Research article
Genomic and microarray analysis of aromatics degradation in Geobacter metallireducens and comparison to a Geobacter isolate from a contaminated field site
-
* Corresponding author: Jessica E Butler jbutler@microbio.umass.edu
1 Department of Microbiology, University of Massachusetts, Amherst, MA 01003, USA
2 Environmental Science Division, Oak Ridge National Laboratory, Oak Ridge, TN 37831, USA
3 Department of Civil and Environmental Engineering, University of Tennessee, Knoxville, TN 37996, USA
BMC Genomics 2007, 8:180 doi:10.1186/1471-2164-8-180
Published: 19 June 2007Additional files
Additional file 1:
ORFs in the aromatic island of the genome. For each of the 244 ORFs in the region the following is supplied: NCBI reference identification, abbreviated ORF identification used in the text, gene name, product, orthologous gene in the Geobacter strain FRC-32 genome, orthologous gene in the Geobacter sulfurreducens genome, the genus and species name and the NCBI reference number of the closest homolog in the non-redundant database, the start and end of the ORF in the G. metallireducens genome, the total GC content of the ORF, the GC content of each of the three codon positions, and the effective number of codons (Nc) used in the ORF.
Format: XLS Size: 100KB Download file
This file can be viewed with: Microsoft Excel Viewer
Additional file 2:
Microarray experiment results. The ORFs from the whole G. metallireducens genome that had at least a 2 fold-change change of expression, with a p-value of at least 0.01. (NCBI Gene Expression Omnibus, accession GSE5401) For each of the 142 ORFs the following is supplied: NCBI reference identification, abbreviated ORF identification used in the text, gene name, product, fold change expression (benzoate/acetate), t-test P-value.
Format: XLS Size: 36KB Download file
This file can be viewed with: Microsoft Excel Viewer