References of "Goffinet, B"
     in
Bookmark and Share    
Full Text
Peer Reviewed
See detailMapping uncertainty and phylogenetic uncertainty in ancestral character state reconstruction: An example in the moss genus Brachytheciastrum
Vanderpoorten, Alain ULg; Goffinet, B.

in Systematic Biology (2006), 55(6), 957-971

The evolution of species traits along a phylogeny can be examined through an increasing number of possible, but not necessarily complementary, approaches. In this paper, we assess whether deriving ... [more ▼]

The evolution of species traits along a phylogeny can be examined through an increasing number of possible, but not necessarily complementary, approaches. In this paper, we assess whether deriving ancestral states of discrete morphological characters from a model whose parameters are (i) optimized by ML on a most likely tree; (ii) optimized by ML onto each of a Bayesian sample of trees; and (iii) sampled by a MCMC visiting the space of a Bayesian sample of trees affects the reconstruction of ancestral states in the moss genus Brachytheciastrum. In the first two methods, the choice of a single- or two-rate model and of a genetic distance (wherein branch lengths are used to determine the probabilities of change) or speciational (wherein changes are only driven by speciation events) model based upon a likelihood-ratio test strongly depended on the sampled trees. Despite these differences in model selection, reconstructions of ancestral character states were strongly correlated to each others across nodes, often at r > 0.9, for all the characters. The Bayesian approach of ancestral character state reconstruction offers, however, a series of advantages over the single-tree approach or the ML model optimization on a Bayesian sample of trees because it does not involve restricting model parameters prior to reconstructing ancestral states, but rather allows a range of model parameters and ancestral character states to be sampled according to their posterior probabilities. From the distribution of the latter, conclusions on trait evolution can be made in a more satisfactorily way than when a substantial part of the uncertainty of the results is obscured by the focus on a single set of model parameters and associated ancestral states. The reconstructions of ancestral character states in Brachytheciastrum reveal rampant parallel morphological evolution. Most species previously described based on phenetic grounds are thus resolved of polyphyletic origin. Species polyphylly has been increasingly reported among mosses, raising severe reservations regarding current species definition. [less ▲]

Detailed reference viewed: 7 (1 ULg)
Full Text
See detailUtility of the Internal Transcribed Spacers of the 18S-5.8S-26S Nuclear Ribosomal DNA in Land Plant Systematics with Special Emphasis on Bryophytes
Vanderpoorten, Alain ULg; Quandt, D.; Goffinet, B.

in Plant Genome: Biodiversity and Evolution—Vol. 2, Part B (2006)

Detailed reference viewed: 135 (2 ULg)
Full Text
Peer Reviewed
See detailA molecular and morphological recircumscription of Brachytheciastrum (Brachytheciaceae, Bryopsida)
Vanderpoorten, Alain ULg; Ignatov, M. S.; Huttunen, S. et al

in Taxon (2005), 54(2), 369-376

ITS, rps4, and atpB-rbcL sequences were used to test recent taxonomic rearrangements in the moss genus Brachytheciastrum. A starting phylogenetic hypothesis of Brachytheciaceae was used to subsample ... [more ▼]

ITS, rps4, and atpB-rbcL sequences were used to test recent taxonomic rearrangements in the moss genus Brachytheciastrum. A starting phylogenetic hypothesis of Brachytheciaceae was used to subsample representative genera of each subfamily to obtain a robust backbone phylogeny and circumscribe Brachytheciastrum within the family. The strongly supported monophyletic Brachytheciastrum clade includes B. bellicum Vanderpoorten, Ignatov, Huttunen [less ▲]

Detailed reference viewed: 22 (4 ULg)
Full Text
Peer Reviewed
See detailThe status of the mid-western European endemic moss, Brachythecium appleyardiae
Blockeel, T. L.; Vanderpoorten, Alain ULg; Sotiaux, André ULg et al

in Journal of Bryology (2005), 27(Part 2), 137-141

An analysis of DNA sequences in the ITS region of nrDNA and the atpB-rbcL intergenic spacer has placed Brachythecium appleyardiae McAdam

Detailed reference viewed: 10 (0 ULg)
Full Text
Peer Reviewed
See detailA taxonomic reassessment of the Vittiaceae (Hypnales, Bryopsida):evidence from phylogenetic analyses of combined chloroplast and nuclear sequence data
Vanderpoorten, Alain ULg; Goffinet, B.; Hedenäs, L. et al

in Plant Systematics & Evolution (2003), 241

Detailed reference viewed: 6 (0 ULg)