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Phylogenetic relationships of Silene section Elisanthe (Caryophyllaceae) as inferred from chloroplast and nuclear DNA sequences
Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Evolution, Genomics and Systematics, Systematic Botany.
(English)Manuscript (Other academic)
URN: urn:nbn:se:uu:diva-100788OAI: oai:DiVA.org:uu-100788DiVA: diva2:211017
Available from: 2009-04-07 Created: 2009-04-07 Last updated: 2010-01-14
In thesis
1. Phylogenetic Relationships of Silene sect. Melandrium and Allied Taxa (Caryophyllaceae), as Deduced from Multiple Gene Trees
Open this publication in new window or tab >>Phylogenetic Relationships of Silene sect. Melandrium and Allied Taxa (Caryophyllaceae), as Deduced from Multiple Gene Trees
2009 (English)Doctoral thesis, comprehensive summary (Other academic)
Abstract [en]

This thesis focuses on phylogenetic relationships among some of the major lineages in Silene subgenus Behenantha (Caryophyllaceae) using DNA sequences from multiple, potentially unlinked gene regions from a large taxonomic and geographic sample. Both traditional phylogenetic analyses and a strategy to infer species trees and gene trees in a joint approach are used. A new strategy to optimize species classifications, based on the likelihoods of the observed gene trees, is presented.

Silene latifolia, S. dioica and the other dioecious species previously classified in section Elisanthe are not closely related to the type of the section (S. noctiflora). The correct name for the group of dioecious species is section Melandrium. The chloroplast DNA data presented indicate a geographic, rather than a taxonomic, structure in section Melandrium. The nuclear genes investigated correlate more to the current taxonomy, although hybridization has likely been influencing the relationships within section Melandrium.

Incongruence between different parts of the gene SlXY1 in two Silene lineages is investigated, using phylogenetic methods and a novel probabilistic, multiple primer-pair PCR approach. The incongruence is best explained by ancient hybridization and recombination events.

A survey of mitochondrial substitution rate variation in Sileneae is presented. Silene section Conoimorpha, S. noctiflora and the closely related S. turkestanica have elevated synonymous substitution rates in the mitochondrial genes investigated.

Morphological and phylogenetic data reject that the Californian S. multinervia should be treated as a synonym to the Asian S. coniflora, as has previously been suggested. Furthermore, none of the genes investigated, or a chromosome count, support the inclusion of S. multinervia in section Conoimorpha. Data from multiple genes suggest that S. noctiflora and S. turkestanica form a sister group to section Conoimorpha. The calyx nervature, which is a potential synapomorphy for S. multinervia and section Conoimorpha, may be explained either by parallelism or by sorting effects.

Place, publisher, year, edition, pages
Uppsala: Acta Universitatis Upsaliensis, 2009. 40 p.
Digital Comprehensive Summaries of Uppsala Dissertations from the Faculty of Science and Technology, ISSN 1651-6214 ; 639
Silene, Elisanthe, Melandrium, Conoimorpha, Caryophyllaceae, Silene multinervia, relative dating, extreme substitution rates, phylogeny, BEST, BEAST, cpDNA, mtDNA, RNA polymerase, RPA2, RPB2, RPD2, SlX1, SlY1, ITS, introgression, incongruent phylogenies, chromosome count, coalescent, Bayes Factors
National Category
Biological Systematics
Research subject
Systematic Botany
urn:nbn:se:uu:diva-100806 (URN)978-91-554-7511-6 (ISBN)
Public defence
2009-05-20, Lindahlsalen, EBC, Norbyvägen 18A, Uppsala, 09:30 (English)
Available from: 2009-04-29 Created: 2009-04-07 Last updated: 2009-05-11Bibliographically approved

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