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rdf:type |
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lifeskim:mentions |
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pubmed:issue |
2
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pubmed:dateCreated |
2006-1-19
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pubmed:databankReference |
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450309,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450310,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450311,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450312,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450313,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450314,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450315,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450316,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450317,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450318,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450319,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450320,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450321,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450322,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450323,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450324,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450325,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450326,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450327,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450328,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450329,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450330,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450331,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450332,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450333,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450334,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450335,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450336,
http://linkedlifedata.com/resource/pubmed/xref/GENBANK/AY450337
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pubmed:abstractText |
tmoA and related genes encode the alpha-subunit of the hydroxylase component of the major group (subgroup 1 of subfamily 2) of bacterial multicomponent mono-oxygenase enzyme complexes involved in aerobic benzene, toluene, ethylbenzene and xylene (BTEX) degradation. A PCR-denaturing gradient gel electrophoresis (DGGE) method was developed to assess the diversity of tmoA-like gene sequences in environmental samples using a newly designed moderately degenerate primer set suitable for that purpose. In 35 BTEX-degrading bacterial strains isolated from a hydrocarbon polluted aquifer, tmoA-like genes were only detected in two o-xylene degraders and were identical to the touA gene of Pseudomonas stutzeri OX1. The diversity of tmoA-like genes was examined in DNA extracts from contaminated and non-contaminated subsurface samples at a site containing a BTEX-contaminated groundwater plume. Differences in DGGE patterns were observed between strongly contaminated, less contaminated and non-contaminated samples and between different depths, suggesting that the diversity of tmoA-like genes was determined by environmental conditions including the contamination level. Phylogenetic analysis of the protein sequences deduced from the amplified amplicons showed that the diversity of TmoA-analogues in the environment is larger than suggested from described TmoA-analogues from cultured isolates, which was translated in the DGGE patterns. Although different positions on the DGGE gel can correspond to closely related TmoA-proteins, relationships could be noticed between the position of tmoA-like amplicons in the DGGE profile and the phylogenetic position of the deduced protein sequence.
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pubmed:language |
eng
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pubmed:journal |
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pubmed:citationSubset |
IM
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pubmed:chemical |
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pubmed:status |
MEDLINE
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pubmed:month |
Feb
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pubmed:issn |
0168-6496
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pubmed:author |
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pubmed:issnType |
Print
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pubmed:volume |
55
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pubmed:owner |
NLM
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pubmed:authorsComplete |
Y
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pubmed:pagination |
262-73
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pubmed:dateRevised |
2006-11-15
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pubmed:meshHeading |
pubmed-meshheading:16420634-Bacteria,
pubmed-meshheading:16420634-Bacterial Proteins,
pubmed-meshheading:16420634-Benzene,
pubmed-meshheading:16420634-Benzene Derivatives,
pubmed-meshheading:16420634-Biodiversity,
pubmed-meshheading:16420634-DNA, Bacterial,
pubmed-meshheading:16420634-Electrophoresis, Polyacrylamide Gel,
pubmed-meshheading:16420634-Mixed Function Oxygenases,
pubmed-meshheading:16420634-Molecular Sequence Data,
pubmed-meshheading:16420634-Phylogeny,
pubmed-meshheading:16420634-Polymerase Chain Reaction,
pubmed-meshheading:16420634-Pseudomonas stutzeri,
pubmed-meshheading:16420634-Sequence Analysis, DNA,
pubmed-meshheading:16420634-Sequence Homology,
pubmed-meshheading:16420634-Soil Microbiology,
pubmed-meshheading:16420634-Soil Pollutants,
pubmed-meshheading:16420634-Toluene,
pubmed-meshheading:16420634-Xylenes
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pubmed:year |
2006
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pubmed:articleTitle |
PCR-DGGE method to assess the diversity of BTEX mono-oxygenase genes at contaminated sites.
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pubmed:affiliation |
Environmental and Process Technology, Flemish Institute for Technological Research (Vito), Mol, Belgium.
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pubmed:publicationType |
Journal Article,
Research Support, Non-U.S. Gov't
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