Data from: Molecular phylogeny and timing of diversification in Alpine Rhithrogena (Ephemeroptera: Heptageniidae)

Vuataz L, Rutschmann S, Monaghan MT, Sartori M

Date Published: September 28, 2016

DOI: http://dx.doi.org/10.5061/dryad.q0j90

 

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Title 16S matrix
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Description The mitochondrial 16S alignment in fasta format
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Title cox1 matrix
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Description The mitochondrial cox1 alignment in fasta format
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Title EF-1α matrix
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Description The nuclear EF-1α alignment in fasta format
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Title PEPCK matrix
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Description The nuclear PEPCK alignment in fasta format
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Title wg matrix
Downloaded 4 times
Description The nuclear wg alignment in fasta format
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Title Species tree *BEAST input file
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Description The species tree *BEAST input file in xml format
Download sp_tree_STARBEAST_input.xml (231.0 Kb)
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Title 16S *BEAST tree file
Downloaded 3 times
Description The mitochondrial 16S *BEAST output tree
Download 16S_STARBEAST.tree (41.37 Kb)
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Title cox1 pos1-2_*BEAST tree file
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Description The mitochondrial cox1 *BEAST output tree for codon positions 1 and 2
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Title cox1 pos3 *BEAST tree file
Downloaded 2 times
Description The mitochondrial cox1 *BEAST output tree for codon position 3
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Title EF-1α *BEAST tree file
Downloaded 2 times
Description The nuclear EF-1α *BEAST output tree
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Title PEPCK pos1-2 *BEAST tree file
Downloaded 5 times
Description The nuclear PEPCK *BEAST output tree for codon positions 1 and 2
Download PEPCK_pos1-2_STARBEAST.tree (84.70 Kb)
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Title PEPCK pos3-intron *BEAST tree file
Downloaded 1 time
Description The nuclear PEPCK *BEAST output tree for codon position 3 and intron
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Title wg *BEAST tree file
Downloaded 4 times
Description The nuclear wg *BEAST output tree
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Title species tree *BEAST output file
Downloaded 2 times
Description The *BEAST output species tree including the five genes (cox1 + 16S + PEPCK + EF-1α + wg)
Download species_tree_STARBEAST.tree (41.42 Kb)
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Title mitochondrial MrBayes input file
Downloaded 2 times
Description The concatenated mitochondrial (cox1 + 16S) MrBayes input file in nexus format
Download mt_MrBayes_input.nex (53.35 Kb)
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Title nuclear MrBayes input file
Downloaded 4 times
Description The concatenated nuclear (PEPCK + EF-1α + wg) MrBayes input file in nexus format
Download nuc_MrBayes_input.nex (52.02 Kb)
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Title concatenated MrBayes input file
Downloaded 4 times
Description The concatenated (cox1 + 16S + PEPCK + EF-1α + wg) Mrbayes input file in nexus format
Download combined_MrBayes_input.nex (106.3 Kb)
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Title cox1 MrBayes tree file
Downloaded 3 times
Description The mitochondrial cox1 MrBayes output tree
Download cox1_MrBayes_tree.nex (2.687 Kb)
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Title 16S MrBayes tree flle
Downloaded 3 times
Description The mitochondrial 16S MrBayes output tree
Download 16S_MrBayes_tree.nex (2.404 Kb)
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Title PEPCK MrBayes treee file
Downloaded 2 times
Description The nuclear PEPCK MrBayes output tree
Download PEPCK_MrBayes_treee.nex (2.647 Kb)
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Title EF-1α MrBayes tree file
Downloaded 4 times
Description The nuclear EF-1α MrBayes output tree
Download EF-1alpha_MrBayes_tree.nex (1.572 Kb)
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Title wg MrBayes tree file
Downloaded 2 times
Description The nuclear wg MrBayes output tree
Download wg_MrBayes_tree.nex (1.737 Kb)
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Title mitochondrial MrBayes tree file
Downloaded 1 time
Description The concatenated mitochondrial (cox1 + 16S) MrBayes output tree
Download mt_MrBayes_tree.nex (2.71 Kb)
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Title nuclear MrBayes tree file
Downloaded 2 times
Description The concatenated nuclear (PEPCK + EF-1α + wg) MrBayes output tree
Download nuc_MrBayes_tree.nex (2.624 Kb)
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Title concatenated MrBayes tree file
Downloaded 1 time
Description The concatenated (cox1 + 16S + PEPCK + EF-1α + wg) MrBayes output tree
Download combined_MrBayes_tree.nex (2.68 Kb)
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Title mitochondrial Garli tree file
Downloaded 2 times
Description The concatenated mitochondrial (cox1 + 16S) Garli output tree
Download mt_Garli_tree.tre (20.16 Kb)
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Title nuclear Garli tree file
Downloaded 3 times
Description The concatenated nuclear (PEPCK + EF-1α + wg) Garli output tree
Download nuc_Garli_tree.tre (18.30 Kb)
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Title concatenated Garli tree file
Downloaded 4 times
Description The concatenated (cox1 + 16S + PEPCK + EF-1α + wg) Garli output tree
Download combined_Garli_tree.tre (20.46 Kb)
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Title mitochondrial BEAST input file
Downloaded 4 times
Description The mitochondrial (cox1 + 16S) Beast input file (dating analysis) in xml format
Download mt_BEAST_input.xml (79.03 Kb)
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Title mitochondrial BEAST tree file
Downloaded 4 times
Description The mitochondrial (cox1 + 16S) Beast (dating analysis) output tree
Download mt_BEAST.tree (38.94 Kb)
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Title CorSiM R script
Downloaded 10 times
Description the R script of the CorSiM analyses for simulation of missing species
Download CorSiM_script.R (11.67 Kb)
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When using this data, please cite the original publication:

Vuataz L, Rutschmann S, Monaghan MT, Sartori M (2016) Molecular phylogeny and timing of diversification in Alpine Rhithrogena (Ephemeroptera: Heptageniidae). BMC Evolutionary Biology 16: 194. http://dx.doi.org/10.1186/s12862-016-0758-1

Additionally, please cite the Dryad data package:

Vuataz L, Rutschmann S, Monaghan MT, Sartori M (2016) Data from: Molecular phylogeny and timing of diversification in Alpine Rhithrogena (Ephemeroptera: Heptageniidae). Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.q0j90
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