Transcriptome fingerprinting analysis: an approach to explore gene expression patterns in marine microbial communities
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- dc.contributor.author Coll Lladó, Montserratca
- dc.contributor.author Acinas, Silvia G.ca
- dc.contributor.author Pujades Corbi, Cristinaca
- dc.contributor.author Pedrós-Alió, Carlesca
- dc.date.accessioned 2015-05-04T07:43:01Z
- dc.date.available 2015-05-04T07:43:01Z
- dc.date.issued 2011ca
- dc.description.abstract Microbial transcriptomics are providing new insights into the functional processes of microbial communities. However, analysis of each sample is still expensive and time consuming. A rapid and low cost method that would allow the identification of the most interesting samples for posterior in-depth metatranscriptomics analysis would be extremely useful. Here we present Transcriptome Fingerprinting Analysis (TFA) as an approach to fulfill this objective in microbial ecology studies. We have adapted the differential display technique for mRNA fingerprinting based on the PCR amplification of expressed transcripts to interrogate natural microbial eukaryotic communities. Unlike other techniques, TFA does not require prior knowledge of the mRNA sequences to be detected. We have used a set of arbitrary primers coupled with a fluorescence labeled primer targeting the poly(A) tail of the eukaryotic mRNA, with further detection of the resulting labeled cDNA products in an automated genetic analyzer. The output represented by electropherogram peak patterns allowed the comparison of a set of genes expressed at the time of sampling. TFA has been optimized by testing the sensitivity of the method for different initial RNA amounts, and the repeatability of the gene expression patterns with increasing time after sampling both with cultures and environmental samples. Results show that TFA is a promising approach to explore the dynamics of gene expression patterns in microbial communitiesen
- dc.description.sponsorship MC-L was the recipient of an FPI fellowship from the Spanish Ministry of Science and Innovation. This work was funded by grant GEMMA (CTM2007- 63753-C02-01/MAR) from the Spanish Ministry of Science and Innovation. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscripten
- dc.format.mimetype application/pdfca
- dc.identifier.citation Coll-Lladó M, Acinas SG, Pujades C, Pedrós-Alió C. Transcriptome fingerprinting analysis: an approach to explore gene expression patterns in marine microbial communities. PLoS ONE. 2011;6(8):e22950. DOI: 10.1371/journal.pone.0022950ca
- dc.identifier.doi http://dx.doi.org/10.1371/journal.pone.0022950
- dc.identifier.issn 1932-6203ca
- dc.identifier.uri http://hdl.handle.net/10230/23511
- dc.language.iso engca
- dc.publisher Public Library of Science (PLoS)ca
- dc.relation.ispartof PLoS ONE. 2011;6(8):e22950
- dc.rights © 2011 Coll-Lladó et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited
- dc.rights.accessRights info:eu-repo/semantics/openAccessca
- dc.subject.other RNA missatgerca
- dc.subject.other ADNca
- dc.subject.other Dactiloscòpiaca
- dc.title Transcriptome fingerprinting analysis: an approach to explore gene expression patterns in marine microbial communitiesen
- dc.type info:eu-repo/semantics/articleca
- dc.type.version info:eu-repo/semantics/publishedVersionca