Overview

This volume guides researchers on how to characterize, image rare, and  hitherto unknown taxa and their interactions, to identify new functions and biomolecules and to understand how environmental changes condition the activity and the response of the organisms living with us and in our environment. Chapters cover different organism types (i.e., archaea, bacteria, fungi, protest, microfauna and microeukaryotes) and propose detailed protocols to produce high quality DNA, to analyse active microbial communities directly involved in complex interactions or processes through stable isotope probing, to identify and characterize of new functional genes, to image in situ interactions and to apply bioinformatics analysis tools to complex metagenomic or RNAseq sequence data. Written in the 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 protocols, and notes on troubleshooting and avoiding known pitfalls.   Authoritative and cutting-edge, Microbial Environmental Genomics (MEG): Methods and Protocols, Second Edition aims to serve as a primary research reference for researchers in microbiology working to in the expanding field of molecular ecology and environmental genomics.

Full Product Details

Author:   Francis Martin ,  Stephane Uroz
Publisher:   Springer-Verlag New York Inc.
Imprint:   Springer-Verlag New York Inc.
Edition:   2nd ed. 2023
Volume:   2605
Weight:   0.910kg
ISBN:  

9781071628706

ISBN 10:   1071628704
Pages:   365
Publication Date:   16 December 2022
Audience:   Professional and scholarly ,  Professional & Vocational
Format:   Hardback
Publisher's Status:   Active
Availability:   Manufactured on demand  
We will order this item for you from a manufactured on demand supplier.

Table of Contents

1. Metabarcoding Approaches For Soil Eukaryotes, Protists and Microfauna Guillaume Lentendu, Enrique Lara,  and Stefan Geisen   2. Metabarcoding of the three domains of life in aquatic saline ecosystems Delphine Melayah, Zélia Bontemps, Maxime Bruto, Agnès Nguyen, Philippe Oger, and Mylène Hugoni   3. Sample preparation for fungal community analysis by high-throughput sequencing of barcode amplicons Karina E Clemmensen, Katarina Ihrmark, Mikael Brandström Durling, and Björn D Lindahl   4. Characterization of seed mycobiota using culture-dependent and -independent approaches Gillian E. Bergmann, Sabrina J. Heitmann, Posy E. Busby, and Johan H.J. Leveau   5. Tissue Cultivation, Preparation, and Extraction of High Molecular Weight DNA for Single-Molecule Genome Sequencing of Plant-Associated Fungi Laure Fauchery, Maxim Koriabine, Lillian P. Moore, Yuko Yoshinaga, Kerrie Barry, Annegret Kohler, and Jana M. U'Ren   6. Analysis of ancient microbial DNA Olivier Gorgé, E. Andrew Bennett, Diyendo Massilani, Julien Daligault, Eva-Maria Geigl, and Thierry Grange   7. Whole Genome Sequencing of bacterial endophytes from fresh and preserved plant specimens. Bram Danneels and Aurélien Carlier   8. Investigating the bacterial and fungal communities involved in dead biomass degradation in forest soils Martina Štursová, Ruben López-Mondéjar, and Petr Baldrian   9. Stable isotope probing-RNA strategy to study plant/fungus interactions Amandine Lê Van, Marie Duhamel, Achim Quaiser, and Philippe Vandenkoornhuyse   10. Targeted 16S rRNA Gene Capture by Hybridization and Bioinformatic Analysis  Sophie Comtet-Marre, Oshma Chakoory, and Pierre Peyret   11. Construction of a transposon mutant library in the pathogen Agrobacterium tumefaciens C58 and identification of genes involved in gall niche exploitation and colonization Marta Torres, Almudena Gonzalez-Mula, Delphine Naquin, and Denis Faure   12. High-throughput screening of fosmid libraries for increased identification of novel N-acyl homoserine lactone degrading enzymes Stephane Uroz and Philippe Oger   13. Analyzing prokaryotic transcriptomics in the light of genome data with the MicroScope platform. David Roche, Alexandra Calteau, and David Vallenet   14. MycoCosm, the JGI’s Fungal Genome Portal for Comparative Genomic and Multiomics Data Analyses Steven R. Ahrendt, Stephen J. Mondo, Sajeet Haridas, and Igor V. Grigoriev   15. Investigating endobacteria that thrive within Mucoromycota Alessandro Desirò, Yusuke Takashima, Gregory Bonito, Tomoyasu Nishizawa, Kazuhiko Narisawa, and Paola Bonfante   16. Confocal laser scanning microscopy approach to investigate plant-fungal interactions F. Fracchia, V. Basso, F. Guinet, C. Veneault-Fourrey, and A. Deveau   17. Visualisation of fungi during wood colonisation and decomposition by microscopy: from light to electron microscopy Arnaud Besserer, Christophe Rose, and Aurélie Deveau

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