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| a. Cortinarius subgen. Cortinarius, C. harcynicus, b. C. subgen. Dermocybe, C. neosanguineus, c. C. subgen. Orellani, C. rubellus, e. C. subgen. Telamonia, C. badiolaevis, g. C. subgen. Myxacium, C. seidliae, and h. C. subgen. Paramyxacium, C. caperatus. in Liimatainen, Kim, Pokorny, ... et Niskanen, 2022. Photos K. Liimatainen |
Abstract
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 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 Southern Hemispheres, was also done. Based on our results, a classification of the family Cortinariaceae into ten genera—Cortinarius, Phlegmacium, Thaxterogaster, Calonarius, Aureonarius, Cystinarius, Volvanarius, Hygronarius, Mystinarius, and Austrocortinarius—is proposed. Seven genera, 10 subgenera, and four sections are described as new to science and five subgenera are introduced as new combinations in a new rank. In addition, 41 section names and 514 species names are combined in new genera and four lecto- and epitypes designated. The position of Stephanopus in suborder Agaricineae remains to be studied. Targeted capture sequencing is used for the first time in fungal taxonomy in Basidiomycetes. It provides a cost-efficient way to produce -omics data in species-rich groups. The -omics data was produced from fungarium specimens up to 21 years old, demonstrating the value of museum specimens in the study of the fungal tree of life. This study is the first family revision in Agaricales based on genomics data and hopefully many others will soon follow.
Keywords: Agaricales, Fungariomics, Fungi, HybPiper, Museomics, Targeted capture sequencing, Whole genome sequencing
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| Photos of the representatives of genus Cortinarius. A. C. subgen. Cortinarius, C. harcynicus TN 04-525 (H), B. C. subgen. Dermocybe, C. neosanguineus TN 09-130 (H), C. C. subgen. Orellani, C. rubellus TN 05-024 (H), D. C. subgen. Iodolentes, C. mammillatus TN 06-249, E. C. subgen. Telamonia, C. badiolaevis TN 04-960 (H), F. C. sect. Subtorti, C. subtortus TN 05-021 (H), G. C. subgen. Myxacium, C. seidliae TN09-063 (H), and H. C. subgen. Paramyxacium, C. caperatus TN 06-149 (H). Photos K. Liimatainen |
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| Photos of the representatives of Cortinariaceae. A Calonarius subgen. Calochroi, C. metarius TN 06-268 (H), B C. subgen. Calonarius, C. odorifer TN 05-138 (H), C C. subgen. Fulvi, C. sp. TN 11-128 (H), D Aureonarius limonius, TN 07-282 (H), E Cystinarius rubiginosus TN 12-223 (H), F Hygronarius renidens TN 05-197 (H), G Mystinarius lustrabilis TN 05-218 (H), H. Volvanarius olivaceovaginatus K235015. Photos A–F K. Liimatainen, H R. Healy |
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| Photos of the representatives of genera Phlegmacium and Thaxterogaster. A Phlegmacium subgen. Phlegmacium, P. saginum TN 05-232 (H), B P. subgen. Phlegmacium, P. largum TN 08-060 (H), C. P. subgen. Bulbopodium, P. olivaceodionysae TN 06-311 (H), D P. subgen. Cyanicium, P. violaceorubens TN 07-062 (H), E T. sect. Lustrati, T. leucophanes TN 05-161 (H), F T. subgen. Variegati, T. variegatus TN 05-182 (H), G T. sect. Vibratiles, T. sp TN 05-210 (H), H T. subgen. Scauri, T. subpurpurascens TN 08-059 (H). Photos K. Liimatainen |
Kare Liimatainen, Jan T. Kim, Lisa Pokorny, Paul M. Kirk, Bryn Dentinger and Tuula Niskanen. 2022. Taming the Beast: A revised Classification of Cortinariaceae based on Genomic Data. Fungal Diversity. 112; 89–170. DOI: 10.1007/s13225-022-00499-9
