6 Works

Diversification of Crassula: Phylogenetic analysis and life-form traits

Marc Fradera-Soler, Meng Lu & Olwen M. Grace
These datasets are associated with the published paper - "Evidence linking life form to a major shift in diversification rate in Crassula" (DOI:10.1002/ajb2.1797) Crassula L. (Crassulaceae) is a characteristic element of the southern African flora, occurring in a wide range of habitats, and it exhibits a remarkable diversity of life forms. However, whether any particular life-form trait has shaped species diversification in Crassula has remained unexplored. Our study aimed to investigate diversification patterns within Crassula...

The implications of incongruence between gene tree and species tree topologies for divergence time estimation

Tom Carruthers, Miao Sun, William Baker, Stephen Smith, Jurriaan De Vos & Wolf Eiserhardt
Phylogenetic analyses are increasingly being performed with datasets that incorporate hundreds of loci. Due to incomplete lineage sorting, hybridization, and horizontal gene transfer, the gene trees for these loci may often have topologies that differ from each other and from the species tree. The effect of these topological incongruences on divergence time estimation has not been fully investigated. Using a series of simulation experiments and empirical analyses, we demonstrate that when topological incongruence between gene...

WorldClim, elevation and distribution data for all palms from: The ecology of palm genomes: Repeat-associated genome size expansion is constrained by aridity

Rowan Schley, Jaume Pellicer, Xue-Jun Ge, Craig Barrett, Sidonie Bellot, Maite Guignard, Petr Novak, Donald Fraser, William Baker, Steven Dodsworth, Jiri Macas, Andrew Leitch & Ilia Leitch
Genome size varies 2,400-fold across plants, influencing their evolution through changes in cell size and cell division rates which impact plants’ environmental stress tolerance. Repetitive element expansion explains much genome size diversity, and the processes structuring repeat ‘communities’ are analogous to those structuring ecological communities. However, which environmental stressors influence repeat community dynamics has not yet been examined from an ecological perspective. We measured genome size and leveraged climatic data for 91% of genera within...

Data for: Interactions between breeding system and ploidy affect niche breadth in Solanum

Michael Kantar, Nathan Fumia, Daniel Rubinoff, Rosana Zenil-Ferguson, Michael Gore, Colin Khoury & Samuel Pironon
Understanding the factors driving ecological and evolutionary interactions of economically important plant species is important for sustainability. Niches of crop wild relatives, including wild potatoes (Solanum section Petota), have received attention, however, such information has not been analyzed in combination with phylogenetic histories, genomic composition, and reproductive systems. The data presented here provide publically available data on the geographic position, climatic niche, life-history (ploidy/mating system) and chloroplast phylogeny. These data were used to understand the...

Joining forces in Ochnaceae phylogenomics: A tale of two targeted sequencing probe kits

Toral Shah, Julio V. Schneider, Georg Zizka, Olivier Maurin, William Baker, Félix Forest, Grace E. Brewer, Vincent Savolainen, Iain Darbyshire & Isabel Larridon
Premise: Both universal and family-specific targeted sequencing probe kits are becoming widely used for the reconstruction of phylogenetic relationships in angiosperms. Within the pantropical Ochnaceae, we show that with careful data filtering, universal kits are equally as capable in resolving intergeneric relationships as custom probe kits. Furthermore, we show the strength in combining data from both kits to mitigate bias and provide a more robust result to resolve evolutionary relationships. Methods: We sampled 23 Ochnaceae...

Taming the beast: a revised classification of Cortinariaceae based on genomic data

Kare Liimatainen, Jan T. Kim, Lisa Pokorny, Paul M. Kirk, Bryn Dentinger & Tuula Niskanen
Family Cortinariaceae currently includes only one genus, Cortinarius, which is the largest Agaricales genus, with thousands of species worldwide. The species are important ectomycorrhizal fungi and form associations with many vascular plant genera from tropicals to arctic regions. Genus Cortinarius contains a lot of morphological variation, and its complexity has led many taxonomists to specialize in particular on infrageneric groups. The previous attempts to divide Cortinarius have been shown to be unnatural and the phylogenetic...

Registration Year

  • 2022
    6

Resource Types

  • Dataset
    6

Affiliations

  • Royal Botanic Gardens
    3
  • Royal Botanic Gardens, Kew
    3
  • University of Michigan–Ann Arbor
    1
  • West Virginia University
    1
  • Aarhus University
    1
  • University of Edinburgh
    1
  • University of Hawaii at Manoa
    1
  • Senckenberg Museum
    1
  • Queen Mary University of London
    1
  • University of Basel
    1