Overview

This volume aims to capture the entire microbiome analysis pipeline, sample collection, quality assurance, and computational analysis of the resulting data. Chapters detail several example applications of microbiome research, and the protocols described in this book are complemented with short perspectives about the history, current state, and future directions of protocols in microbiomics. Written in the highly 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 laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, Microbiome Analysis: Methods and Protocols aims to ensure successful results in the further study of this vital field.

Full Product Details

Author:   Robert G. Beiko ,  Will Hsiao ,  John Parkinson
Publisher:   Humana Press Inc.
Imprint:   Humana Press Inc.
Edition:   1st ed. 2018
Volume:   1849
Weight:   1.096kg
ISBN:  

9781493987269

ISBN 10:   1493987267
Pages:   324
Publication Date:   09 October 2018
Audience:   Professional and scholarly ,  College/higher education ,  Professional & Vocational ,  Postgraduate, Research & Scholarly
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. Characterizing the Deep Terrestrial Subsurface Microbiome Rebecca A. Daly, Kelly C. Wrighton, and Michael J. Wilkins   2. Freshwater Viromes: From Sampling to Evaluation Catherine Putonti, Zoë Diener, and Siobhan C. Watkins   3. Characterization of Eukaryotic Microbiome using 18S Amplicon Sequencing Ana Popovic and John Parkinson   4. Culture and Molecular Profiling of the Respiratory Tract Microbiota Fiona J. Whelan, Laura Rossi, Jennifer C. Stearns, and Michael G. Surette   5. Methods and Strategies to Examine the Human Breastmilk Microbiome Lauren LeMay-Nedjelski, Julia Copeland, Pauline W. Wang, James Butcher, Sharon Unger, Alain Stintzi, and Deborah L O’Connor   6. Quantification of Vitamin B12-related Proteins in Marine Microbial Systems Using Selected Reaction Monitoring Mass Spectrometry Erin M. Bertrand   7. Single-cell Genomics of Microbial Dark Matter Christian Rinke   8. 16S rRNA Gene Analysis with QIIME2 Michael Hall and Robert Beiko   9. Processing a 16S rRNA Sequencing Dataset with the Microbiome Helper Workflow Gavin M. Douglas, André M. Comeau, and Morgan G. I. Langille   10. Normalization of Microbiome Profiling Data   11. Predicting the Functional Potential of the Microbiome from Marker Genes using PICRUSt Gavin M. Douglas, Robert G. Beiko, and Morgan G. I. Langille   12. Metagenome Assembly and Contig Assignment Qingpeng Zhang   13. From RNA-seq to Biological Inference: Using Compositional Data Analysis in Meta-transcriptomics Jean M. Macklaim and Gregory B. Gloor   14. Subsampled Assemblies and Hybrid Nucleotide Composition/Differential Coverage Binning For Genome-resolved Metagenomics Laura A. Hug 15. Transkingdom Networks: A Systems Biology Approach to Identify Causal Members of Host-Microbiota Interactions Richard R. Rodrigues, Natalia Shulzhenko, and Andrey Morgun   16. Constructing and Analyzing Microbiome Networks in R Mehdi Layeghifard, David M. Hwang, and David S. Guttman   17. Bayesian Inference of Microbial Community Structure from Metagenomic data using BioMiCo Katherine A. Dunn, Katelyn Andrews, Rana O. Bashwih, and Joseph P. Bielawski   18. Analyzing Metabolomic Pathways in Microbiomes Mobolaji Adeolu, John Parkinson, and Xuejian Xiong   19. Sparse Treatment-E_ect Model for Taxon Identi_cation with High-Dimensional Metagenomic Data Zhenqiu Liu and Shili Lin

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