Miroslav Kolarik

Miroslav Kolarik
The Czech Academy of Sciences | AVCR · Department of Microbiology

PhD.

About

350
Publications
133,239
Reads
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5,397
Citations
Introduction
His scientific interests include ecology, diversity, taxonomy (classical and molecular approaches) and secondary metabolites of insect associated fungi (genus Geosmithia, Quambalaria, ophiostomatoid fungi, Daldinia), the genus Aspergillus, clinical fungi, wood endophytes and soil fungi.
Additional affiliations
August 2013 - present
The Czech Academy of Sciences
Position
  • Head of the Lab
January 2005 - present
Charles University in Prague
Position
  • Research Assistant
January 2002 - October 2013
The Czech Academy of Sciences
Position
  • Research Assistant

Publications

Publications (350)
Article
Ergot fungi produce toxic sclerotia that have significant impacts on the agricultural, food and pharmaceutical industries. These fungi were classified in various genera (such as Sclerotium clavus, or Spermoedia clavus) before Tulasne (1853) erected Claviceps and described three species based on variations in morphology and host ranges, viz. C. purp...
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Symbioses between Geosmithia fungi and wood‐boring and bark beetles seldom result in disease induction within the plant host. Yet, exceptions exist such as Geosmithia morbida, the causal agent of Thousand Cankers Disease (TCD) of walnuts and wingnuts, and Geosmithia sp. 41, the causal agent of Foamy Bark Canker disease of oaks. Isolates of G. obscu...
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Trichophyton erinacei is a main cause of dermatophytosis in hedgehogs and is increasingly reported from human infections worldwide. This pathogen was originally described in the European hedgehog ( Erinaceus europaeus ) but is also frequently found in the African four-toed hedgehog ( Atelerix albiventris ), a popular pet animal worldwide. Little is...
Article
Claviceps humidiphila [≡ C. purpurea var. phalaridis] was previously typified with the holotype collected by Tanda in Japan and an epitype from Bavaria, Germany. Phylogenetic analyses based on translation elongation factor 1-α (TEF1-α) and RNA polymerase II second largest subunit (RPB2) indicated that the previously designated epitype from Germany...
Article
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 s...
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Fungi of the genus Geosmithia are frequently associated with bark beetles that feed on phloem on various woody hosts. Most studies on Geosmithia were carried out in North and South America and Europe, with only two species being reported from Taiwan, China. This study aimed to investigate the diversity of Geosmithia species in China. Field surveys...
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Fungal endophytes occurring in grapevine (Vitis vinifera L.) are usually important sources of various compounds with biological activities with great potential for use in agriculture. Nevertheless, many species isolated from this plant belong to the genera Fusarium, Alternaria, or Aspergillus, all of which are well-known to produce mycotoxins. Our...
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The genus Codinaea is a phialidic, dematiaceous hyphomycete known for its intriguing morphology and turbulent taxonomic history. This polyphasic study represents a new, comprehensive view on the taxonomy, systematics, and biogeography of Codinaea and its relatives. Phylogenetic analyses of three nuclear loci confirmed that Codinaea is polyphyletic....
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Since the last revision in 2015, the taxonomy of section Flavipedes evolved rapidly along with the availability of new species delimitation techniques. This study aims to re-evaluate the species boundaries of section Flavipedes members using modern delimitation methods applied to an extended set of strains (n = 90) collected from various environmen...
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Endophytes are microorganisms that live asymptomatically inside plant tissues. They are beneficial to their host in many aspects, especially as a defense against foreign phytopathogens through the production of a variety of metabolites. These substances can serve as sources of new natural products for medicinal, agricultural, and industrial purpose...
Article
A Ramularia-like hyphomycete was discovered on uredinia of Phakopsora ampelopsidis on leaves of wild Ampelopsis brevipedunculata and cultivated Parthenocissus tricuspidata in several cities in Taiwan. The micromorphology of this fungicolous fungus is similar to that of species of the genus Ramularia which are mostly plant parasites but some species...
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Ergot fungi (Claviceps spp.) are infamous for producing sclerotia containing a wide spectrum of ergot alkaloids (EA) toxic to humans and animals, making them nefarious villains in the agricultural and food industries, but also treasures for pharmaceuticals. In addition to three classes of EAs, several species also produce paspaline-derived indole d...
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Pathogens from the Trichophyton benhamiae complex are one of the most important causes of animal mycoses with significant zoonotic potential. In light of the recently revised taxonomy of this complex, we retrospectively identified 38 Trichophyton isolates that could not be resolved into any of the existing species. These strains were isolated from...
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Trichophyton quinckeanum, a zoophilic dermatophyte mostly known as the causative agent of rodent favus, is relatively rarely reported to cause human infections. Indeed, no infections were detected in Czechia between 2012 and 2015 despite routine verification of species identification by ITS rDNA sequencing. By contrast, 25 human and 11 animal cases...
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Bacteria-host interactions play essential roles in the biology of animals. One of such interactions implies bacteria and bark beetles. Bark beetles are considered to be serious pests that devastate entire forests worldwide. Different studies have investigated the microbiome of bark beetles. Some of them have even demonstrated the role of microbes i...
Article
Exotic diseases and pests of trees have caused continental-scale disturbances in forest ecosystems and industries, and their invasions are considered largely unpredictable. We tested the concept of pre-invasion assessment of not-yet invasive organisms, which enables empirical risk assessment of potential invasion and impact. Our example assesses fu...
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Acidophilic fungi are characterized by their ability to tolerate very low pH conditions and to grow optimally below pH 5. The genus Acidiella (Dothideomycetes, Capnodiales, Teratosphaeriaceae) comprises acidophilic and acidotolerant fungi that are commonly distributed in highly acidic soils, drainages and waters worldwide. This study revises Acidie...
