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Article: Towards consolidation of Gymnopilus taxonomy: the case of G. stabilis, G. sapineus, and G. penetrans

Holec, Jan / Borovička, Jan / Peintner, Ursula / Kolařík, Miroslav

Mycological progress. 2022 Jan., v. 21, no. 1

2022

Abstract: Gymnopilus stabilis (Fungi, Agaricales), a very rare species of unclear identity described from Europe, was revised using morphological data and phylogenetic affiliations derived from ITS rDNA sequences. Collections from the Czech Republic, Germany, and ... ...

Abstract	Gymnopilus stabilis (Fungi, Agaricales), a very rare species of unclear identity described from Europe, was revised using morphological data and phylogenetic affiliations derived from ITS rDNA sequences. Collections from the Czech Republic, Germany, and Russia plus reference vouchers of related or similar species were studied. Gymnopilus stabilis sequences form a moderately supported but distinct clade in a lineage containing G. swaticus and a Gymnopilus collection of unknown identity from the USA. The G. stabilis lineage is sister to the G. sapineus clade, a group of species with low divergence in ITS rDNA region. This whole, well-supported group is clearly distinct from the lineage of G. penetrans, a species with which G. stabilis has sometimes been confused. Morphological characters of a recent, well-documented Czech collection of G. stabilis are described in detail and compared with the German and Russian ones. A literature review confirms that the taxonomic concept of G. stabilis has not substantially changed over time. In order to consolidate the taxonomy and nomenclature of this enigmatic species, lectotype and epitype are designated here for G. stabilis, and key diagnostic characters are highlighted. The taxonomic concepts of G. sapineus and G. penetrans are further specified based on well-documented, sequenced reference collections. Moreover, the position of G. hybridus is briefly discussed. The identification of several GenBank entries of G. stabilis, G. sapineus, and G. penetrans is revised in order to fix species concepts in this fascinating group of wood-decaying fungi.
Keywords	Gymnopilus ; Russia ; lectotypes ; phylogeny ; rare species ; Czech Republic ; Germany
Language	English
Dates of publication	2022-01
Size	p. 327-343.
Publishing place	Springer Berlin Heidelberg
Document type	Article
ZDB-ID	2226747-5
ISSN	1861-8952 ; 1617-416X
ISSN (online)	1861-8952
ISSN	1617-416X
DOI	10.1007/s11557-021-01745-1
Database	NAL-Catalogue (AGRICOLA)

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Article: Richness and composition of macrofungi on large decaying trees in a Central European old-growth forest: a case study on silver fir (Abies alba)

Holec, Jan / Kučera, Tomáš

Mycological progress. 2020 Dec., v. 19, no. 12

2020

Abstract: The species richness and composition of macrofungi on huge fallen trunks of silver fir (Abies alba) were monitored during a case study in the well-preserved Boubínský prales virgin forest in Czechia. A detailed survey of all macrofungal groups recorded ... ...

Abstract	The species richness and composition of macrofungi on huge fallen trunks of silver fir (Abies alba) were monitored during a case study in the well-preserved Boubínský prales virgin forest in Czechia. A detailed survey of all macrofungal groups recorded 200 species on 30 trunks within the diameter range of 85–190 cm. This number is very high in the overall context and includes many rare and threatened species. The species-richest groups were corticioids and fleshy saprotrophic fungi. Individual trunks were inhabited by 4–33 species. The species richness was negatively correlated with trunk decay and positively with bark cover, moss cover and trunk length. Simultaneously, it was negatively correlated with increasing time since tree fall, time since tree death and the way of fall, namely its category ‘broken’. Species composition was significantly influenced by decay, bark cover, moss cover, and, to a lesser degree, also by canopy cover, time since fall and time since death. The best trunks in terms of mycobiota rarity and nature conservation were those which died a long time ago but fell to the ground only recently. They have gone through a long phase of slow decay and gradual succession in standing position. As a result, they are inhabited by many distinctive fungi, especially those preferring natural forests. Durandiella gallica, Hohenbuehelia josserandii, Panellus violaceofulvus, Phellinus pouzarii and Pseudoplectania melaena can be considered almost exclusive fir specialists. All these fir-associated fungal species are immediately threatened by the gradual disappearance of firs resulting mainly from ungulate overpopulation, requiring the urgent implementation of appropriate conservation measures. A list of fungi characteristic of wood of silver fir and Norway spruce is presented.
Keywords	Abies alba ; Hohenbuehelia ; Panellus ; Phellinus ; Picea abies ; bark ; canopy ; case studies ; death ; fungi ; mosses and liverworts ; mycobiota ; natural resources conservation ; old-growth forests ; population growth ; saprotrophs ; species richness ; surveys ; threatened species ; tree mortality ; trees ; ungulates ; virgin forests ; wood ; Czech Republic
Language	English
Dates of publication	2020-12
Size	p. 1429-1443.
Publishing place	Springer Berlin Heidelberg
Document type	Article
Note	NAL-AP-2-clean
ZDB-ID	2226747-5
ISSN	1861-8952 ; 1617-416X
ISSN (online)	1861-8952
ISSN	1617-416X
DOI	10.1007/s11557-020-01637-w
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Article ; Online: Preparative-scale synthesis of nonacene.

