Handbook of molecular microbial ecology I : metagenomics and complementary approaches /
"Handbook of Molecular Microbial Ecology I: Metagenomics and Complementary Approaches is the first comprehensive reference covering the various metagenomics in a large variety of habitats, which could not previously have been analysed without metagenomic methodology. This Volume includes topics...
| Κύριος συγγραφέας: | |
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| Συγγραφή απο Οργανισμό/Αρχή: | |
| Μορφή: | Ηλ. βιβλίο |
| Γλώσσα: | English |
| Έκδοση: |
Hoboken, N.J. :
Wiley-Blackwell,
2011.
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| Θέματα: | |
| Διαθέσιμο Online: | Full Text via HEAL-Link |
Πίνακας περιεχομένων:
- Frontmatter
- Introduction / Frans J de Bruijn
- Background Chapters. DNA Reassociation Yields Broad-Scale Information on Metagenome Complexity and Microbial Diversity / Vigdis L Torsvik, Lise Øvrēs
- Diversity of 23S rRNA Genes within Individual Prokaryotic Genomes / Anna Pei, William E Oberdorf, Carlos W Nossa, Pooja Chokshi, Martin J Blaser, Liying Yang, David M Rosmarin, Zhiheng Pei
- Use of the rRNA Operon and Genomic Repetitive Sequences for the Identification of Bacteria / Andřa Maria Amaral Nascimento
- Use of Different PCR Primer-Based Strategies for Characterization of Natural Microbial Communities / James I Prosser, Shahid Mahmood, Thomas E Freitag
- Horizontal Gene Transfer and Recombination Shape Mesorhizobial Populations in the Gene Center of the Host Plants and in Sichuan, China / Qiongfang Li, Xiaoping Zhang, Ling Zou, Qiang Chen, David P Fewer, Kristina Lindstr̲m
- Amplified rDNA Restriction Analysis (ARDRA) for Identification and Phylogenetic Placement of 16S-rDNA Clones / Menachem Y Sklarz, Roey Angel, Osnat Gillor, Ines M Soares
- Clustering-Based Peak Alignment Algorithm for Objective and Quantitative Analysis of DNA Fingerprinting Data / Satoshi Ishii, Koji Kadota, Keishi Senoo
- The Species Concept. Population Genomics Informs Our Understanding of the Bacterial Species Concept / Margaret A Riley
- The Microbial Pangenome: Implications for Vaccine Development / Annalisa Nuccitelli, Claudio Donati, Micḧle A Barocchi, Rino Rappuoli
- Metagenomic Insights into Bacterial Species / Konstantinos T Konstantinidis
- Reports of Ad Hoc Committees for the Reevaluation of the Species Definition in Bacteriology / Erko Stackebrandt
- Metagenomic Approaches for the Identification of Microbial Species / David M Ward, Melanie C Melendrez, Eric D Becraft, Christian G Klatt, Jason M Wood, Frederick M Cohan
- Metagenomics. Microbial Ecology in the Age of Metagenomics / Jianping Xu
- The Enduring Legacy of Small Subunit rRNA in Microbiology / Susannah G Tringe, Philip Hugenholtz
- Pitfalls of PCR-Based rRNA Gene Sequence Analysis: An Update on Some Parameters / Erko Stackebrandt
- Empirical Testing of 16S PCR Primer Pairs Reveals Variance in Target Specificity and Efficacy not Suggested by Analysis / Sergio E Morales, William E Holben
- The Impact of Next-Generation Sequencing Technologies on Metagenomics / George M Weinstock
- Accuracy and Quality of Massively Parallel DNA Pyrosequencing / Susan M Huse, David B Mark Welch
- Environmental Shotgun Sequencing: Its Potential and Challenges for Studying the Hidden World of Microbes / Jonathan A Eisen
- A Comparison of Random Sequence Reads Versus 16S rDNA Sequences for Estimating the Biodiversity of a Metagenomic Sample / Chaysavanh Manichanh, Charles E Chapple, Lionel Frangeul, Karine Gloux, Roderic Guigo, Joel Dore
- Metagenomic Libraries for Functional Screening / Trine Aakvik, Rahmi Lale, Mark Liles, Svein Valla
- GC Fractionation Allows Comparative Total Microbial Community Analysis, Enhances Diversity Assessment, and Facilitates Detection of Minority Populations of Bacteria / William E Holben
- Enriching Plant Microbiota for a Metagenomic Library Construction / Ying Zeng, Hao-Xin Wang, Zhao-Liang Geng, Yue-Mao Shen
- Towards Automated Phylogenomic Inference / Martin Wu, Jonathan A Eisen
- Integron First Gene Cassettes: A Target to Find Adaptive Genes in Metagenomes / Lionel Huang, Christine Cagnon
