Taming the beast: a revised classification of Cortinariaceae based on genomic data ...
Family Cortinariaceae currently includes only one genus, Cortinarius, which is the largest Agaricales genus, with thousands of species worldwide. The species are important ectomycorrhizal fungi and form associations with many vascular plant genera from tropicals to arctic regions. Genus Cortinarius...
| Main Authors: | , , , , , |
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| Format: | Dataset |
| Language: | English |
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Dryad
2021
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| Subjects: | |
| Online Access: | https://dx.doi.org/10.5061/dryad.0p2ngf238 https://datadryad.org/stash/dataset/doi:10.5061/dryad.0p2ngf238 |
| Summary: | Family Cortinariaceae currently includes only one genus, Cortinarius, which is the largest Agaricales genus, with thousands of species worldwide. The species are important ectomycorrhizal fungi and form associations with many vascular plant genera from tropicals to arctic regions. Genus Cortinarius contains a lot of morphological variation, and its complexity has led many taxonomists to specialize in particular on infrageneric groups. The previous attempts to divide Cortinarius have been shown to be unnatural and the phylogenetic studies done to date have not been able to resolve the higher-level classification of the group above section level. Genomic approaches have revolutionized our view on fungal relationships and provide a way to tackle difficult groups. We used both targeted capture sequencing and shallow whole genome sequencing (WGS) to produce data and to perform phylogenomic analyses of 75 single-copy genes from 19 species. In addition, a wider 5-locus analysis of 245 species, from the Northern and ... : Our goal was to design a 20,000-probe custom myBaits® enrichment panel for target capture of phylogenetically-informative, single-copy nuclear orthologs. Four out of nine Cortinarius species (C. victoriaensis, C. neofurvolaesus, C. scaurus, and C. typicus), for which most single-copy orthologs recovered by exonorate and representing different lineages across Cortinariaceae, were selected for probe design. The size of the dataset exceeded the limits of the 20,000 probe enrichment panel and we therefore discarded 20 target genes with the most missing data from all four species. The final dataset included 188 targets, from those identified by Dentinger et al. (2016), with the addition of the currently used loci (RPB1, RPB2, MCM7, GPD, and TEF1), resulting in a total of 193 targets. For the probe design, nucleotide sequences containing both intron and exon regions were used. Based on the visual inspection of the alignments of each target, the intron regions were generally short (< 50 bp) and largely conserved ... |
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