Jančařík, Andrej / Holec, Jan / Nagata, Yuuya / Šámal, Michal / Gourdon, Andre

Nature communications

2022 Volume 13, Issue 1, Page(s) 223

Abstract: During the last years we have witnessed progressive evolution of preparation of acenes with length up to dodecacene by on-surface synthesis in ultra-high vacuum or generation of acenes up to decacene in solid matrices at low temperatures. While these ... ...

Abstract	During the last years we have witnessed progressive evolution of preparation of acenes with length up to dodecacene by on-surface synthesis in ultra-high vacuum or generation of acenes up to decacene in solid matrices at low temperatures. While these protocols with very specific conditions produce the acenes in amount of few molecules, the strategies leading to the acenes in large quantities dawdle behind. Only recently and after 70 years of synthetic attempts, heptacene has been prepared in bulk phase. However, the preparative scale synthesis of higher homologues still remains a formidable challenge. Here we report the preparation and characterisation of nonacene and show its excellent thermal and in-time stability.
Language	English
Publishing date	2022-01-11
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2553671-0
ISSN	2041-1723 ; 2041-1723
ISSN (online)	2041-1723
ISSN	2041-1723
DOI	10.1038/s41467-021-27809-0
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Article: Macrofungi on large decaying spruce trunks in a Central European old-growth forest: what factors affect their species richness and composition?

Holec, Jan / Kučera, Tomáš / Běťák, Jan / Hort, Libor

Mycological progress. 2020 Jan., v. 19, no. 1

2020

Abstract: Species richness and composition of macrofungi on huge fallen trunks of spruce (Picea abies) were monitored at a model old-growth forest locality, Boubínský prales virgin forest (Czech Republic). Using detailed survey of all macrofungal groups based on ... ...

Abstract	Species richness and composition of macrofungi on huge fallen trunks of spruce (Picea abies) were monitored at a model old-growth forest locality, Boubínský prales virgin forest (Czech Republic). Using detailed survey of all macrofungal groups based on fruit bodies, 168 species were recorded on 33 trunks with a diameter of 100–150 cm, which is a very high species richness. Individual trunks were inhabited by 6–32 species. The number of species per trunk was positively correlated with increasing tree cover, medium decay stages, and decreasing altitude. The species-richest groups were resupinate fungi with annual basidiomata and fleshy saprotrophic fungi. Species composition on particular trunks was significantly influenced by percentage of bark cover, altitude, and decay stage and to a lesser degree also by percentage of trunk contact with the soil and cover of mosses, trees, and shrubs. Resupinate fungi and fleshy saprotrophs were distributed along the entire decay gradient. Most polypores prevailed in early decay stages. Mycorrhizal agarics were associated with the latest stages. The presence of dominant species Fomitopsis pinicola had a low effect on the composition of other fungal species on the same trunk, whereas Phellinus nigrolimitatus had a significant effect. The monitoring revealed 71% of species known at the locality from spruce, and 45 species new to the locality, especially those with inconspicuous fruit bodies. The previously published field survey was more efficient for capturing rare species with larger fruit bodies. Both methods should be combined during mycobiota inventories.
Keywords	Fomitopsis pinicola ; Phellinus ; Picea abies ; altitude ; bark ; basidiomata ; dominant species ; fungi ; inventories ; models ; monitoring ; mosses and liverworts ; mycobiota ; old-growth forests ; rare species ; saprotrophs ; shrubs ; soil ; species richness ; surveys ; trees ; virgin forests ; Czech Republic
Language	English
Dates of publication	2020-01
Size	p. 53-66.
Publishing place	Springer Berlin Heidelberg
Document type	Article
ZDB-ID	2226747-5
ISSN	1861-8952 ; 1617-416X
ISSN (online)	1861-8952
ISSN	1617-416X
DOI	10.1007/s11557-019-01541-y
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Article ; Online: Ecology and distribution of Kneiffiella curvispora (Hymenochaetales, Basidiomycota) in Central Europe and its phylogenetic placement

