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Next generation sequencing to study organelle genome structure and function

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Title
Next generation sequencing to study organelle genome structure and function
Name (type = personal)
NamePart (type = family)
Gurdon
NamePart (type = given)
Csanad
NamePart (type = date)
1984-
DisplayForm
Csanad Gurdon
Role
RoleTerm (authority = RULIB)
author
Name (type = personal)
NamePart (type = family)
Maliga
NamePart (type = given)
Pal
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Pal Maliga
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Advisory Committee
Role
RoleTerm (authority = RULIB)
chair
Name (type = personal)
NamePart (type = family)
Dong
NamePart (type = given)
Juan
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Juan Dong
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Advisory Committee
Role
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internal member
Name (type = personal)
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Dooner
NamePart (type = given)
Hugo K
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Hugo K Dooner
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Advisory Committee
Role
RoleTerm (authority = RULIB)
internal member
Name (type = personal)
NamePart (type = family)
Gallavotti
NamePart (type = given)
Andrea
DisplayForm
Andrea Gallavotti
Affiliation
Advisory Committee
Role
RoleTerm (authority = RULIB)
internal member
Name (type = personal)
NamePart (type = family)
McKim
NamePart (type = given)
Kim S
DisplayForm
Kim S McKim
Affiliation
Advisory Committee
Role
RoleTerm (authority = RULIB)
outside member
Name (type = corporate)
NamePart
Rutgers University
Role
RoleTerm (authority = RULIB)
degree grantor
Name (type = corporate)
NamePart
Graduate School - New Brunswick
Role
RoleTerm (authority = RULIB)
school
TypeOfResource
Text
Genre (authority = marcgt)
theses
OriginInfo
DateCreated (encoding = w3cdtf); (qualifier = exact)
2015
DateOther (qualifier = exact); (type = degree)
2015-10
CopyrightDate (encoding = w3cdtf); (qualifier = exact)
2015
Place
PlaceTerm (type = code)
xx
Language
LanguageTerm (authority = ISO639-2b); (type = code)
eng
Abstract (type = abstract)
I utilized next generation sequencing in three separate studies to study organelle genome structure and function in maize, tobacco and barrel medic. In the first study, I found cell-to-cell movement of mitochondria through a graft junction in an experiment designed to select for chloroplast transfer from Nicotiana sylvestris into N. tabacum cells. Flowers of N. tabacum are cytoplasmic male sterile (CMS) due to a sterility-causing mitochondrial genome, thus, N. sylvestris mitochondrial DNA transfer was recognized by restoration of flower fertility. Extensive recombination of mitochondrial genome sequences was revealed in a graft regenerant with fertile flowers, linking male sterility to a mitochondrial gene causing homeotic conversion of anthers (hca). Cell-to-cell movement of mitochondrial DNA could enable introduction of male-sterility causing sequences into graft compatible species, and could be used to create novel forms of CMS in species where it does not exist. In the second study, I sequenced and compared the plastid genomes of three fertile and three CMS maize lines: cms-C, cms-S, and cms-T. The plastid genomes were found to harbor little diversity. I also report that 27 cms-T accessions representing five independently isolated lines have the same diagnostic plastid SNPs. This indicates a single origin and maternal co-transmission of the cms-T mitochondria and plastids to the seed progeny, excluding exceptional pollen transmission of mitochondria or multiple horizontal gene transfer events as the source of the CMS-causing gene. In the third study, I found two distinct plastid genome configurations in Medicago truncatula. I sequenced and assembled the plastid genome of four accessions, three of which belong to ssp. truncatula, and the fourth, R108, to ssp. tricycla. R108 plastid DNA had a ~45-kb inversion compared to ssp. truncatula, mediated by a short, imperfect repeat. DNA gel blot analyses of seven additional ssp. tricycla accessions detected only one of the two alternative genome arrangements. Furthermore, a variable number of repeats was found in the essential accD and ycf1 coding regions. accD length was distinct in ten M. truncatula ecotypes, ranging between 650 and 796 amino acids. Thus, intra-species plastid genome variability in M. truncatula could be linked to repeat-mediated genome rearrangements.
Subject (authority = RUETD)
Topic
Plant Biology
RelatedItem (type = host)
TitleInfo
Title
Rutgers University Electronic Theses and Dissertations
Identifier (type = RULIB)
ETD
Identifier
ETD_6808
PhysicalDescription
Form (authority = gmd)
electronic resource
InternetMediaType
application/pdf
InternetMediaType
text/xml
Extent
1 online resource (ix, 131 p. : ill.)
Note (type = degree)
Ph.D.
Note (type = bibliography)
Includes bibliographical references
Subject (authority = ETD-LCSH)
Topic
Plant organelles
Subject (authority = ETD-LCSH)
Topic
Plant genetics
Subject (authority = ETD-LCSH)
Topic
Mitochondria
Note (type = statement of responsibility)
by Csanad Gurdon
RelatedItem (type = host)
TitleInfo
Title
Graduate School - New Brunswick Electronic Theses and Dissertations
Identifier (type = local)
rucore19991600001
Location
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NjNbRU
Identifier (type = doi)
doi:10.7282/T3MW2K3S
Genre (authority = ExL-Esploro)
ETD doctoral
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Rights

RightsDeclaration (ID = rulibRdec0006)
The author owns the copyright to this work.
RightsHolder (type = personal)
Name
FamilyName
Gurdon
GivenName
Csanad
Role
Copyright Holder
RightsEvent
Type
Permission or license
DateTime (encoding = w3cdtf); (qualifier = exact); (point = start)
2015-09-28 21:24:26
AssociatedEntity
Name
Csanad Gurdon
Role
Copyright holder
Affiliation
Rutgers University. Graduate School - New Brunswick
AssociatedObject
Type
License
Name
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.
RightsEvent
DateTime (encoding = w3cdtf); (qualifier = exact); (point = start)
2015-10-31
DateTime (encoding = w3cdtf); (qualifier = exact); (point = end)
2016-10-30
Type
Embargo
Detail
Access to this PDF has been restricted at the author's request. It will be publicly available after October 30th, 2016.
Copyright
Status
Copyright protected
Availability
Status
Open
Reason
Permission or license
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ETD
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windows xp
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