Journal
JOURNAL OF MICROBIOLOGICAL METHODS
Volume 91, Issue 1, Pages 106-113Publisher
ELSEVIER
DOI: 10.1016/j.mimet.2012.07.017
Keywords
High-throughput sequencing; Illumina, 454, metagenomics; Taxonomic-profiling; Metabolic-profiling; Microbial community
Categories
Funding
- Department of Biology
- University of Oslo
- MLSUIO (Molecular Life Science)
- ForBio (Norwegian-Swedish Research School in Biosystematics)
- Marie Curie Intra-European Fellowship [PIEF-GA-2009-235365]
- VISTA/Statoil [6503]
- Engineering and Physical Sciences Research Council [EP/H003851/1] Funding Source: researchfish
- EPSRC [EP/H003851/1] Funding Source: UKRI
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The incursion of High-Throughput Sequencing (HTS) in environmental microbiology brings unique opportunities and challenges. HI'S now allows a high-resolution exploration of the vast taxonomic and metabolic diversity present in the microbial world, which can provide an exceptional insight on global ecosystem functioning, ecological processes and evolution. This exploration has also economic potential, as we will have access to the evolutionary innovation present in microbial metabolisms, which could be used for biotechnological development. HIS is also challenging the research community, and the current bottleneck is present in the data analysis side. At the moment, researchers are in a sequence data deluge, with sequencing throughput advancing faster than the computer power needed for data analysis. However, new tools and approaches are being developed constantly and the whole process could be depicted as a fast co-evolution between sequencing technology, informatics and microbiologists. In this work, we examine the most popular and recently commercialized HIS platforms as well as bioinformatics methods for data handling and analysis used in microbial metagenomics. This non-exhaustive review is intended to serve as a broad state-of-the-art guide to researchers expanding into this rapidly evolving field. (C) 2012 Elsevier B.V. All rights reserved.
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