- High-Resolution Metagenomics: Assessing Specific Functional Types in Complex Microbial Communities / Ludmila Chistoserdova
- Gene-Targeted Metagenomics (GT Metagenomics) to Explore the Extensive Diversity of Genes of Interest in Microbial Communities / Shoko Iwai, Benli Chai, Ederson da C Jesus, C Ryan Penton, Tae Kwon Lee, James R Cole, James M Tiedje
- Phylogenetic Screening of Metagenomic Libraries Using Homing Endonuclease Restriction and Marker Insertion / Torsten Thomas, Staffan Kjelleberg, Pui Yi Yung
- ArrayOme- and tRNAcc-Facilitated Mobilome Discovery: Comparative Genomics Approaches for Identifying Rich Veins of Bacterial Novel DNA Sequences / Hong-Yu Ou, Kumar Rajakumar
- Sequence-Based Characterization of Microbiomes by Serial Analysis of Ribosomal Sequence Tags (SARST) / Zhongtang Yu, Mark Morrison
- Consortia and Databases. The Metagenomics of Plant Pathogen-Suppressive Soils / Jan Dirk van Elsas, Anna Maria Kielak, Mariana Silvia Cretoiu
- Soil Metagenomic Exploration of the Rare Biosphere / Tom O Delmont, Laure Franqueville, Samuel Jacquiod, Pascal Simonet, Timothy M Vogel
- The BIOSPAS Consortium: Soil Biology and Agricultural Production / Luis Gabriel Wall
- The Human Microbiome Project / George M Weinstock
- The Ribosomal Database Project: Sequences and Software for High-Throughput rRNA Analysis / James R Cole, Qiong Wang, Benli Chai, James M Tiedje
- The Metagenomics RAST Server: A Public Resource for the Automatic Phylogenetic and Functional Analysis of Metagenomes / Elizabeth M Glass, Folker Meyer
- The EBI Metagenomics Archive, Integration and Analysis Resource / C Hunter, G Cochrane, R Apweiler, S Hunter
- Computer-Assisted Analysis. Comparative Metagenome Analysis Using MEGAN / Daniel H Huson, Suparna Mitra
- Phylogenetic Binning of Metagenome Sequence Samples / Alice Carolyn McHardy, Kaustubh Patil
- Gene Prediction in Metagenomic Fragments with Orphelia: A Large-Scale Machine Learning Approach / Katharina H Hoff, Maike Tech, Thomas Lingner, Rolf Daniel, Burkhard Morgenstern, Peter Meinicke
- Binning Metagenomic Sequences Using Seeded GSOM / Ching-Hung Tseng, Chon-Kit Kenneth Chan, Arthur L Hsu, Saman K Halgamuge, Sen-Lin Tang
- Iterative Read Mapping and Assembly Allows the Use of a More Distant Reference in Metagenome Assembly / Bas E Dutilh, Martijn A Huynen, Jolein Gloerich, Marc Strous
- Ribosomal RNA Identification in Metagenomic and Metatranscriptomic Datasets / Ying Huang, Weizhong Li, Patricia W Finn, David L Perkins
- SILVA: Comprehensive Databases for Quality Checked and Aligned Ribosomal RNA Sequence Data Compatible with ARB / Elmar Prosse, Christian Quast, Pelin Yilmaz, Wolfgang Ludwig, J̲rg Peplies, Frank Oliver Gl̲ckner
- ARB: A Software Environment for Sequence Data / Ralf Westram, Kai Bader, Elmar Prosse, Yadhu Kumar, Harald Meier, Frank Oliver Gl̲ckner, Wolfgang Ludwig
- The Phyloware Project: A Software Framework for Phylogenomic Virtue / Daniel N Frank, Charles E Robertson
- MetaSim: A Sequencing Simulator for Genomics and Metagenomics / Daniel C Richter, Felix Ott, Alexander F Auch, Ramona Schmid, Daniel H Huson
- : An Integrated Program Package for the Detection and Semiautomatic Annotation of Secondary Metabolite Clusters in Genomic and Metagenomic DNA Datasets / John Cullum, Antonio Starcevic, Janko Diminic, Jurica Zucko, Paul F Long, Daslav Hranueli
- MetaGene: Prediction of Prokaryotic and Phage Genes in Metagenomic Sequences / Hideki Noguchi
- Primers4clades: A Web Server to Design Lineage-Specific PCR Primers for Gene-Targeted Metagenomics / Bernardo Sachman-Ruiz, Bruno Contreras-Moreira, Enrique Zozaya, Cristina Mart̕nez-Garza, Pablo Vinuesa
- A Parsimony Approach to Biological Pathway Reconstruction/Inference for Metagenomes / Yuzhen Ye, Thomas G Doak
- ESPRIT: Estimating Species Richness Using Large Collections of 16S rRNA Data / Yijun Sun, Yunpeng Cai, Li Liu, Fahong Yu, William Farmerie
- Complementary Approaches. Metagenomic Approaches in Systems Biology / Mar̕a-Eugenia Guazzaroni, Manuel Ferrer
- Towards ₃Focused₄ Metagenomics: A Case Study Combining DNA Stable-Isotope Probing, Multiple Displacement Amplification, and Metagenomics / Yin Chen, Marc G Dumont, Joshua D Neufeld, J Colin Murrell.
