Phylogenomics data

Here are the alignment and tree files which I used for Fig. 2, the Tree of Life, in the GEBA-MDM paper.

The alignment files are here - one file for the archaeal and one for the bacterial alignment:

Bacteria files/MDM_figure2/02_2245x_B_all_fasttree4PAPER_real_2229x.fasta

Archaea files/MDM_figure2/03_220x_A_all_copy4PAPER.fasta

 

The newick tree files are here:

Bacteria 02_2245x_B_all_fasttree4paper.tree

Archaea 03_220x_A_all_copy4PAPER.tree

 

If you use these data please cite:

Insights into the phylogeny and coding potential of microbial dark matter.

Rinke C, Schwientek P, Sczyrba A, Ivanova NN, Anderson IJ, Cheng JF, Darling A, Malfatti S, Swan BK, Gies EA, Dodsworth JA, Hedlund BP, Tsiamis G, Sievert SM, Liu WT, Eisen JA, Hallam SJ, Kyrpides NC, Stepanauskas R, Rubin EM, Hugenholtz P, Woyke T.

Nature. 2013 Jul 25;499(7459):431-7. doi: 10.1038/nature12352.