Agaricales Genomics
Datasets created for Dentinger et al. 2015. Tales from the crypt: genome mining from fungarium specimens improves resolution of the mushroom tree of life. Biological Journal of the Linnean Society.
Contents
Untrimmed Single-Gene Alignments: Raw untrimmed amino acid alignments of 210 single-copy genes from 35 Agaricales taxa, plus 5 five outgroups (relaxed Phylip format).
Trimmed Single-Gene Alignments: Trimmed amino acid alignments of 208 single-copy genes from 35 Agaricales taxa, plus 5 five outgroups (relaxed Phylip format).
Single-Gene Analyses: Best tree from RaxML analysis single-gene amino acid sequence alignments for 208 single-copy genes from 35 Agaricales taxa plus four outgroups (Newick format).
Concatinated Alignment: Final trimmed, concatinated amino acid alignment of 208 single-copy genes from 35 Agaricales taxa, plus 5 five outgroups (relaxed Phylip format)
Unpartitioned Analysis: Best tree from unpartitioned RaxML analysis of concatinated alignment of amino acid sequences for 208 single-copy genes from 35 Agaricales taxa plus four outgroups (Newick format).
Partition Info for Concatinated Alignment: Partition information for concatinated amino acid alignment of 208 single-copy genes from 35 Agaricales taxa, plus four outgroups. Gene names are based on Coprinopsis cinerea locus IDs
Partitioned Analysis: Best tree from partitioned RaxML analysis of concatinated alignment of amino acid sequences for 208 single-copy genes from 35 Agaricales taxa plus four outgroups (Newick format).