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Open Access Research article

Comparative metagenomics of three Dehalococcoides-containing enrichment cultures: the role of the non-dechlorinating community

Laura A Hug1, Robert G Beiko2, Annette R Rowe3, Ruth E Richardson3 and Elizabeth A Edwards14*

Author Affiliations

1 Department of Cell and Systems Biology, University of Toronto, Toronto, Canada

2 Faculty of Computer Science, Dalhousie University, Halifax, NS, Canada

3 Civil & Environmental Engineering, Cornell University, Ithaca, NY, USA

4 Department of Chemical Engineering and Applied Chemistry, University of Toronto, Toronto, ON, Canada

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BMC Genomics 2012, 13:327  doi:10.1186/1471-2164-13-327

Published: 23 July 2012

Additional files

Additional file 1:

Contains supplemental methods as referenced in the main text, and a discussion of the hydrogenase distribution within the enrichment consortia, including supplemental tables S1, S2, and S9 [58,70].

Format: DOC Size: 187KB Download file

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Additional file 2:

Contains supplemental tables S3-S8; detailed tables of the pathways discussed in the manuscript, including all genes implicated and the number of assigned reads to each gene from each phylum examined. Presented as a single MS Excel workbook, with each sheet corresponding to a different pathway of interest. Each enzyme examined within a pathway is listed in the left-most column, with number of assigned reads from MG-RAST for each phylum within each metagenome listed. Metagenomes are indicated as follows; D = DonnaII, A = ANAS, K = KB-1. Enzymes found within the metagenomes are highlighted in green, while enzymes absent from specific phyla are highlighted in red. Enzymes of interest may be absent either because they are not present in the SEED database (denoted with (NOT FOUND) in the enzyme name), or were not detected in the metagenome datasets.

Format: XLSX Size: 84KB Download file

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