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Molecular analysis of phenanthrene degradation by Comamonas testosteroni GZ38 and Acidovorax sp. GZ39
Descriptive
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Title
Molecular analysis of phenanthrene degradation by Comamonas testosteroni GZ38 and Acidovorax sp. GZ39
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Pesce
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Karen
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Karen Pesce
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author
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Zylstra
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Gerben
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Advisory Committee
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Gerben J Zylstra
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chair
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Fennell
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Donna
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Advisory Committee
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Donna Fennell
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internal member
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Kerkhof
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Lee
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Advisory Committee
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Lee Kerkhof
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internal member
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Strom
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Peter
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Advisory Committee
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Peter Strom
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internal member
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Bini
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Elisabetta
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Advisory Committee
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Elisabetta Bini
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outside member
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Rutgers University
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degree grantor
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Graduate School - New Brunswick
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school
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Text
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theses
OriginInfo
DateCreated
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2008
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2008-10
Language
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English
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electronic
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application/pdf
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text/xml
Extent
xii, 140 pages
Abstract
Polycyclic aromatic hydrocarbons (PAHs) are toxic pollutants that are present in a variety of environments. Some bacterial species have the ability to metabolize these compounds and use them as energy sources for growth. Comamonas testosteroni GZ38 and Acidovorax sp. GZ39 were isolated from the Passaic River, NJ, based on their ability to grow on phenanthrene. These isolates are unusual in that they can grow on phenanthrene but not on naphthalene. The genes that code for phenanthrene degradation in GZ38 and GZ39 were identified. The DNA sequence of the genes is unique with respect to other sequences in the GenBank database with a single match to a putative phenanthrene degradation gene cluster from the phenanthrene degrader Alcaligenes faecalis AFK2 (GenBank accession number AB024945). BLAST matches to the putative genes in both operons suggest that phenanthrene degradation proceeds through phthalate. The putative phthalate degradation gene clusters from GZ38 and GZ39 have also been identified and sequenced. RT-PCR analysis of the phenanthrene degradation genes of GZ39 showed that the genes are expressed as one continuous transcript beginning with a transposase that is upstream from the start of the phenanthrene operon. The phenanthrene degradation genes of GZ38 are also expressed as one continuous transcript but it does not include a transposase located upstream from the operon. For both GZ38 and GZ39, expression of the genes was observed with both phenanthrene and succinate as growth substrates. RT-qPCR results for GZ38 showed that the phenanthrene degradation genes were equally expressed on phenanthrene and succinate. A lacZ assay demonstrated that the promoter region upstream of the phnAb gene in GZ39 is constitutively active. A 5' RACE assay was performed in order to map the transcription start site of the phenanthrene operon in GZ39. Inactivation of the phthalate dioxygenase in GZ39 resulted in the accumulation of phthalate when grown on phenanthrene and provides strong evidence that phenanthrene degradation proceeds through phthalate. Although the phenanthrene degradation genes of GZ38, GZ39, and AFK2 are nearly identical, this is the first report of functional information relating to these genes.
Note
(type = degree)
Ph.D.
Note
(type = bibliography)
Includes bibliographical references (p. 133-138).
Subject
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Topic
Environmental Sciences
Subject
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Topic
Phenanthrene--Biodegradation
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Title
Graduate School - New Brunswick Electronic Theses and Dissertations
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rucore19991600001
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http://hdl.rutgers.edu/1782.2/rucore10001600001.ETD.17548
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ETD_1349
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NjNbRU
Identifier
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doi:10.7282/T3N29X7D
Genre
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ETD doctoral
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Rights
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The author owns the copyright to this work.
Copyright
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Copyright protected
Availability
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Open
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Name
Karen Pesce
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Copyright holder
Affiliation
Rutgers University. Graduate School - New Brunswick
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Permission or license
Detail
Non-exclusive ETD license
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License
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Author Agreement License
Detail
I hereby grant to the Rutgers University Libraries and to my school the non-exclusive right to archive, reproduce and distribute my thesis or dissertation, in whole or in part, and/or my abstract, in whole or in part, in and from an electronic format, subject to the release date subsequently stipulated in this submittal form and approved by my school. I represent and stipulate that the thesis or dissertation and its abstract are my original work, that they do not infringe or violate any rights of others, and that I make these grants as the sole owner of the rights to my thesis or dissertation and its abstract. I represent that I have obtained written permissions, when necessary, from the owner(s) of each third party copyrighted matter to be included in my thesis or dissertation and will supply copies of such upon request by my school. I acknowledge that RU ETD and my school will not distribute my thesis or dissertation or its abstract if, in their reasonable judgment, they believe all such rights have not been secured. I acknowledge that I retain ownership rights to the copyright of my work. I also retain the right to use all or part of this thesis or dissertation in future works, such as articles or books.
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