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Implementing and testing the multispecies coalescent model: A valuable paradigm for phylogenomics.
In recent articles published in Molecular Phylogenetics and Evolution, Mark Springer and John Gatesy (S&G) present numerous criticisms of recent implementations and testing of the multispeciesExpand
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Origin of land plants using the multispecies coalescent model.
The origin of land plants is a fundamental topic in plant evolutionary biology. Despite the crucial importance for knowing the closest lineages of land plants, this question has not been fullyExpand
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The evolutionary root of flowering plants.
Correct rooting of the angiosperm radiation is both challenging and necessary for understanding the origins and evolution of physiological and phenotypic traits in flowering plants. The problem isExpand
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The position of gnetales among seed plants: overcoming pitfalls of chloroplast phylogenomics.
The phylogenetic position of Gnetales is one of the most contentious issues in the seed plant systematics. To elucidate the Gnetales position, an improved amino acid substitution matrix was estimatedExpand
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Systematic Error in Seed Plant Phylogenomics
Resolving the closest relatives of Gnetales has been an enigmatic problem in seed plant phylogeny. The problem is known to be difficult because of the extent of divergence between this diverse groupExpand
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Streptophyte algae and the origin of land plants revisited using heterogeneous models with three new algal chloroplast genomes.
The phylogenetic branching order of the green algal groups that gave rise to land plants remains uncertain despite its fundamental importance to understanding plant evolution. Previous studies haveExpand
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Episodic Evolution and Adaptation of Chloroplast Genomes in Ancestral Grasses
Background It has been suggested that the chloroplast genomes of the grass family, Poaceae, have undergone an elevated evolutionary rate compared to most other angiosperms, yet the details of thisExpand
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Two New Fern Chloroplasts and Decelerated Evolution Linked to the Long Generation Time in Tree Ferns
We report the chloroplast genomes of a tree fern (Dicksonia squarrosa) and a “fern ally” (Tmesipteris elongata), and show that the phylogeny of early land plants is basically as expected, and theExpand
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Origin and Evolution of Core Components Responsible for Monitoring Light Environment Changes during Plant Terrestrialization.
Light serves as the source of energy as well as an information signal for photosynthetic plants. During evolution, plants have acquired the ability to monitor environmental light radiation and adjustExpand
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The multispecies coalescent model and land plant origins: a reply to Springer and Gatesy.
Springer and Gatesy [1] give a slightly different hypothesis of the origin of land plants but suggest both that their results ‘undermine major conclusions’ in our paper [2] and that the coalescentExpand
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