Abstract
Metagenomic analysis is a foundational tool for exploring microbial communities within free-living and host-associated environments. Metagenomics links together amplicon analysis and metatranscriptomics, as well as being considered a stand-alone tool, essential for any microbiologist’s toolbox. Within petroleum hydrocarbon environments, metagenomics is capable of laying the foundational understanding of the microenvironments that comprise microbial communities. In this work, we detail a systematic method for processing and analyzing metagenomic libraries for hydrocarbon-associated microbial communities utilizing Illumina’s next-generation sequencing platforms.
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References
Lorenz P, Eck J (2005) Metagenomics industrial applications. Nat Rev Microbiol 3:510–516. doi:10.1038/nrmicro1161
Segata N, Boernigen D, Tickle TL, Morgan XC, Garrett WS, Huttenhower C (2013) Computational meta’omics for microbial community studies. Mol Syst Biol. doi:10.1038/msb.2013.22
Hampton-Marcell JT, Moormann SM, Owens SM, Gilbert JA (2013) Preparation and metatranscriptomic analyses of host-microbe systems. In: Microbial metagenomics, metatranscriptomics, and metaproteomics, vol 531. Academic. ISBN 978-0-12-407863-5. ISSN 0076–6879, p 169
Mason O, Hazen T, Borglin S, Chain P, Dubinsky E, Fortney J et al (2012) Metagenome, metatranscriptome and single-cell sequencing reveal microbial response to deepwater horizon oil spill. ISME J 6(9):1715–1727
Rubin BER, Gibbons SM, Kennedy S, Hampton-Marcell J, Owens S, Gilbert J (2013) Investigating the impact of storage conditions on microbial community composition in soil samples. PLoS One. doi:10.1371/journal.pone.0070460
Wang LY, Ke WJ, Sun XB, Liu JF, Gu JD, Mu BZ (2013) Comparison of bacterial community in aqueous and oil phases of water-flooded petroleum reservoirs using pyrosequencing and clone library approaches. Appl Microbiol Biotechnol. doi:10.1007/s00253-013-5472-y
Korenblum E, Souza DB, Penna M, Seldin L (2013) Molecular analysis of the bacterial communities in crude oil samples from two Brazilian offshore petroleum platforms. Int J Microbiol. doi:10.1155/2012/156537
Thomas T, Gilbert J, Meyer F (2012) Metagenomics – a guide from sampling to data analysis. Microb Inform Exp. doi:10.1186/2042-5783-2-3
Myer F, Paarmann D, D’Souza M, Olson R, Glass EM, Kubal M, Paczian T, Rodriguez A, Stevens R, Wilke A, Wilkening J, Edwards RA (2008) The metagenomics RAST server – a public resource for the automatic phylogenetic and functional analysis of metagenomes. BMC Bioinformatics 9:386. doi:10.1186/1471-2105-9-386
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Moormann, S.M., Hampton-Marcell, J.T., Owens, S.M., Gilbert, J.A. (2014). Protocols for Metagenomic Library Generation and Analysis in Petroleum Hydrocarbon Microbe Systems. In: McGenity, T., Timmis, K., Nogales , B. (eds) Hydrocarbon and Lipid Microbiology Protocols. Springer Protocols Handbooks. Springer, Berlin, Heidelberg. https://doi.org/10.1007/8623_2014_37
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DOI: https://doi.org/10.1007/8623_2014_37
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