BMC Genomics | |
Comparative metagenomics of three Dehalococcoides-containing enrichment cultures: the role of the non-dechlorinating community | |
Research Article | |
Annette R Rowe1  Ruth E Richardson1  Laura A Hug2  Elizabeth A Edwards3  Robert G Beiko4  | |
[1] Civil & Environmental Engineering, Cornell University, Ithaca, NY, USA;Department of Cell and Systems Biology, University of Toronto, Toronto, Canada;Department of Cell and Systems Biology, University of Toronto, Toronto, Canada;Department of Chemical Engineering and Applied Chemistry, University of Toronto, Toronto, ON, Canada;Faculty of Computer Science, Dalhousie University, Halifax, NS, Canada; | |
关键词: Enrichment Culture; Cobalamin; Joint Genome Institute; Reductive Dechlorination; Metagenome Sequence; | |
DOI : 10.1186/1471-2164-13-327 | |
received in 2012-03-13, accepted in 2012-07-01, 发布年份 2012 | |
来源: Springer | |
【 摘 要 】
BackgroundThe Dehalococcoides are strictly anaerobic bacteria that gain metabolic energy via the oxidation of H2 coupled to the reduction of halogenated organic compounds. Dehalococcoides spp. grow best in mixed microbial consortia, relying on non-dechlorinating members to provide essential nutrients and maintain anaerobic conditions.A metagenome sequence was generated for the dechlorinating mixed microbial consortium KB-1. A comparative metagenomic study utilizing two additional metagenome sequences for Dehalococcoides-containing dechlorinating microbial consortia was undertaken to identify common features that are provided by the non-dechlorinating community and are potentially essential to Dehalococcoides growth.ResultsThe KB-1 metagenome contained eighteen novel homologs to reductive dehalogenase genes. The metagenomes obtained from the three consortia were automatically annotated using the MG-RAST server, from which statistically significant differences in community composition and metabolic profiles were determined. Examination of specific metabolic pathways, including corrinoid synthesis, methionine synthesis, oxygen scavenging, and electron-donor metabolism identified the Firmicutes, methanogenic Archaea, and the ∂-Proteobacteria as key organisms encoding these pathways, and thus potentially producing metabolites required for Dehalococcoides growth.ConclusionsComparative metagenomics of the three Dehalococcoides-containing consortia identified that similarities across the three consortia are more apparent at the functional level than at the taxonomic level, indicating the non-dechlorinating organisms’ identities can vary provided they fill the same niche within a consortium. Functional redundancy was identified in each metabolic pathway of interest, with key processes encoded by multiple taxonomic groups. This redundancy likely contributes to the robust growth and dechlorination rates in dechlorinating enrichment cultures.
【 授权许可】
Unknown
© Hug et al.; licensee BioMed Central Ltd. 2012. This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
【 预 览 】
Files | Size | Format | View |
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