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Methods for Microbiome Analysis

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Translational Bioinformatics and Its Application

Part of the book series: Translational Medicine Research ((TRAMERE))

Abstract

Metagenomics is gaining importance as an invaluable tool as it attempts to determine directly the whole collection of genes and analyze from microbes in a particular environment where they interact with each other by exchanging nutrients, metabolites, and signaling molecules. The development of affordable next-generation sequencers has led to democratization of sequencing, but their ever-growing throughput is making data analysis increasingly complex. This has introduced a plethora of challenges with respect to design of experiments, bioinformatics, and downstream processing. This chapter aims to provide an overview of the currently available methodologies and tools for performing every individual step of a typical metagenomic data set analysis and expected to serve as a useful resource for microbial ecologists and bioinformaticians.

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Acknowledgments

The authors wish to acknowledge the Department of Biotechnology (DBT), Govt. of India, New Delhi for the financial support in the form of State Biotech Hub (BT/04/NE/2009) and Bioinformatics Infrastructure Facility (BT/BI/12/060/2012 (NERBIF-MUA)). KSI acknowledge the financial assistance provided by DST-SERB, New Delhi through young scientist scheme (YSS/2014/000657).

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  1. Department of Biotechnology, Mizoram University, Aizawl, Mizoram, 796 004, India

    Kalibulla Syed Ibrahim & Nachimuthu Senthil Kumar

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  1. Kalibulla Syed Ibrahim
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  2. Nachimuthu Senthil Kumar
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Correspondence to Nachimuthu Senthil Kumar .

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  1. State Key Laboratory of Microbial Metabolism and School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, China

    Dong-Qing Wei

  2. Center for Neurosciences, The Feinstein Institute for Medical Research, New York, USA

    Yilong Ma

  3. Department of Molecular Medicine, Hofstra Northwell School of Medicine, New York, USA

    William C.S. Cho

  4. Department of Clinical Oncology, Queen Elizabeth Hospital, Hong Kong, Hong Kong

    Qin Xu

  5. College of Computer Science & Technology, Jilin University, Changchun, Jilin, China

    Fengfeng Zhou

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Ibrahim, K.S., Kumar, N.S. (2017). Methods for Microbiome Analysis. In: Wei, DQ., Ma, Y., Cho, W., Xu, Q., Zhou, F. (eds) Translational Bioinformatics and Its Application. Translational Medicine Research. Springer, Dordrecht. https://doi.org/10.1007/978-94-024-1045-7_12

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