PMID: 2509717Aug 1, 1989Paper

Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in hominoidea

Journal of Molecular Evolution
H Kishino, M Hasegawa

Abstract

A maximum likelihood method for inferring evolutionary trees from DNA sequence data was developed by Felsenstein (1981). In evaluating the extent to which the maximum likelihood tree is a significantly better representation of the true tree, it is important to estimate the variance of the difference between log likelihood of different tree topologies. Bootstrap resampling can be used for this purpose (Hasegawa et al. 1988; Hasegawa and Kishino 1989), but it imposes a great computation burden. To overcome this difficulty, we developed a new method for estimating the variance by expressing it explicitly. The method was applied to DNA sequence data from primates in order to evaluate the maximum likelihood branching order among Hominoidea. It was shown that, although the orangutan is convincingly placed as an outgroup of a human and African apes clade, the branching order among human, chimpanzee, and gorilla cannot be determined confidently from the DNA sequence data presently available when the evolutionary rate constancy is not assumed.

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Citations

Jan 13, 2005·American Journal of Primatology·David Glenn Smith, John McDonough
Jun 1, 1991·American Journal of Physical Anthropology·J Marks
Mar 29, 2001·Fungal Genetics and Biology : FG & B·D M GeiserJ W Taylor
Nov 1, 1993·Journal of Molecular Evolution·M HasebeK Iwatsuki
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Jan 1, 1991·Journal of Molecular Evolution·K Fukami-Kobayashi, Y Tateno
Aug 1, 1990·Journal of Molecular Evolution·M HasegawaS Horai
May 1, 1996·Journal of Molecular Evolution·Z Yang
Apr 1, 1996·Journal of Molecular Evolution·J Adachi, M Hasegawa
Jan 1, 1997·Journal of Molecular Evolution·M HasegawaM C Milinkovitch
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Apr 29, 1998·Journal of Molecular Evolution·A S RasmussenU Arnason
Jan 16, 2007·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Sujay RakshitRyohei Terauchi
Feb 8, 2005·Journal of Molecular Evolution·Volodymyr Dvornyk
May 24, 2005·Journal of Molecular Evolution·Aurélien GinolhacRenaud Nalin
Oct 16, 2004·Journal of Molecular Evolution·Gabriela AguiletaZiheng Yang
Jun 7, 2006·Journal of Molecular Evolution·Jérôme FlakowskiJan Pawlowski
Aug 10, 2006·Journal of Molecular Evolution·Yuriko NishimotoYoshiaki Yogo
Jun 6, 2006·Journal of Molecular Evolution·Jason EvansJames Foster
Feb 3, 2007·Journal of Molecular Evolution·Yinan ZhangAnthony W D Larkum
Dec 13, 2006·Journal of Molecular Evolution·Shirley L PepkeChristian Blouin
Jul 5, 2007·Journal of Molecular Evolution·Nobuko ArisueToshihiro Horii

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