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dc.contributor.authorLi, Jingping
dc.date.accessioned2015-07-10T04:30:23Z
dc.date.available2015-07-10T04:30:23Z
dc.date.issued2014-12
dc.identifier.otherli_jingping_201412_phd
dc.identifier.urihttp://purl.galileo.usg.edu/uga_etd/li_jingping_201412_phd
dc.identifier.urihttp://hdl.handle.net/10724/31460
dc.description.abstractFlowering plants have evolved through repeated ancient genome duplications (or paleo-polyploidies) for ~200 million years, a character distinct from other eukaryotic lineages. Paleo-duplicated genomes returned to diploid heredity by means of extensive sequence loss and rearrangement. Therefore repeated paleo-polyploidies have left multiple homeologs (paralogs produced in genome duplication) and complex networks of homeology in modern flowering plant genomes. In the first part of my research three paleo-polyploidy events are discussed. The Solanaceae “T” event was a hexaploidy making extant Solanaceae species rare as having derived from two successive paleo-hexaploidies. The Gossypium “C” event was the first paleo-(do)decaploidy identified. The sacred lotus (Nelumbo nucifera) was the first sequenced basal eudicot, which has a lineage-specific “λ” paleo-tetraploidy and one of the slowest lineage evolutionary rates. In the second part I describe a generalized method, GeDupMap, to simultaneously infer multiple paleo-polyploidy events on a phylogeny of multiple lineages. Based on such inferences the program systematically organizes homeologous regions between pairs of genomes into groups of orthologous regions, enabling synte-molecular analyses (molecular comparison on synteny backbone) and graph representation. Using 8 selected eudicot and monocot genomes I showed this framework of multiple paleo-polyploidy detection and synte-molecular network facilitates genomic comparisons among flowering plants and reveals deep correspondences among their genome structure.
dc.languageeng
dc.publisheruga
dc.rightsOn Campus Only Until 2016-12-01
dc.subjectancient genome duplication
dc.subjectpaleo-polyploidy
dc.subjectsynteny
dc.subjectsynte-molecular comparison
dc.subjectgenome evolution
dc.subjectflowering plants
dc.titleDetection of ancient genome duplications in several flowering plant lineages and synte-molecular comparison of homologous regions
dc.typeDissertation
dc.description.degreePhD
dc.description.departmentBioinformatics
dc.description.majorBioinformatics
dc.description.advisorAndrew Paterson
dc.description.committeeAndrew Paterson
dc.description.committeePaul Schliekelman
dc.description.committeeRodney Mauricio
dc.description.committeeJessica Kissinger
dc.description.committeeMichael Arnold


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