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Citation for Study 13000

Citation title: "Likelihood reinstates Archaeopteryx as a primitive bird.".

Study name: "Likelihood reinstates Archaeopteryx as a primitive bird.".

This study is part of submission 13000 (Status: Published).

Citation

Lee M.S., & Worthy T. 2012. Likelihood reinstates Archaeopteryx as a primitive bird. Biology Letters, 8(2): 299-303.

Authors

Lee M.S. 61 8 8207 7568
Worthy T.

Abstract

The widespread view that Archaeopteryx was a primitive (basal) bird has been recently challenged by a comprehensive phylogenetic analysis that placed Archaeopteryx with deinonychosaurian theropods. The new phylogeny suggested that typical bird flight (powered by the front limbs only) either evolved at least twice, or was lost/ modified in some deinonychosaurs. However, this parsimony-based result was acknowledged to be weakly supported. Maximum-likelihood and related Bayesian methods applied to the same dataset yield a different and more orthodox result: Archaeopteryx is restored as a basal bird with bootstrap frequency of 73 per cent and posterior probability of 1. These results are consistent with a single origin of typical (forelimb-powered) bird flight. The Archaeopteryx?deinonychosaur clade retrieved by parsimony is supported by more characters (which are on average more homoplasious), whereas the Archaeopteryx?bird clade retrieved by likelihood-based methods is supported by fewer characters (but on average less homoplasious). Both positions for Archaeopteryx remain plausible, highlighting the hazy boundary between birds and advanced theropods. These results also suggest that likelihood-based methods (in addition to parsimony) can be useful in morphological phylogenetics.

Keywords

Archaeopteryx; Bayesian inference; Theropoda; bird origins; maximum likelihood; phylogeny

External links

DOI: 10.1098/rsbl.2011.0884
Other URL: http://www.graemetlloyd.com/matr.html

About this resource

Canonical resource URI: http://purl.org/phylo/treebase/phylows/study/TB2:S13000
Other versions: Nexus NeXML

Show BibTeX reference

		@ARTICLE{TreeBASE2Ref20979,
	 author = {Michael S Lee and Trevor H.   Worthy},
	 title = {Likelihood reinstates Archaeopteryx as a primitive bird.},
	 year = {2012},
	 keywords = {Archaeopteryx; Bayesian inference; Theropoda; bird origins; maximum likelihood; phylogeny},
	 doi = {10.1098/rsbl.2011.0884},
	 url = {http://www.graemetlloyd.com/matr.html},
	 pmid = {},
	 journal = {Biology Letters},
	 volume = {8},
	 number = {2},
	 pages = {299--303},
	 abstract = {The widespread view that Archaeopteryx was a primitive (basal) bird has been recently challenged by a comprehensive phylogenetic analysis that placed Archaeopteryx with deinonychosaurian theropods. The new phylogeny suggested that typical bird flight (powered by the front limbs only) either evolved at least twice, or was lost/ modified in some deinonychosaurs. However, this parsimony-based result was acknowledged to be weakly supported. Maximum-likelihood and related Bayesian methods applied to the same dataset yield a different and more orthodox result: Archaeopteryx is restored as a basal bird with bootstrap frequency of 73 per cent and posterior probability of 1. These results are consistent with a single origin of typical (forelimb-powered) bird flight. The Archaeopteryx?deinonychosaur clade retrieved by parsimony is supported by more characters (which are on average more homoplasious), whereas the Archaeopteryx?bird clade retrieved by likelihood-based methods is supported by fewer characters (but on average less homoplasious). Both positions for Archaeopteryx remain plausible, highlighting the hazy boundary between birds and advanced theropods. These results also suggest that likelihood-based methods (in addition to parsimony) can be useful in morphological phylogenetics.}
}

Show RIS reference

TY - JOUR
ID - 20979
AU - Lee,Michael S
AU - Worthy,Trevor H.
T1 - Likelihood reinstates Archaeopteryx as a primitive bird.
PY - 2012
KW - Archaeopteryx; Bayesian inference; Theropoda; bird origins; maximum likelihood; phylogeny
UR - http://www.graemetlloyd.com/matr.html
N2 - The widespread view that Archaeopteryx was a primitive (basal) bird has been recently challenged by a comprehensive phylogenetic analysis that placed Archaeopteryx with deinonychosaurian theropods. The new phylogeny suggested that typical bird flight (powered by the front limbs only) either evolved at least twice, or was lost/ modified in some deinonychosaurs. However, this parsimony-based result was acknowledged to be weakly supported. Maximum-likelihood and related Bayesian methods applied to the same dataset yield a different and more orthodox result: Archaeopteryx is restored as a basal bird with bootstrap frequency of 73 per cent and posterior probability of 1. These results are consistent with a single origin of typical (forelimb-powered) bird flight. The Archaeopteryx?deinonychosaur clade retrieved by parsimony is supported by more characters (which are on average more homoplasious), whereas the Archaeopteryx?bird clade retrieved by likelihood-based methods is supported by fewer characters (but on average less homoplasious). Both positions for Archaeopteryx remain plausible, highlighting the hazy boundary between birds and advanced theropods. These results also suggest that likelihood-based methods (in addition to parsimony) can be useful in morphological phylogenetics.
L3 - 10.1098/rsbl.2011.0884
JF - Biology Letters
VL - 8
IS - 2
SP - 299
EP - 303
ER -