Metagenomics using next-generation sequencing

Bragg,Lauren and Tyson, Gene W. (2014). Metagenomics using next-generation sequencing. In Ian T. Paulsen and Andrew J. Holmes (Ed.), Environmental Microbiology: Methods and Protocols (pp. 183-201) New York, NY United States: Humana Press Inc.. doi:10.1007/978-1-62703-712-9_15

Author Bragg,Lauren
Tyson, Gene W.
Title of chapter Metagenomics using next-generation sequencing
Title of book Environmental Microbiology: Methods and Protocols
Place of Publication New York, NY United States
Publisher Humana Press Inc.
Publication Year 2014
Sub-type Article (original research)
DOI 10.1007/978-1-62703-712-9_15
Open Access Status Not yet assessed
Year available 2014
Series Methods in Molecular Biology
ISBN 9781627037112
ISSN 1064-3745
Editor Ian T. Paulsen
Andrew J. Holmes
Volume number 1096
Chapter number 18
Start page 183
End page 201
Total pages 19
Total chapters 21
Language eng
Subjects 1312 Molecular Biology
1311 Genetics
Abstract/Summary Traditionally, microbial genome sequencing has been restricted to the small number of species that can be grown in pure culture [1]. The progressive development of culture-independent methods over the last 15 years now allows researchers to sequence microbial communities directly from environmental samples. This approach is commonly referred to as "metagenomics" or "community genomics". However, the term metagenomics is applied liberally in the literature to describe any culture-independent analysis of microbial communities. Here, we define metagenomics as shotgun ("random") sequencing of the genomic DNA of a sample taken directly from the environment. The metagenome can be thought of as a sampling of the collective genome of the microbial community. We outline the considerations and analyses that should be undertaken to ensure the success of a metagenomic sequencing project, including the choice of sequencing platform and methods for assembly, binning, annotation, and comparative analysis.
Keyword Illumina
Microbial ecology
Roche 454
Q-Index Code BX
Q-Index Status Confirmed Code
Institutional Status UQ

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