Part 2 The Soil Habitat
9. Soil-Based Metagenomics 83
Rolf Daniel
10. Methods in Metagenomic DNA, RNA, and Protein Isolation from Soil 93
T. Rajesh, J. Rajendhran, P. Lavanya Pushpam, and P. Gunasekaran
11. Soil Microbial DNA Purification Strategies for Multiple Metagenomic Applications 109
Larissa C. Parsley, Chengcang Wu, David Mead,
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Robert M. Goodman, and Mark R. Liles
12. Application of PCR-DGGE and MetagenomeWalking to Retrieve Full-Length Functional Genes from Soil 117
Sho Morimoto and Takeshi Fujii
13. Actinobacterial Diversity Associated with Antarctic Dry Valley Mineral Soils 125
Bronwyn M. Kirby, Marilize Le Roes-Hill, S. Craig Cary, Stephanie G. Burton, I. Marla Tuffin, and Don A. Cowan
14. Targeting Major Soil-Borne Bacterial Lineages Using Large-Insert Metagenomic
Approaches 135
Anna M. Kielak and George A. Kowalchuk
15. Novelty and Uniqueness Patterns of Rare Members of the Soil Biosphere 143
Mostafa S. Elshahed and Noha H. Youssef
16. Extensive Phylogenetic Analysis of a Soil Bacterial Community Illustrates Extreme Taxon Evenness and the Effects of Amplicon Length, Degree of Coverage, and DNA Fractionation on Classification and Ecological Parameters 151
Sergio E. Morales, Theodore F. Cosart, Jesse V. Johnson, and William E. Holben
17. The Antibiotic Resistome: Origins, Diversity, and Future Prospects 165
Erin L.Westman and Gerard D.Wright
Part 3 The Digestive Tract
18. Functional Intestinal Metagenomics 177
Bartholomeus van den Bogert, Milkha M. Leimena, Willem M. de Vos, Erwin G. Zoetendal, and Michiel Kleerebezem
19. Assessment and Improvement of Methods for Microbial DNA Preparation from Fecal Samples 191
Mariko Ueno, Mami Kikuchi, Kenshiro Oshima, Seok-won Kim, Hidetoshi Morita, and Masahira Hattori
20. The Role of Dysbiosis in Inflammatory Bowel Diseases 199
Johan Dicksved and Ben Willing
21. Culture-Independent Analysis of the Human Gut Microbiota and their Activities 207
Jonathan Swann, Selena E. Richards, Qing Shen, Elaine Holmes, Julian R. Marchesi, and Kieran Tuohy
22. Complete Genome of an Uncultured Endosymbiont
12. Application of PCR-DGGE and MetagenomeWalking to Retrieve Full-Length Functional Genes from Soil 117
Sho Morimoto and Takeshi Fujii
13. Actinobacterial Diversity Associated with Antarctic Dry Valley Mineral Soils 125
Bronwyn M. Kirby, Marilize Le Roes-Hill, S. Craig Cary, Stephanie G. Burton, I. Marla Tuffin, and Don A. Cowan
14. Targeting Major Soil-Borne Bacterial Lineages Using Large-Insert Metagenomic
Approaches 135
Anna M. Kielak and George A. Kowalchuk
15. Novelty and Uniqueness Patterns of Rare Members of the Soil Biosphere 143
Mostafa S. Elshahed and Noha H. Youssef
16. Extensive Phylogenetic Analysis of a Soil Bacterial Community Illustrates Extreme Taxon Evenness and the Effects of Amplicon Length, Degree of Coverage, and DNA Fractionation on Classification and Ecological Parameters 151
Sergio E. Morales, Theodore F. Cosart, Jesse V. Johnson, and William E. Holben
17. The Antibiotic Resistome: Origins, Diversity, and Future Prospects 165
Erin L.Westman and Gerard D.Wright
Part 3 The Digestive Tract
18. Functional Intestinal Metagenomics 177
Bartholomeus van den Bogert, Milkha M. Leimena, Willem M. de Vos, Erwin G. Zoetendal, and Michiel Kleerebezem
19. Assessment and Improvement of Methods for Microbial DNA Preparation from Fecal Samples 191
Mariko Ueno, Mami Kikuchi, Kenshiro Oshima, Seok-won Kim, Hidetoshi Morita, and Masahira Hattori
20. The Role of Dysbiosis in Inflammatory Bowel Diseases 199
Johan Dicksved and Ben Willing
21. Culture-Independent Analysis of the Human Gut Microbiota and their Activities 207
Jonathan Swann, Selena E. Richards, Qing Shen, Elaine Holmes, Julian R. Marchesi, and Kieran Tuohy
22. Complete Genome of an Uncultured Endosymbiont
... weniger
Autoren-Porträt von Frans J. de Bruijn
Frans J. de Bruijn received his Ph.D. (Cellular and Developmental Biology; Microbial Genetics) from Harvard University in 1983. His resume reflects an array of experiences as a teacher, researcher, board member and a plethora of other accomplishments. He is currently Director of Research at the Laboratory for Plant-Microbe Interactions in Toulouse, France.
Bibliographische Angaben
- Autor: Frans J. de Bruijn
- 2011, 1. Auflage, 600 Seiten, Maße: 22,3 x 28,2 cm, Gebunden, Englisch
- Verlag: Wiley & Sons
- ISBN-10: 0470647191
- ISBN-13: 9780470647196
- Erscheinungsdatum: 12.10.2011
Sprache:
Englisch
Pressezitat
"Handbook of Molecular Microbial Ecology II is an invaluable reference for researchers in metagenomics, microbial ecology, microbiology; those working on the Human Microbiome Project; microbial geneticists; and professionals in molecular microbiology and bioinformatics." (Bois et Forets des Tropiques, 2011)
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