amino acid vs. nucleotide based phylogeny

[Saco]

Olga Belenkiy <olga.belenkiy at weizmann.ac.il> wrote in message news:<3DC14931.7000005 at weizmann.ac.il>...
> Hi everyone,
> 
> I am looking for the material (books, papers) that review and discuss 
> advantages and disadvantages of using protein or nucleic sequence data 
> for phylogenetic reconstruction.

There is a chapter in [1] about phylogenetic analysis, which briefly
discusses pros and cons. It might contain further references. Check also 
http://www.icp.ucl.ac.be/~opperd/private/arguments.html

[1]A.D. Baxevanis and  B.F.F. Ouellette (eds.), "Bioinformatics: a
practical guide to the analysis of genes and proteins",
Wiley-Interscience, 2001.