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GC content and phylogeny reconstruction

James McInerney j.mcinerney at nhm.ac.uk
Thu Nov 14 07:09:48 EST 1996


Jonathan F. Wendel wrote:
> =

> A paper was recently published in which it was demonstrated that in
> phylogenetic analysis, a potentially misleading resolution could be
> obtained in cases where the sampled genes varied greatly in their GC
> content.  The conclusion was, as I recall, that "high-GC" genes were
> spuriously linked by virtue of this compositional bias by itself.  I'm
> going crazy trying to recall what this reference was..... can anyone
> help?
> =

> Thanks, Jonathan Wendel


There are a number of references for this kind of work as it is thought
to be a major problem in phylogeny reconstruction.

Methods that seek to circumvent the problem:

Galtier, N. and Gouy, M. (1995). =93Inferring phylogenies from DNA
sequences of unequal base compositions.=94 Proc. Natl. Acad. Sci. USA 92:=

11317-11321.

Lake, J. A. (1994). =93Reconstructing evolutionary trees from DNA and
protein sequences: Paralinear distances.=94 Proc. Natl. Acad. Sci. USA 91=
:
1455-1459.

Lockhart, P. J., Steel, M. A., Hendy, M. D. and Penny, D. (1994).
=93Recovering evolutionary trees under a more realistic model of sequence=

evolution.=94 Mol. Biol. Evol. 11(4): 605-612.
 =

and references found therein.

maybe it is a start?

James

-- =

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Senior Scientific Officer,          email:j.mcinerney at nhm.ac.uk
The Natural History Museum,         =

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