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Research@WUR
Article . 2013
Data sources: Research@WUR
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Philosophical Transactions of the Royal Society B Biological Sciences
Article . 2013 . Peer-reviewed
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http://dx.doi.org/10.1098/rstb...
Article . 2013 . Peer-reviewed
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The restricted metabolism of the obligate organohalide respiring bacterium Dehalobacter restrictus: lessons from tiered functional genomics

Authors: Rupakula, A.; Hansen, T.; Boeren, S.; Holliger, C.; Smidt, H.; Maillard, J.;

The restricted metabolism of the obligate organohalide respiring bacterium Dehalobacter restrictus: lessons from tiered functional genomics

Abstract

Dehalobacter restrictus strain PER-K23 is an obligate organohalide respiring bacterium, which displays extremely narrow metabolic capabilities. It grows only via coupling energy conservation to anaerobic respiration of tetra- and trichloroethene with hydrogen as sole electron donor. Dehalobacter restrictus represents the paradigmatic member of the genus Dehalobacter , which in recent years has turned out to be a major player in the bioremediation of an increasing number of organohalides, both in situ and in laboratory studies. The recent elucidation of the D. restrictus genome revealed a rather elaborate genome with predicted pathways that were not suspected from its restricted metabolism, such as a complete corrinoid biosynthetic pathway, the Wood–Ljungdahl (WL) pathway for CO 2 fixation, abundant transcriptional regulators and several types of hydrogenases. However, one important feature of the genome is the presence of 25 reductive dehalogenase genes, from which so far only one, pceA , has been characterized on genetic and biochemical levels. This study describes a multi-level functional genomics approach on D. restrictus across three different growth phases. A global proteomic analysis allowed consideration of general metabolic pathways relevant to organohalide respiration, whereas the dedicated genomic and transcriptomic analysis focused on the diversity, composition and expression of genes associated with reductive dehalogenases.

Country
Netherlands
Keywords

tetrachloroethene reductive dehalogenase, Proteome, Transcription, Genetic, molecular charact, Gene Expression Regulation, Enzymologic, Electron Transport, Bacterial Proteins, Hydrogenase, Species Specificity, Escherichia coli, Cloning, Molecular, enrichment culture, desulfitobacterium-hafniense y51, ethenogenes strain 195, dehalococcoides-ethenogenes, Gene Expression Profiling, Genetic Variation, Gene Expression Regulation, Bacterial, Genomics, b-12 precursor cobinamide, Multigene Family, Peptococcaceae, signal peptide peptidase, transcriptomic microarray analysis, Corrinoids, Hydrogenation, Energy Metabolism, Genome, Bacterial, Hydrogen

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    Top 10%
    influence
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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
71
Top 10%
Top 10%
Top 10%
bronze