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Discovering the organohalide respiring capacity of Deltaproteobacteria in marine and estuarine environments
Descriptive
TitleInfo
Title
Discovering the organohalide respiring capacity of Deltaproteobacteria in marine and estuarine environments
Name
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(type = family)
LIU
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(type = given)
JIE
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1988-
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JIE LIU
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(authority = RULIB)
author
Name
(type = personal)
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(type = family)
Häggblom
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(type = given)
Max M
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Max M Häggblom
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Advisory Committee
Role
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(authority = RULIB)
chair
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(type = personal)
NamePart
(type = family)
Kerkhof
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(type = given)
Lee
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Lee Kerkhof
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Advisory Committee
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(authority = RULIB)
internal member
Name
(type = personal)
NamePart
(type = family)
Vetriani
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(type = given)
Costantino
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Costantino Vetriani
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Advisory Committee
Role
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(authority = RULIB)
internal member
Name
(type = personal)
NamePart
(type = family)
Fennell
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(type = given)
Donna
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Donna Fennell
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Advisory Committee
Role
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(authority = RULIB)
outside member
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Rutgers University
Role
RoleTerm
(authority = RULIB)
degree grantor
Name
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NamePart
School of Graduate Studies
Role
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(authority = RULIB)
school
TypeOfResource
Text
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theses
OriginInfo
DateCreated
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2019
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2019-01
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2019
Place
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(type = code)
xx
Language
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(authority = ISO639-2b);
(type = code)
eng
Abstract
(type = abstract)
Organohalides are widespread in the environment from both anthropogenic and natural sources. The marine environment is a major reservoir of organohalides, particularly organobromides. Organohalide respiration is the process mediated by bacteria that utilize organohalides as electron acceptors for energy conservation. This process is of importance in the degradation organohalide pollutants and the overall organohalide cycle. The objective of this study was to investigate the ecophysiology of organohalide respiring bacteria (OHRBs) with a focus on examining their utilization of organobromine compounds, evaluating their substrate range and activity under different conditions, and determining their reductive dehalogenase gene diversity and gene expression.
Investigation of Desulfoluna spongiiphila, a marine sponge associated organobromide-respiring bacterium, revealed that the expression of one reductive dehalogenase gene was significantly upregulated in response to bromophenol and sponge extracts. The transcriptomic and proteomic analysis further confirmed the function of this reductive dehalogenase gene in reductive dehalogenation of bromophenol. Two bacterial strains with organobromide respiring ability were isolated from New Jersey estuarine sediments, which are representatives of a novel Halodesulfovibrio species. Three reductive dehalogenase genes are present in their genomes, one of which showed significant upregulation in gene expression in response to bromophenols. In addition, the overall organohalide respiring capacity of members of the Class Deltaproteobacteria was evaluated by surveying the genome database for the prevalence of reductive dehalogenase genes in their genomes. Result showed that approximately 10% of Deltaproteobacteria contain reductive dehalogenase genes in their genomes, which is an indicator for potential organohalide respiring ability. Three of these strains were experimentally confirmed to have organobromide respiring ability. In total, six organobromide respiring Deltaproteobacteria, all marine or estuarine origin, were investigated in this study. One common reductive dehalogenase gene cluster (namely brp gene) was present in all the genomes and the expression of brpA gene was significantly upregulated in the presence of bromophenols in all the strains. This study highlights the potential role of Deltaproteobacteria in the marine organohalide cycle.
Investigation of Desulfoluna spongiiphila, a marine sponge associated organobromide-respiring bacterium, revealed that the expression of one reductive dehalogenase gene was significantly upregulated in response to bromophenol and sponge extracts. The transcriptomic and proteomic analysis further confirmed the function of this reductive dehalogenase gene in reductive dehalogenation of bromophenol. Two bacterial strains with organobromide respiring ability were isolated from New Jersey estuarine sediments, which are representatives of a novel Halodesulfovibrio species. Three reductive dehalogenase genes are present in their genomes, one of which showed significant upregulation in gene expression in response to bromophenols. In addition, the overall organohalide respiring capacity of members of the Class Deltaproteobacteria was evaluated by surveying the genome database for the prevalence of reductive dehalogenase genes in their genomes. Result showed that approximately 10% of Deltaproteobacteria contain reductive dehalogenase genes in their genomes, which is an indicator for potential organohalide respiring ability. Three of these strains were experimentally confirmed to have organobromide respiring ability. In total, six organobromide respiring Deltaproteobacteria, all marine or estuarine origin, were investigated in this study. One common reductive dehalogenase gene cluster (namely brp gene) was present in all the genomes and the expression of brpA gene was significantly upregulated in the presence of bromophenols in all the strains. This study highlights the potential role of Deltaproteobacteria in the marine organohalide cycle.
Subject
(authority = RUETD)
Topic
Microbial Biology
Subject
(authority = ETD-LCSH)
Topic
Biodegradation
Subject
(authority = ETD-LCSH)
Topic
Bacteria--Morphology
RelatedItem
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TitleInfo
Title
Rutgers University Electronic Theses and Dissertations
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ETD_9417
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electronic resource
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application/pdf
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text/xml
Extent
1 online resource (216 pages) : illustrations
Note
(type = degree)
Ph.D.
Note
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Includes bibliographical references
Note
(type = statement of responsibility)
by Jie Liu
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TitleInfo
Title
School of Graduate Studies Electronic Theses and Dissertations
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rucore10001600001
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NjNbRU
Identifier
(type = doi)
doi:10.7282/t3-1qkp-re44
Genre
(authority = ExL-Esploro)
ETD doctoral
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Rights
RightsDeclaration
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The author owns the copyright to this work.
RightsHolder
(type = personal)
Name
FamilyName
LIU
GivenName
JIE
Role
Copyright Holder
RightsEvent
Type
Permission or license
DateTime
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(point = start)
2018-12-11 11:26:42
AssociatedEntity
Name
JIE LIU
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Copyright holder
Affiliation
Rutgers University. School of Graduate Studies
AssociatedObject
Type
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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Embargo
DateTime
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2019-01-31
DateTime
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(point = end)
2021-01-30
Detail
Access to this PDF has been restricted at the author's request. It will be publicly available after January 30th, 2021.
Copyright
Status
Copyright protected
Availability
Status
Open
Reason
Permission or license
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Technical
RULTechMD
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ETD
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windows xp
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1.4
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2018-12-11T15:49:18
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2018-12-11T15:49:18
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