Běťák, Jan / Holec, Jan / Beran, Miroslav / Riebesehl, Janett

2021

Abstract: Numerous recent data on occurrence, substrates, and habitats of the rare saproxylic corticioid fungal species, Kneiffiella curvispora, were collected in order to describe its ecological demands in detail. Based on our records, the species prefers medium ... ...

Abstract	Numerous recent data on occurrence, substrates, and habitats of the rare saproxylic corticioid fungal species, Kneiffiella curvispora, were collected in order to describe its ecological demands in detail. Based on our records, the species prefers medium to strongly decayed, several decades dead, large trunks of Abies alba (less frequently also Picea abies) situated in mixed (sub)montane old-growth forests in which Fagus sylvatica dominates and there is sufficient host substrate at altitudes of 500–1220 m and avoids man-influenced forest habitats. Shady and slowly drying places on trunks with strongly decayed wood (cavities, undersides) are favoured types of microhabitat. Fungal (several times also bryophyte and lichen) communities on trunks inhabited by K. curvispora are described with emphasis on co-occurring species of conservation value. In total, 167 species were identified on 30 trunks with presence of K. curvispora. A total of 23 species are red-listed. Generally common species (Calocera viscosa, Lactarius subdulcis, Mycena stipata, Galerina hypnorum and Physisporinus sanguinolentus) were the most frequent on the occupied trunks. No evidence was found that K. curvispora requires a prior presence of other fungal species in the succession process on decaying trunks. The distribution of the species in Central Europe is summarized. The first collection from Slovakia is presented as well as several new localities of the species in the Czech Republic. The gradual decline of fir (and spruce) in favour of the spreading beech represents the most serious long-term threat to the species populations. The first phylogenetic tree containing complete ITS was calculated to show the placement of K. curvispora in the current phylogenetic tree of Kneiffiella.
Keywords	Text ; ddc:630 ; Hyphodontia s.l. -- rare species -- taxonomy -- Abies alba -- Picea abies -- microhabitats -- oldgrowth forests -- Czech Republic
Subject code	590 ; 580
Language	English
Publishing country	de
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Kneiffiella altaica and Kneiffiella subaltaica sp. nov. – a rare species found in European old-growth forests and a closely related new species from North America

Langer, Ewald / Běťák, Jan / Holec, Jan / Klug, Alexander / Riebesehl, Janett

2022

Abstract: After a revision of Kneiffiella specimens from European old-growth forests in Czech Republic, Slovakia, Croatia and Poland, Kneiffiella altaica was found to have a western distribution far from its type locality at Teletskoye lake in Altai mountains in ... ...

Abstract	After a revision of Kneiffiella specimens from European old-growth forests in Czech Republic, Slovakia, Croatia and Poland, Kneiffiella altaica was found to have a western distribution far from its type locality at Teletskoye lake in Altai mountains in Russia. Comparing further material from USA, we found a similar species, Kneiffiella subaltaica, which we describe as new to science based on molecular inference of the ITS and 28S DNA sequence and morphology.
Keywords	Text ; ddc:630
Language	English
Publishing country	de
Document type	Article ; Online
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Article: Hydnoid fungi of the family Bankeraceae â their assemblages and vegetation ecology in Central Europe, Czech Republic

Holec, Jan / TomÃ¡Å¡ KuÄera

Fungal ecology. 2018 Apr., v. 32

2018

Abstract: The diversity of stipitate hydnoid fungi of the genera Bankera, Hydnellum, Phellodon and Sarcodon was studied at 92 microlocalities in the Czech Republic in 2010â2014. Their vegetation was documented by means of phytosociological relevÃ©s. In total, 26 ...