- Suppressive Subtractive Hybridization Reveals Extensive Horizontal Transfer in the Rumen Metagenome / Elizabeth A Galbraith, Dionysios A Antonopoulos, Karen E Nelson, Bryan A White
- Microarrays. GeoChip: A High-Throughput Metagenomics Technology for Dissecting Microbial Community Functional Structure / Joy D van Nostrand, Zhili He, Jizhong Zhou
- Phylogenetic Microarrays (PhyloChips) for Analysis of Complex Microbial Communities / Eoin L Brodie
- Phenomics and Phenotype Microarrays: Applications Complementing Metagenomics / Barry R Bochner
- Microbial Persistence in Low-Biomass, Extreme Environments: The Great Unknown / Parag Vaishampayan, James N Benardini, Myron T La Duc, Kasthuri Venkateswaran
- Application of Phylogenetic Oligonucleotide Microarrays in Microbial Analysis / Pankaj Trivedi, Nian Wang
- Metatranscriptomics. Isolation of mRNA from Environmental Microbial Communities for Metatranscriptomic Analyses / Peer M Schenk
- Comparative Day/Night Metatranscriptomic Analysis of Microbial Communities in the North Pacific Subtropical Gyre / Rachel S Poretsky, Mary Ann Moran
- The ₃Double-RNA₄ Approach to Simultaneously Assess the Structure and Function of a Soil Microbial Community / Tim Urich, Christa Schleper
- Soil Eukaryotic Diversity: A Metatranscriptomic Approach / Roland Marmeisse, Julie Bailly, Coralie Damon, Fřďric Lehembre, Marc Lemaire, Micheline W̌solowski-Louvel, Laurence Fraissinet-Tachet
- Metaproteomics. Proteomics for the Analysis of Environmental Stress Responses in Prokaryotes / Ksenia J Groh, Victor J Nesatyy, Marc J-F Suter
- Microbial Community Proteomics / Paul Wilmes
- Synchronicity Between Population Structure and Proteome Profiles: A Metaproteomic Analysis of Chesapeake Bay Bacterial Communities / Jinjun Kan, Thomas E Hanson, Feng Chen
- High-Throughput Cyanobacterial Proteomics: Systems-Level Proteome Identification and Quantitation / Saw Yen Ow, Phillip C Wright
- Protein Expression Profile of an Environmentally Important Bacterial Strain: The Chromate Response of Species Strain FB24 / Kristene L Henne, Joshua E Turse, Cindy H Nakatsu, Allan E Konopka
- Metabolomics. The Small-Molecule Dimension: Mass-Spectrometry-Based Metabolomics, Enzyme Assays, and Imaging / Trent R Northen
- Metabolomics: High-Resolution Tools Offer to Follow Bacterial Growth on a Molecular Level / Lucio Marianna, Agnes Fekete, Moritz Frommberger, Philippe Schmitt-Kopplin
- Metabolic Profiling of Plant Tissues by Electrospray Mass Spectrometry / Heather Walker
- Metabolite Identification, Pathways, and Omic Integration Using Online Databases and Tools / Matthew P Davey
- Single-Cell Analysis. Application of Cytomics to Separate Natural Microbial Communities by their Physiological Properties / Susann Muller, David R Johnson
- Capturing Microbial Populations for Environmental Genomics / Martha Schattenhofer, Annelie Wendeberg
- Microscopic Single-Cell Isolation and Multiple Displacement Amplification of Genomes from Uncultured Prokaryotes / Peter Westermann, Thomas Kvist
- Index.
