Leotiomycetes phylogeny 2019
Data and Resources
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update notes.txtTXT
Miscellaneous updates, mistakes in DNA sequences, etc
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Phylogenies Figs 1-6PDF
pdf version of the Bayesian genome tree and the 5 ML trees based on the 15 gene alignment. Family level taxa are indicated to the right are those accepted in this paper, ‘Han Clade n-nn’ are from...
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15-gene tree specimen metadataPDF
Specimen metadata for the genome tree (presented as Fig 1) and the 15-gene tree (presented as Figs 2-6)
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ITS gene tree presented as Suppl. Data Fig 2PDF
pdf version of the ITS tree presented as Suppl Data Fig 2
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ITS gene tree specimen metadataPDF
Specimen metadata (Suppl Data Table 2) for ITS gene tree presented as Suppl Data Fig 2
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15 gene tree (Figs 1-6) NEXUS filenex
Nexus format file for the phylogeny presented as Figs 2-6.
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15-gene tree concatenated alignment fasta formatTXT
Concatenated alignment used to generate the 15-gene phylogeny, presented as Figs 2-6.
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Partitions for 15 gene tree concatenated alignmentnexus
Partitions for the 15 genes in the concatenated alignment used for trees in Figs 1-6.
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ITS gene tree (Suppl Data Fig 2) NEXUS filenexus
NEXUS file of the ITS gene tree presented as Suppl Data Fig 2. Maximum Likelihood tree generated using IQTREE with model TIM2+F+R7 selected using ModelFinder, bootstrap values from UFBoot2
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ITS gene tree Alignment FASTA formatTXT
Alignment of the 568 ITS sequences used to generate the ITS gene tree Suppl. Data Fig 2
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15-gene tree, 5.8S alignment FASTA formatTXT
5.8S alignment used in the concatenated alignment for the 15-gene phylogeny
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15-gene tree, a-Tubulin alignment FASTA formatTXT
a-Tubulin alignment used in the concatenated alignment for the 15-gene phylogeny
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15-gene tree, beta-Tubulin alignment FASTA formatTXT
beta-Tubulin alignment used in the concatenated alignment for the 15-gene phylogeny
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15-gene tree, LSU alignment FASTA formatTXT
LSU alignment used in the concatenated alignment for the 15-gene phylogeny
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15-gene tree, MCM7 alignment FASTA formatTXT
MCM7 alignment used in the concatenated alignment for the 15-gene phylogeny
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15-gene tree, mtSSU alignment FASTA formatTXT
mtSSU alignment used in the concatenated alignment for the 15-gene phylogeny
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15-gene tree, RPA1 alignment FASTA formatTXT
RPA1 alignment used in the concatenated alignment for the 15-gene phylogeny
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15-gene tree, RPA2 alignment FASTA formatTXT
RPA2 alignment used in the concatenated alignment for the 15-gene phylogeny
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15-gene tree, RPB1 alignment FASTA formatTXT
RPB1 alignment used in the concatenated alignment for the 15-gene phylogeny
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15-gene tree, RPB2 alignment FASTA formatTXT
RPB2 alignment used in the concatenated alignment for the 15-gene phylogeny
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15-gene tree, RPC2 alignment FASTA formatTXT
RPC2 alignment used in the concatenated alignment for the 15-gene phylogeny
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15-gene tree, SF3B1 alignment FASTA formatTXT
SF3B1 alignment used in the concatenated alignment for the 15-gene phylogeny
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15-gene tree, SSU alignment FASTA formatTXT
SSU alignment used in the concatenated alignment for the 15-gene phylogeny
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15-gene tree, TEF alignment FASTA formatTXT
TEF alignment used in the concatenated alignment for the 15-gene phylogeny
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15-gene tree, TFB4 alignment FASTA formatTXT
TFB4 alignment used in the concatenated alignment for the 15-gene phylogeny
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Models for genes in 15 gene phylogenyPDF
Genes included in the 15 gene phylogeny and models selected by ModelFinder
Additional Info
| Field | Value |
|---|---|
| Theme | |
| Author | Johnston, Peter |
| Maintainer | Peter Johnston |
| Maintainer Email | Peter Johnston |
| Source | |
| Source Created | Unknown |
| Source Modified | Unknown |
| Language | English |
| Spatial | |
| Source Identifier |