Abstract	The diversity of stipitate hydnoid fungi of the genera Bankera, Hydnellum, Phellodon and Sarcodon was studied at 92 microlocalities in the Czech Republic in 2010â2014. Their vegetation was documented by means of phytosociological relevÃ©s. In total, 26 hydnoid species were found. Individual microlocalities hosted 1â6 hydnoid species. Frequent co-occurrence of certain species pairs or groups was revealed. Multivariate analyses were used to test community patterns between hydnoids and vegetation, divided into layers and plant functional groups. We confirmed the hypothesis that vegetation layers and functional groups have different effects on the individual hydnoid species. The occurrence of hydnoids is conditional especially on the dominant tree species. The main vegetation gradient of hydnoid sites is represented by the proportion of deciduous versus coniferous trees. Smaller trees in shrub and herb layers do not play a significant role except for spruce. Some hydnoids occur at sites with a species-rich herb layer, whereas others occur at sites with ericoid heaths and lichens, wet sites covered with hygrophilous mosses, or bare soils only covered by litter. Possible factors favouring hydnoids and causing their accumulation at small sites are outlined, e.g. facilitation, phylogenetic conservatism and alteration of tree dominants during succession. Habitat conditions creating âhydnoid site qualityâ are summarized including the character of the Czech hydnoid-richest sites.
Keywords	conifers ; fungi ; ground vegetation ; habitats ; Hydnellum ; lichens ; moieties ; mosses and liverworts ; multivariate analysis ; Phellodon ; phylogeny ; phytosociology ; Picea ; Sarcodon ; shrubs ; soil ; trees ; vegetation ; Central European region ; Czech Republic
Language	English
Dates of publication	2018-04
Size	p. 40-48.
Publishing place	Elsevier Ltd
Document type	Article
ISSN	1754-5048
DOI	10.1016/j.funeco.2017.11.007
Database	NAL-Catalogue (AGRICOLA)

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Article: Hygrophorus roseodiscoideus Bon & Chevassut: Epitypification and Updated Biogeography of a Poorly Known But Widespread Thermophilous Species

Bellanger, Jean-Michel / Moreau, Pierre-Arthur / Dima, Bálint / Albert, László / Krisai-Greilhuber, Irmgard / Campo, Emanuele / Sleiman, Sandra / Dvořák, Daniel / Zehnálek, Petr / Holec, Jan

Cryptogamie. 2022 Aug. 30, v. 43, no. 4

2022

Abstract: Hygrophorus roseodiscoideus Bon & Chevassut is a poorly known species so far reported from Mediterranean Quercus ecosystems of western Europe. The lack of reference sequences for this species hampers its reliable identification by mycologists and fungal ... ...

Abstract	Hygrophorus roseodiscoideus Bon & Chevassut is a poorly known species so far reported from Mediterranean Quercus ecosystems of western Europe. The lack of reference sequences for this species hampers its reliable identification by mycologists and fungal ecologists in the DNA era. We here fix this issue by epitypifying H. roseodiscoideus with a sequenced collection from the Aix-en-Provence area, where the species has been described from. We also report several sequenced collections from central European countries and Lebanon, that considerably extend the species' biogeographical distribution. Based on our findings, H. roseodiscoideus can be characterized as a morphologically distinct thermophilous species, associated with oaks on calcareous soils, distributed along the northern coasts of the Mediterranean, from Spain to the Levant, but also colonizing the warmest Quercus woodlands of central Europe.
Keywords	DNA ; Hygrophorus ; Quercus ; biogeography ; fungi ; geographical distribution ; type collections ; Central European region ; Lebanon ; Spain ; Western European region
Language	English
Dates of publication	2022-0830
Size	p. 81-90.
Publishing place	Association des Amis des Cryptogames
Document type	Article
ISSN	1776-100X
DOI	10.5252/cryptogamie-mycologie2022v43a4
Database	NAL-Catalogue (AGRICOLA)

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Article: Taxonomic update of Clitocybula sensu lato with a new generic classification.

