University of Tasmania
Browse

File(s) under permanent embargo

Supermatrices, supertrees and serendipitous scaffolding: Inferring a well-resolved, genus-level phylogeny of Styphelioideae (Ericaceae) despite missing data

journal contribution
posted on 2023-05-17, 08:26 authored by Karen JohnsonKaren Johnson, Barbara HollandBarbara Holland, Heslewood, MM, Crayn, DM
For the predominantly southern hemisphere plant group Styphelioideae (Ericaceae) published sequence datasets of five markers are now available for all except one of the recognised genera. However, severalmarkers are highly incomplete therefore missing data is problematic for producing a genus level phylogeny. We explore the relative utility of supertree and supermatrix approaches for addressing this challenge, and examined the effects of missing data on tree topology and resolution. Although the super-tree approach returned a more conservative hypothesis, overall, both supermatrix and supertree analyses concurred in the topologies they returned. Using multiple genes and a dataset of variably complete taxa we found improved support for the monophyly and position of the tribes and genus level relationships. However, there was mixed support for the Richeeae tribe appearing one node basal to the Cosmelieae tribe or vice versa. It is probable that this will only be resolved through further sequencing. Our study supports previous findings that the amount of data is more critical than the completeness of the dataset in estimating well-resolved trees. Our results suggest that a ‘‘serendipitous’’ scaffolding approach that includes a mixture of well and poorly sequenced taxa can lead to robust phylogenetic hypotheses.

History

Publication title

Molecular Phylogenetics and Evolution

Volume

62

Pagination

146-158

ISSN

1055-7903

Department/School

School of Geography, Planning and Spatial Sciences

Publisher

Academic Press

Place of publication

3251 Riverport Ln, Maryland Heights, MO 63043 USA

Rights statement

The definitive version is available at http://www.sciencedirect.com

Repository Status

  • Restricted

Socio-economic Objectives

Terrestrial biodiversity; Expanding knowledge in the biological sciences

Usage metrics

    University Of Tasmania

    Exports

    RefWorks
    BibTeX
    Ref. manager
    Endnote
    DataCite
    NLM
    DC