Data from: Convergent losses of decay mechanisms and rapid turnover of symbiosis genes in mycorrhizal mutualists

Kohler A, Kuo A, Nagy LG, Morin E, Barry KW, Buscot F, Canback B, Choi C, Cichocki N, Clum A, Colpaert J, Copeland A, Costa MD, Dore J, Floudas D, Gay G, Girlanda M, Henrissat B, Herrmann S, Hess J, Hogberg N, Johansson T, Khouja H, LaButti K, Lahrmann U, Levasseur A, Lindquist EA, Lipzen A, Marmeisse R, Martino E, Murat C, Ngan CY, Nehls U, Plett JM, Pringle A, Ohm RA, Perotto S, Riley R, Rineau F, Ruytinx J, Salamov A, Shah F, Sun H, Tarkka M, Tritt A, Fourrey-Veneault C, Zuccaro A, Buee M, Din Y, Gardes M, Grelet G, Gryta H, Jargeat P, Peter M, Zimmermann S, Sitrit Y, Tunlid A, Grigoriev IV, Hibbett DS, Martin F

Date Published: February 25, 2015

DOI: http://dx.doi.org/10.5061/dryad.f2g0f

 

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Title Alignments PRANK original
Downloaded 14 times
Description The file contains all the alignments generated using the online version of PRANK alignment program, prior to exclusion of poorly aligned regions
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Title Alignments After MacClade
Downloaded 36 times
Description This folder contains the alignment files for wood decay gene families after exclusion of poorly aligned regions using MacClade.
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Title RAxMLtrees
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Description the folder contains the RAxML trees generated for reconciliation of wood decay gene families
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Title Phylogenomic Datasets and Trees
Downloaded 45 times
Description It includes the alignments and trees generated for the species phylogeny
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Title list of proteins analyzed for organismal phylogenetic analyses
Downloaded 22 times
Download Proteinfamilies_with_blast_characterization.txt (77.62 Kb)
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Title Clustering_run1973_clusterMembers
Downloaded 7 times
Description Gene clustering used for organismal phylogenetic analyses
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Title FilterPostProb
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Title Chronogram_R8S_PR95_smoothing5
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Download Chronogram_R8S_PR95_smoothing5.tre (1.377 Kb)
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When using this data, please cite the original publication:

Kohler A, Kuo A, Nagy LG, Morin E, Barry KW, Buscot F, Canbäck B, Choi C, Cichocki N, Clum A, Colpaert J, Copeland A, Costa MD, Doré J, Floudas D, Gay G, Girlanda M, Henrissat B, Herrmann S, Hess J, Högberg N, Johansson T, Khouja H, LaButti K, Lahrmann U, Levasseur A, Lindquist EA, Lipzen A, Marmeisse R, Martino E, Murat C, Ngan CY, Nehls U, Plett JM, Pringle A, Ohm RA, Perotto S, Riley R, Rineau F, Ruytinx J, Salamov A, Shah F, Sun H, Tarkka M, Tritt A, Fourrey-Veneault C, Zuccaro A, Buee M, Din Y, Gardes M, Grelet G, Gryta H, Jargeat P, Peter M, Zimmermann S, Sitrit Y, Tunlid A, Grigoriev IV, Hibbett DS, Martin F (2015) Convergent losses of decay mechanisms and rapid turnover of symbiosis genes in mycorrhizal mutualists. Nature Genetics 47: 410–415. http://dx.doi.org/10.1038/ng.3223

Additionally, please cite the Dryad data package:

Kohler A, Kuo A, Nagy LG, Morin E, Barry KW, Buscot F, Canback B, Choi C, Cichocki N, Clum A, Colpaert J, Copeland A, Costa MD, Dore J, Floudas D, Gay G, Girlanda M, Henrissat B, Herrmann S, Hess J, Hogberg N, Johansson T, Khouja H, LaButti K, Lahrmann U, Levasseur A, Lindquist EA, Lipzen A, Marmeisse R, Martino E, Murat C, Ngan CY, Nehls U, Plett JM, Pringle A, Ohm RA, Perotto S, Riley R, Rineau F, Ruytinx J, Salamov A, Shah F, Sun H, Tarkka M, Tritt A, Fourrey-Veneault C, Zuccaro A, Buee M, Din Y, Gardes M, Grelet G, Gryta H, Jargeat P, Peter M, Zimmermann S, Sitrit Y, Tunlid A, Grigoriev IV, Hibbett DS, Martin F (2015) Data from: Convergent losses of decay mechanisms and rapid turnover of symbiosis genes in mycorrhizal mutualists. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.f2g0f
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