Phylogenomic studies of the monocot sister orders Pandanales and Dioscoreales
department or school: Science, Faculty of
department or school: Botany, Department of
data provider: DSpace
degree campus: UBCV
creator: Soto Gomez, Marybel
issued: 2022-08-31T07:00:00Z
issued: 2020
related degree: Doctor of Philosophy - PhD
degree grantor: University of British Columbia
description: The sister orders Pandanales and Dioscoreales are the last two major clades of monocots that remain to be examined in depth using phylogenomic approaches. Previous studies produced basic phylogenetic outlines for both orders, but left multiple higher-order relationships unresolved, including precise placements of non-photosynthetic mycoheterotrophic lineages. Species-level relationships in the Dioscorea yams, the largest Dioscoreales genus, are also poorly known despite the economic importance of this clade. Here I develop and apply phylogenomic methods to reconstruct the evolutionary histories of Pandanales, Dioscoreales and Dioscorea, using the resulting frameworks to address various phylogenetic and evolutionary hypotheses in each group. I employed a bi-organellar phylogenomic approach to resolve higher-order relationships in Pandanales, with mostly strong support. Mitogenomes are generally slowly evolving, but nevertheless permit inference of well-supported relationships. They also exhibit sporadic order-wide rate accelerations that are decoupled from plastome rate variation. I estimated clade ages to address several biogeographic hypotheses, and uncovered plastome structural variants that may define individual families. In Dioscoreales, I used plastid phylogenomic data and morphology to infer higher-order relationships. The molecular analyses resolve higher-order relationships, but are complicated by extreme substitution rate elevation observed in several mycoheterotrophic lineages. Nevertheless, my analyses confirm the non-monophyly of Burmanniaceae and Dioscoreaceae as currently circumscribed in angiosperm classification schemes. An updated morphological data set supports the local phylogenetic placement of several mycoheterotrophic genera for which plastid data are lacking, and ancestral-state reconstructions predict morphological synapomorphies relevant to the revision of family-level classification schemes. For phylogenomic studies of Dioscorea, I develope…
aggregated CHO: https://circle.library.ubc.ca/rest/handle/2429/75746
note: PHYLOGENOMIC STUDIES OF THE MONOCOT SISTER ORDERS PANDANALES AND DIOSCOREALES by Marybel Soto Gomez B.Sc., The University of British Columbia, 2007 A THESIS SUBMITTED IN PARTIAL FULFILLMENT OF THE REQUIREMENTS FOR THE DEGREE OF DOCTOR OF PHILOSOPHY in THE FACULTY OF GRADUATE AND POSTDOCTORAL STUDIES (Botany) THE UNIVERSITY OF BRITISH COLUMBIA (Vancouver) August 2020 © Marybel Soto Gomez, 2020 ii The following individuals certify that they have read, and recommend to the Faculty of Graduate and Postdoctoral Studies for acceptance, the dissertation entitled: Phylogenomic studies of the monocot sister orders Pandanales and Dioscoreales in partial fulfillment of the requirements for submitted by Marybel Soto Gomez the degree of Doctor of Philosophy in Botany Examining Committee: Sean W. Graham, BotanySupervisor Jeannette Whitton, BotanySupervisory Committee Member University ExaminerUniversity Examiner Additional Supervisory Committee Members: Mary Berbee, BotanySupervisory Committee Member Loren Rieseberg, BotanySupervisory Committee Member Naomi Fast, BotanyDolph Schluter, Zoologyiii Abstract The sister orders Pandanales and Dioscoreales are the last two major clades of monocots that remain to be examined in depth using phylogenomic approaches. Previous studies produced basic phylogenetic outlines for both orders, but left multiple higher-order relationships unresolved, including precise placements of non-photosynthetic mycoheterotrophic lineages. Species-level relationships in the Dioscorea yams, the largest Dioscoreales genus, are also poorly known despite the economic importance of this clade. Here I develop and apply phylogenomic methods to reconstruct the evolutionary histories of Pandanales, Dioscoreales and Dioscorea, using the resulting frameworks to address various phylogenetic and evolutionary hypotheses in each group. I employed a bi-organellar phylogenomic approach to resolve higher-order relationships in Pandanales, with mostly strong support. Mitogenomes…
has type: Thesis/Dissertation
date issued: 2020-11
is shown at: 10.14288/1.0394076
language: eng
degree discipline: Botany
provider: Vancouver : University of British Columbia Library
publisher: University of British Columbia
rights: Attribution-NonCommercial-NoDerivatives 4.0 International
rights URI: http://creativecommons.org/licenses/by-nc-nd/4.0/
scholar level: Graduate
type: Text
identifier URI: http://hdl.handle.net/2429/75746