You can also "tinker" your own tree with the help of Phylomatic and the
APweb Tree behind it (<http://www.mobot.org/MOBOT/research/APWeb/>) as I
have done it for ca. 12700 species. It was a major task but it worked
(but only for plants).
cheers,
M.
Brian O'Meara schrieb:
There's not yet a good single source. TreeBase.org has some
topologies, but not all studies go in there yet. The largest one I
know of there has 1569 taxa . The PhyLoTA browser
(<http://loco.biosci.arizona.edu/pb/>) has trees for many groups and
also allows you to download aligned data to make your own. You can
download NCBI's taxonomy, which is a sort of tree, though not
highly-resolved or with branch lengths, but at least pretty
comprehensive. You can also download the tree used by the Tree of Life
project (<http://tolweb.org/tree/home.pages/downloadtree.html>). There
may be a tree available from <http://www.timetree.org/>, but I haven't
been able to find it in a form other than a pdf image.
Having a place to download the single best current estimate of the
full tree of life would be great, and there are a few research groups
working towards this goal, but it's not ready yet, as far as I know.
Hope this helps,
Brian
________________________________________________
Brian C. O'Meara
Asst. Prof., Dept. of Ecology and Evolutionary Biology
University of Tennessee, Knoxville
http://www.brianomeara.info
865-408-TREE (8733)
On Aug 20, 2009, at 7:31 AM, saikari keitele wrote:
Hi,
I'm trying to use the picante r package.
My aim is to use it to construct phylogenetic trees and calculate
diversity
statistics from species occurrence data in different geographic regions.
So, I have a list of species names with abundance information (number of
occurrences) and would like to use Phylomatic to construct a tree.
The Phylomatic documentation mentions that a reference tree is needed
and
different examples of megatrees (
http://svn.phylodiversity.net/tot/megatrees/) are given for this.
However,
they apply only (I think) to trees and plants. My data includes other
kinds
of organisms. Do you know of any other downloadable reference trees that
include the whole taxonomy?
Thank you very much.
Saikari
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