Application of metatranscriptomics to soil environments

Carvalhais, Lilia C., Dennis, Paul G., Tyson, Gene W. and Schenk, Peer M. (2012) Application of metatranscriptomics to soil environments. Journal of Microbiological Methods, 91 2: 246-251. doi:10.1016/j.mimet.2012.08.011


Author Carvalhais, Lilia C.
Dennis, Paul G.
Tyson, Gene W.
Schenk, Peer M.
Title Application of metatranscriptomics to soil environments
Journal name Journal of Microbiological Methods   Check publisher's open access policy
ISSN 0167-7012
1872-8359
Publication date 2012-11-01
Sub-type Critical review of research, literature review, critical commentary
DOI 10.1016/j.mimet.2012.08.011
Volume 91
Issue 2
Start page 246
End page 251
Total pages 6
Place of publication Amsterdam, Netherlands
Publisher Elsevier
Collection year 2013
Language eng
Abstract The activities of soil microbial communities are of critical importance to terrestrial ecosystem functioning. The mechanisms that determine the interactions between soil microorganisms, their environment and neighbouring organisms, however, are poorly understood. Due to advances in sequencing technologies, an increasing number of metagenomics studies are being conducted on samples from diverse environments including soils. This information has not only increased our awareness of the functional potential of soil microbial communities, but also constitutes powerful reference material for soil metatranscriptomics studies. Metatranscriptomics provides a snapshot of transcriptional profiles that correspond to discrete populations within a microbial community at the time of sampling. This information can indicate the potential activities of complex microbial communities and the mechanisms that regulate them. Here we summarise the technical challenges for metatranscriptomics applied to soil environments and discuss approaches for gaining biologically meaningful insight into these datasets.
Keyword Metatranscriptomics
Metagenomics
Soil
High-throughput sequencing
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status UQ
Additional Notes Available online: 29 August 2012.

Document type: Journal Article
Sub-type: Critical review of research, literature review, critical commentary
Collections: School of Agriculture and Food Sciences
Official 2013 Collection
Australian Centre for Ecogenomics
Advanced Water Management Centre Publications
 
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