Unraveling the stratification of an iron-oxidizing microbial mat by metatranscriptomics
| Autor: | André-Jean Francez, Sophie Coudouel, Achim Quaiser, Philippe Vandenkoornhuyse, Xavier Bodi, Delphine Naquin, Alexis Dufresne, Mathieu Pédrot, Alexandra Dheilly |
|---|---|
| Přispěvatelé: | Ecosystèmes, biodiversité, évolution [Rennes] (ECOBIO), Centre National de la Recherche Scientifique (CNRS)-Observatoire des Sciences de l'Univers de Rennes (OSUR)-Institut Ecologie et Environnement (INEE), Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES), Centre de Recherches de Gif-sur-Yvette (FRC3115), non renseigné, Plateforme Génomique Environnementale et Fonctionnelle (GEF), Observatoire des Sciences de l'Univers de Rennes (OSUR), Géosciences Rennes (GR), Centre National de la Recherche Scientifique (CNRS)-Observatoire des Sciences de l'Univers de Rennes (OSUR)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Rennes 1 (UR1), Université de Rennes (UR)-Institut Ecologie et Environnement (INEE), Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Observatoire des Sciences de l'Univers de Rennes (OSUR), Université de Rennes (UR)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Rennes 2 (UR2)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Rennes 2 (UR2)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Centre National de la Recherche Scientifique (CNRS), Université de Rennes (UR)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Rennes 2 (UR2)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Rennes (UR)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Rennes 2 (UR2)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Université de Rennes (UR)-Institut national des sciences de l'Univers (INSU - CNRS)-Observatoire des Sciences de l'Univers de Rennes (OSUR) |
| Jazyk: | angličtina |
| Rok vydání: | 2014 |
| Předmět: |
Marine and Aquatic Sciences
lcsh:Medicine RNA Ribosomal 16S Microbial mat lcsh:Science Phylogeny Freshwater Ecology Genetics Multidisciplinary Ecology biology Biodiversity Genomics Functional Genomics Community Ecology Oxygenases Leptothrix Transcriptome Analysis Methane Oxidation-Reduction Ecosystem Functioning Research Article Freshwater Environments Sequence analysis Iron Microbial Consortia [SDU.STU]Sciences of the Universe [physics]/Earth Sciences Microbiology Ecosystems Microbial Ecology Phylogenetics Community Structure Ecosystem Base Sequence Sequence Analysis RNA Gene Expression Profiling Ecology and Environmental Sciences lcsh:R Biology and Life Sciences Computational Biology Aquatic Environments Ribosomal RNA Genome Analysis biology.organism_classification Archaea Microbial population biology Earth Sciences Pyrosequencing lcsh:Q Metagenomics |
| Zdroj: | PLoS ONE, Vol 9, Iss 7, p e102561 (2014) PLoS ONE PLoS ONE, Public Library of Science, 2014, 9 (7), pp.e102561. ⟨10.1371/journal.pone.0102561⟩ PLoS ONE, 2014, 9 (7), pp.e102561. ⟨10.1371/journal.pone.0102561⟩ |
| ISSN: | 1932-6203 |
| Popis: | International audience; A metatranscriptomic approach was used to study community gene expression in a naturally occurring iron-rich microbial mat. Total microbial community RNA was reversely transcribed and sequenced by pyrosequencing. Characterization of expressed gene sequences provided accurate and detailed information of the composition of the transcriptionally active community and revealed phylogenetic and functional stratifications within the mat. Comparison of 16S rRNA reads and delineation of OTUs showed significantly lower values of metatranscriptomic-based richness and diversity in the upper parts of the mat than in the deeper regions. Taxonomic affiliation of rRNA sequences and mRNA genome recruitments indicated that iron-oxidizing bacteria affiliated to the genus Leptothrix, dominated the community in the upper layers of the mat. Surprisingly, type I methanotrophs contributed to the majority of the sequences in the deep layers of the mat. Analysis of mRNA expression patterns showed that genes encoding the three subunits of the particulate methane monooxygenase (pmoCAB) were the most highly expressed in our dataset. These results provide strong hints that iron-oxidation and methane-oxidation occur simultaneously in microbial mats and that both groups of microorganisms are major players in the functioning of this ecosystem. |
| Databáze: | OpenAIRE |
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