Data from: Evolution of novel wood decay mechanisms in Agaricales revealed by the genome sequences of Fistulina hepatica and Cylindrobasidium torrendii

Floudas D, Held BW, Riley R, Nagy LG, Koehler G, Ransdell AS, Younus H, Chow J, Chiniquy J, Lipzen A, Tritt A, Sun H, Haridas S, LaButti K, Ohm RA, Kues U, Blanchette RA, Grigoriev IV, Minto RE, Hibbett DS

Date Published: February 13, 2015

DOI: http://dx.doi.org/10.5061/dryad.71tg4

 

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Title 26 genes - species phylogeny - original alignments
Description This folder contains all the original alignments for each one of the 26 genes prior to exclusion of poorly aligned areas
Download 26GenesDatasets_SpeciesPhylogeny.zip (165.7 Kb)
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Title 26GenesDatasets_Aligned+Gblocks
Description The folder contains the alignment of each one of the 26 genes used for the species phylogeny after GBlocks
Download 26GenesDatasets_Aligned+Gblocks.zip (125.5 Kb)
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Title 26Genes_MLandBrBayes_files
Description final analyzed files and tree files for both MrBayes and RAxML
Download 26Genes_MLandBrBayes_files.zip (231.4 Kb)
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Title Wood_decay_phylogenetics
Description the folder includes the wood decay protein datasets and their phylogenetic analyses
Download Wood_decay_phylogenetics.zip (1.525 Mb)
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Title reconciled_trees
Description the folder contains the reconciled trees using Notung.
Download reconciled_trees.zip (64.68 Kb)
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Title Pseudogenization_related_phylogenies
Description the folder contains the phylogenies of DyP, GH74, GH5-7, GH74 with the inclusion of the predicted proteins from potential pseudogenes. It also contains the phylogenies of the protein clusters of genes upstream and downstream of the potential pseudogenes.
Download Pseudogenization_related_phylogenies.zip (114.6 Kb)
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When using this data, please cite the original publication:

Floudas D, Held BW, Riley R, Nagy LG, Koehler G, Ransdell AS, Younus H, Chow J, Chiniquy J, Lipzen A, Tritt A, Sun H, Haridas S, LaButti K, Ohm RA, Kues U, Blanchette RA, Grigoriev IV, Minto RE, Hibbett DS (2015) Evolution of novel wood decay mechanisms in Agaricales revealed by the genome sequences of Fistulina hepatica and Cylindrobasidium torrendii. Fungal Genetics and Biology 76: 78–92. http://dx.doi.org/10.1016/j.fgb.2015.02.002

Additionally, please cite the Dryad data package:

Floudas D, Held BW, Riley R, Nagy LG, Koehler G, Ransdell AS, Younus H, Chow J, Chiniquy J, Lipzen A, Tritt A, Sun H, Haridas S, LaButti K, Ohm RA, Kues U, Blanchette RA, Grigoriev IV, Minto RE, Hibbett DS (2015) Data from: Evolution of novel wood decay mechanisms in Agaricales revealed by the genome sequences of Fistulina hepatica and Cylindrobasidium torrendii. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.71tg4
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