Antonín, Vladimír / Borovička, Jan / Holec, Jan / Piltaver, Andrej / Kolařík, Miroslav

Fungal biology

2019 Volume 123, Issue 6, Page(s) 431–447

Abstract: The taxonomy and phylogeny of the hydropoid clade (genera Clitocybula s.l., Megacollybia, Leucoinocybe gen. nov., Hydropus, Trogia, Gerronema, Porotheleum and Lignomphalia gen. nov.) in Europe is studied using morphological and molecular approaches; the ... ...

Abstract	The taxonomy and phylogeny of the hydropoid clade (genera Clitocybula s.l., Megacollybia, Leucoinocybe gen. nov., Hydropus, Trogia, Gerronema, Porotheleum and Lignomphalia gen. nov.) in Europe is studied using morphological and molecular approaches; the first three genera in detail including all known European species. Only two European species remain in Clitocybula s.str., Clitocybula lacerata and Clitocybula familia. The European C. lacerata is a species complex which should be treated as C. lacerata agg. at the current state of knowledge. A neotype originating from type area was designated to fix the application of the name. The presence of American species Clitocybula abundans in Europe is insufficiently proved. "Clitocybula dryadicola ˮ belongs to the genus Hydropus, and Clitocybula tilieti has an unclear systematic position. The results showed that Megacollybia and Leucoinocybe represent independent genera separated from Clitocybula. The genus Leucoinocybe is validly published with two European species, Leucoinocybe lenta and Leucoinocybe taniae. "Clitocybula flavoaurantia" proved to be conspecific with the latter species. The genus Lignomphalia is published for "Pseudoomphalina lignicola", a lignicolous omphalinoid species. The Indian "Clitocybula sulcata" is transferred to Leucoinocybe and "Clitocybula atrialba" to Gerronema. The first European records of Megacollybia marginata are published.
MeSH term(s)	Agaricales/classification ; Agaricales/ultrastructure ; Europe ; Molecular Typing ; Phylogeny ; Species Specificity
Language	English
Publishing date	2019-03-24
Publishing country	Netherlands
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2532164-X
ISSN	1878-6162 ; 1878-6146
ISSN (online)	1878-6162
ISSN	1878-6146
DOI	10.1016/j.funbio.2019.03.004
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Article ; Online: Tuning the Diradical Character of Pentacene Derivatives via Non-Benzenoid Coupling Motifs.

Wang, Tao / Angulo-Portugal, Paula / Berdonces-Layunta, Alejandro / Jancarik, Andrej / Gourdon, André / Holec, Jan / Kumar, Manish / Soler, Diego / Jelinek, Pavel / Casanova, David / Corso, Martina / de Oteyza, Dimas G / Calupitan, Jan Patrick

Journal of the American Chemical Society

2023 Volume 145, Issue 18, Page(s) 10333–10341

Abstract: The development of functional organic molecules requires structures of increasing size and complexity, which are typically obtained by the covalent coupling of smaller building blocks. Herein, with the aid of high-resolution scanning tunneling microscopy/ ...

Abstract	The development of functional organic molecules requires structures of increasing size and complexity, which are typically obtained by the covalent coupling of smaller building blocks. Herein, with the aid of high-resolution scanning tunneling microscopy/spectroscopy and density functional theory, the coupling of a sterically demanded pentacene derivative on Au(111) into fused dimers connected by non-benzenoid rings was studied. The diradical character of the products was tuned according to the coupling section. In particular, the antiaromaticity of cyclobutadiene as the coupling motif and its position within the structure play a decisive role in shifting the natural orbital occupancies toward a stronger diradical electronic character. Understanding these structure-property relations is desirable not only for fundamental reasons but also for designing new complex and functional molecular structures.
Language	English
Publishing date	2023-04-26
Publishing country	United States
Document type	Journal Article
ZDB-ID	3155-0
ISSN	1520-5126 ; 0002-7863
ISSN (online)	1520-5126
ISSN	0002-7863
DOI	10.1021/jacs.3c02027
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