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Related Experiment Videos

Duplicate genes and the root of angiosperms, with an example using phytochrome sequences

M J Donoghue1, S Mathews

  • 1Department of Organismic and Evolutionary Biology, Harvard University Herbaria, 22 Divinity Avenue, Cambridge, Massachusetts, 02138, USA.

Molecular Phylogenetics and Evolution
|July 21, 1998
PubMed
Summary

Establishing the angiosperm root remains challenging. Analyzing duplicate genes, like phytochrome (PHY), offers a promising method to resolve evolutionary relationships by rooting gene trees.

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Area of Science:

  • Evolutionary Biology
  • Molecular Phylogenetics

Background:

  • The evolutionary origin and placement of angiosperms within the plant kingdom remain unresolved.
  • Morphological and molecular data present ambiguities, hindering definitive rooting of the angiosperm phylogenetic tree.

Purpose of the Study:

  • To investigate the utility of duplicate genes for resolving the root of the angiosperm tree.
  • To explore phytochrome (PHY) gene families as potential markers for angiosperm phylogeny.

Main Methods:

  • Simultaneous analysis of gene trees derived from duplication events to construct an unrooted network.
  • Rooting the network by identifying congruent gene trees connected by a single branch.
  • Phylogenetic analysis of complete and partial phytochrome (PHY) gene sequences.

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Main Results:

  • Duplicate gene analysis provides a framework for selecting the most parsimonious rooted species tree.
  • Phytochrome gene family analysis suggests duplications occurred early in seed plant evolution, preceding angiosperm diversification.
  • Congruence observed in broad analyses, but sequence data limitations hinder definitive rooting.

Conclusions:

  • Duplicate gene analysis is a viable strategy for rooting the angiosperm tree, minimizing evolutionary events.
  • Phytochrome genes, particularly PHYA and PHYC lineages, show potential for resolving angiosperm radiation.
  • Further data are required to fully assess the resolving power of these genes for basal angiosperm lineages.