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Hox cluster intergenic sequence evolution
Descriptive
TypeOfResource
Text
TitleInfo
(ID = T-1)
Title
Hox cluster intergenic sequence evolution
TitleInfo
(ID = T-2);
(type = alternative)
Title
Hox gene cluster intergenic sequence evolution
Identifier
ETD_2909
Identifier
(type = hdl)
http://hdl.rutgers.edu/1782.1/rucore10001600001.ETD.000056729
Language
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(authority = ISO639-2);
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eng
Genre
(authority = marcgt)
theses
Subject
(ID = SBJ-1);
(authority = RUETD)
Topic
Cell and Developmental Biology
Subject
(ID = SBJ-2);
(authority = ETD-LCSH)
Topic
Fishes--Genetics
Abstract
(type = abstract)
The Hox gene cluster system is highly conserved among jawed-vertebrates. Specifically, the coding region of Hox genes along with their spacing and occurrence is highly conserved throughout gnathostomes. The intergenic regions of these clusters however are more variable. During the construction of a comprehensive non-coding sequence database we discovered that the intergenic sequences appear to also be highly conserved among cartilaginous and lobe-finned fishes, but much more diverged and dynamic in the ray-finned fishes. Starting at the base of the Actinopterygii a turnover of otherwise highly conserved non-coding sequences begins. This turnover is extended well into the derived ray-finned fish clade, Teleostei. Evidence from our population genetic study suggests this turnover, which appears to be due mainly to loosened constraints at the macro-evolutionary level, is highlighted by evidence of strong positive selection acting at the micro-evolutionary level. During the construction of the non-coding sequence database we also discovered that along with evidence of both relaxed constraints and positive selection emerges a pattern of transposable elements found within the Hox gene cluster system. The highly conserved Chondrichthyes and Sacropterygii Hox gene clusters have an invasion of type I transposons whereas the Actinopterygii Hox gene clusters have an invasion of type II transposons. Specifically, the Tc1 transposon is found throughout the ray-finned fishes Hox gene clusters and is highlighted by the presence of two intact Tc1 transposons in and adjacent to bichir’s Hox gene clusters. Expression in human cell lines suggests that at least one of these Tc1 transposons are active. This combined with simulations ran in our lab point to transposons having a role in past and on-going restructuring of ray-finned fishes genomes. These findings help shed light on the possible genomic changes that occurred and are occurring within the ray-finned fish clade that help shed light on their past and present species radiations.
PhysicalDescription
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electronic resource
Extent
x, 217 p. : ill.
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application/pdf
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text/xml
Note
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Ph.D.
Note
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Includes bibliographical references
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Includes vita
Note
(type = statement of responsibility)
by Jeremy Don Raincrow
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Raincrow
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(type = given)
Jeremy Don
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1980-
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author
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Jeremy Raincrow
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Hey
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Jody
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chair
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Advisory Committee
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Jody Hey
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Chiu
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Chi-hua
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internal member
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Advisory Committee
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Chi-hua Chiu
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(type = family)
Pirrotta
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Vincenzo
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internal member
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Advisory Committee
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Vincenzo Pirrotta
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Struwe
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Lena
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outside member
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Advisory Committee
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Lena Struwe
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NamePart
Rutgers University
Role
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degree grantor
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Graduate School - New Brunswick
Role
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school
OriginInfo
DateCreated
(qualifier = exact)
2010
DateOther
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2010-10
Place
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(type = code)
xx
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TitleInfo
Title
Rutgers University Electronic Theses and Dissertations
Identifier
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ETD
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(type = host)
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Title
Graduate School - New Brunswick Electronic Theses and Dissertations
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rucore19991600001
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NjNbRU
Identifier
(type = doi)
doi:10.7282/T3PK0FVR
Genre
(authority = ExL-Esploro)
ETD doctoral
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Rights
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(ID = rulibRdec0006)
The author owns the copyright to this work.
Copyright
Status
Copyright protected
Availability
Status
Open
Reason
Permission or license
RightsHolder
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(type = personal)
Name
FamilyName
Raincrow
GivenName
Jeremy
Role
Copyright Holder
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Type
Permission or license
DateTime
2010-09-27 09:49:56
AssociatedEntity
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Name
Jeremy Raincrow
Affiliation
Rutgers University. Graduate School - New Brunswick
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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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Technical
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ETD
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application/pdf
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application/x-tar
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2355200
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