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For tree drawing Figtree v1.1.2 [39] was used.
For tree drawing, 888 StART-like sequences were reduced to 143 using a non-redundancy filter (PISCES at dunbrack.fccc.edu/) and then the best tree inferred with PHYML (http://www.trex.uqam.ca/) (Guindon and Gascuel, 2003).
The phylogenetic tree was produced using MUSCLE for multiple alignment, Gblocks for automatic alignment curation, PhyML for tree building and TreeDyn for tree drawing using the tree-generation pipeline at Phylogeny.fr website [ 54].
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We thank Young-Jin Lee for analysis of proteomic LC-MS/MS data and John McCrow for access to his tree drawing program.
We thank Sophie Siguenza for her help with the tree drawing.
The tree drawing program DensiTree draws all posterior trees transparently [ 3].
Figure 2 displays the phylogenetic tree for the fifteen species we included in this study (tree drawn after [ 10]).
The γ statistic was calculated for 1000 trees drawn randomly from the posterior distribution to get a measure of uncertainty in our estimates.
For another, family trees drawn on the basis of other genes showed a quite different pattern to that of Dr. Woese's protein-making gene.
She moved to New York City for eleven years to work as a fashion model and study holistic health until her urge for sunshine and trees drew her back to the West Coast.
Gene-based trees drawn for living animals can usually be dated by estimating the rate of DNA change and anchoring at least one branch of the tree to a fossil of known age.
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