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NATURAL VARIATION IN ARABIDOPSIS THALIANA
by
Chunlao Tang
A Dissertation Presented to the
FACULTY OF THE GRADUATE SCHOOL
UNIVERSITY OF SOUTHERN CALIFORNIA
In Partial Fulfillment of the
Requirements for the Degree
DOCTOR OF PHILOSOPHY
(MOLECULAR BIOLOGY)
December 2006
Copyright 2006 Chunlao Tang
Object Description
| Title | Natural variation in Arabidopsis thaliana |
| Author | Tang, Chunlao |
| Author email | chunlaot@usc.edu |
| Degree | Doctor of Philosophy |
| Document type | Dissertation |
| Degree program | Molecular Biology |
| School | College of Letters, Arts and Sciences |
| Date defended/completed | 2006-10-23 |
| Date submitted | 2006 |
| Restricted until | Unrestricted |
| Date published | 2006-11-17 |
| Advisor (committee chair) | Nordborg, Magnus |
| Advisor (committee member) |
Sun, Fengzhu Bickers, Nelson |
| Abstract | Naturally occurring variation is an important alternative resource for functional genetics and genomics research.; In a well-characterized collection of Arabidopsis thaliana accessions, we have investigated variation for flowering time and seed dormancy. We tried to apply association mapping in candidate gene FLC. We have detected a strong association signal at FLC attributable to the very late flowering Swedish accessions. In addition, we also found several geographically restricted clusters of early flowering accessions. Among them, Central Asian accessions were previously shown to carry weak FLC alleles. We also identified eight types of large-size intronic insertions, including the two previously known transposable element insertions found respectively in Ler and Da1-12 that cause the weak function of FLC in these accessions. Likely the other intronic insertions have the same functional effect. This result indicates that many such kind of alleles have evolved independently at different origins.; Seed dormancy is a difficult trait to quantify and pattern of natural variation is largely unknown. Using the requirement for after-ripening, the days of dry storage to reach 50% germination ratio (DSDS50), we have successfully phenotyped seed dormancy in this population and found clear evidence of both nonrandom global patterning and micro-geographic variation that relates to local environmental conditions.; The final part of this thesis considers the evolution of selfing in A. thaliana. A. thaliana is highly selfing while many of its close relatives including A. lyrata are self-incompatible. One recent study claimed that self-incompatibility was lost in A. thaliana recently due to the sweep selection at one of the S-locus genes SCR based on the finding that the region of [psi]SCR1, a pseudogenized ortholog of SCR in A. thaliana, is very low in diversity. We demonstrate that this region is actually highly polymorphic in A. thaliana. |
| Keyword | Arabidopsis; variation; flowering; dormancy; self-incompatibility |
| Language | English |
| Part of collection | University of Southern California dissertations and theses |
| Publisher (of the original version) | University of Southern California |
| Place of publication (of the original version) | Los Angeles, California |
| Publisher (of the digital version) | University of Southern California. Libraries |
| Type | texts |
| Legacy record ID | usctheses-m166 |
| Rights | Tang, Chunlao |
| Repository name | Libraries, University of Southern California |
| Repository address | Los Angeles, California |
| Repository email | http://www.usc.edu/isd/libraries/services/ask_a_librarian/email/ |
| Filename | etd-Tang-20061117 |
| Archival file | uscthesesreloadpub_Volume17/etd-Tang-20061117.pdf |
Description
| Title | Page 1 |
| Full text | NATURAL VARIATION IN ARABIDOPSIS THALIANA by Chunlao Tang A Dissertation Presented to the FACULTY OF THE GRADUATE SCHOOL UNIVERSITY OF SOUTHERN CALIFORNIA In Partial Fulfillment of the Requirements for the Degree DOCTOR OF PHILOSOPHY (MOLECULAR BIOLOGY) December 2006 Copyright 2006 Chunlao Tang |
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