Tic20 phylogenetic tree (pdf)

<p>Tic20 phylogeny.</p

Presentation of the Geocoder software

<p>geocoder.py is a program written in Python that takes one file containing polygons, and one file with species locality data as input. The program then tests if a species have been recorded inside any of the polygons. The result is presented as a nexus file with "0" indicating absence, and "1" indicating presence of a species in a polygon.</p> <p> </p

Consensus trees in NEXUS file format for the Tic20 gene family

<p>Phylogenetic analysis of the Tic20 genefamily.</p

Cygwin installation instructions

<p>This file contains information for installing the program Cygwin (http://www.cygwin.com/) on Windows XP, Vista and 7.</p

Bacteria cladogram

<p>This cladogram is a simplified version of figure 2 in Wu & Eisen ("A simple fast and accurate method of phylogenomic inference, 2008, Genome Biology 2008, 9:R151, doi:10.1186/gb-2008-9-10-r151). Also indicated in the tree are the expected possitions of eukaryote sequences with an endosymbiotic origin (indicated as CYANOBACTERIA and MITOCHONDRIA).</p

Multi-sequence alignment in FASTA format of the Tic20 gene family

<p>Alignment of Tic20 amino acid sequences.</p

HOWTO do a minimal Cygwin installation

<p>A short HOWTO on installing Cygwin, a UNIX-like environment, on a Windows machine.</p

Bacteria cladogram

<p>This cladogram is a simplified version of figure 2 in Wu & Eisen ("A simple fast and accurate method of phylogenomic inference, 2008, Genome Biology 2008, 9:R151, doi:10.1186/gb-2008-9-10-r151). Also indicated in the tree are the expected possitions of eukaryote sequences with an endosymbiotic origin (indicated as CYANOBACTERIA and MITOCHONDRIA).</p

BEAST input file, dating of Rocaseae

<p>Imput file used for the dating analysis of the plant family Rosaceae presented in:</p> <p> </p> <p>Töpel M. Antonelli A. Yesson C. Eriksen B. (2012) Past Climate Change and Plant Evolution in western North America: A Case Study in Rosaceae. PLoS ONE 7(12): e50358. doi:10.1371/journal.pone.0050358.</p

Phylogenetic analysis of the Tic20 genefamily.

<p>This dataset contains a multi sequence alignemt of Tic20 homologues from 59 differnt species from cyanobacteria, red- and green algae and landplants.</p> <p>Tic20 is a polytopic protein of the inner envelope membrane of chloroplasts, and it is proposed to act as a translocation channel during chloroplast protein import. By analyzing 29 sequences from diverse organisms, it was evident that Tic20-related proteins form two distinct clades, termed Group 1 and Group 2. The former group includes canonical Tic20 proteins that are essential for chloroplast development, while members of the latter are of unknown function. An increased evolutionary rate, in connection with adaptation to terrestrial life, was detected in Group 1. Interestingly, the sub-cellular (genomic) localization of genes coding for Group 1 proteins differs between evolutionary lineages.</p> <p> </p> <p> </p> <p> </p