Preprint
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Fungi of the genus Geosmithia are frequently associated with bark beetles that feed on phloem on various woody hosts. Most studies on Geosmithia were carried out in North and South America and Europe, with only two species were reported from Taiwan, China. The aim of this study was to investigate the diversity of Geosmithia species in southern Chin...
Article
The genus Aciculosporium (Clavicipitaceae, Hypocreales, Ascomycota) was established in 1908 for A. take, which is the causal fungus of witches’ broom of bamboo. Although the original description was valid at that time, a type specimen for A. take has not been designated. To standardize the use of this genus and species name, a neotypification and r...
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Zanclospora (Chaetosphaeriaceae) is a neglected, phialidic dematiaceous hyphomycete with striking phenotypic heterogeneity among its species. Little is known about its global biogeography due to its extreme scarcity and lack of records verified by molecular data. Phylogenetic analyses of six nuclear loci, supported by phenotypic data, revealed Zanc...
Article
Direct link to Sydowia web page (published as open access): http://www.sydowia.at/syd73/T20-Holec-2918.pdf --- Records of Polyporus tubaeformis are newly reported from the Czech Republic, Austria, Slovakia, and Ukraine. They originate from mountains at the elevation 750-1250 m a.s.l., namely Bohemian Forest, Northern Limestone Alps, Western and Eas...
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Symbiosis between microbes and insects has been raised as a promising area for understanding biological implications of microbe–host interactions. Among them, the association between fungi and bark beetles has been generally recognized as essential for the bark beetle ecology. However, many works investigating bark beetle bacterial communities and...
Article
Dictyochaeta (Chaetosphaeriaceae) is a phialidic dematiaceous hyphomycete with teleomorphs classified in Chaetosphaeria. It is associated with significant variability of asexual morphological traits, which led to its broad delimitation. In the present study, six loci: nuc rDNA internal transcribed spacer region ITS1-5.8S-ITS2 (ITS barcode), nuc 18S...
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Geosmithia species (Hypocreales, Ascomycota) are associates of bark beetles and other arthropods. One species, Geosmithia morbida, is a virulent tree pathogen of Juglans nigra. To date, 10 Geosmithia spp. from conifer-infesting, and at least 23 species from hardwood associated bark beetles have been reported from Europe. The aim of this study was t...
Article
Naphthoquinones isolated from Quambalaria cyanescens (quambalarines) are natural pigments possessing significant cytotoxic and antimicrobial properties. Determining the structure of naphthoquinone compounds is important for the understanding of their biological activities and the informed synthesis of related analogues. Identifying quambalarines is...
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Bradymyces oncorhynchi is a poorly known melanised fungal species that has been isolated only from a hyperaemic focus near the enlarged spleen of a rainbow trout. Although the pathogenicity of this species to fish is suspected, it has not been fully confirmed. Four laboratory experiments were conducted to test the effect of the fungus on the health...
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Species of the Trichophyton benhamiae complex are predominantly zoophilic pathogens with a worldwide distribution. These pathogens have recently become important due to their epidemic spread in pets and pet owners. Considerable genetic and phenotypic variability has been revealed in these emerging pathogens, but the species limits and host spectra...
Article
All termites have established a wide range of associations with symbiotic microbes in their guts. Some termite species are also associated with microbes that grow in their nests, but the prevalence of these associations remains largely unknown. Here, we studied the bacterial communities associated with the termites and galleries of three wood-feedi...
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The genus Pseudogymnoascus encompasses soil psychrophilic fungi living also in caves. Some are opportunistic pathogens; nevertheless, they do not cause outbreaks. Pseudogymnoascus destructans is the causative agent of the white-nose syndrome, which is decimating cave-hibernating bats. We used comparative eco-physiology to contrast the enzymatic pot...
Article
Termites are important plant biomass decomposers. Their digestive activity typically relies on pro-karyotes and protozoa present in their guts. In some cases, such as in fungus-growing termites, digestion also relies on ectosymbiosis with specific fungal taxa. To date, the mycobiome of termites has yet to be investigated in detail. We evaluated the...
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Pythium oligandrum is a unique biological control agent. This soil oomycete not only acts as a mycoparasite, but also interacts with plant roots and stimulates plant defense response via specific elicitors. In addition, P. oligandrum can synthetize auxin precursors and stimulate plant growth. We analyzed the secretomes and biochemical properties of...
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An amendment to this paper has been published and can be accessed via a link at the top of the paper.
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European Bark Beetle Ips typographus is a secondary pest that affects dead and weakened spruce trees (Picea genus). Under certain environmental conditions, it has massive outbreaks, resulting in the attacks of healthy trees, becoming a forest pest. It has been proposed that the bark beetle's microbiome plays a key role in the insect's ecology, prov...
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Fungi are key players in vital ecosystem services, spanning carbon cycling, decomposition, symbiotic associations with cultivated and wild plants and pathogenicity. the high importance of fungi in ecosystem processes contrasts with the incompleteness of our understanding of the patterns of fungal biogeography and the environmental factors that driv...
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Novel species of fungi described in this study include those from various countries as follows: Antarctica, Cladosporium arenosum from marine sediment sand. Argentina, Kosmimatamyces alatophylus (incl. Kosmimatamyces gen. nov.) from soil. Australia, Aspergillus banksianus, Aspergillus kumbius, Aspergillus luteorubrus, Aspergillus malvicolor and Asp...
Preprint
Full-text available
Fungi are key players in vital ecosystem services, spanning carbon cycling, decomposition, symbiotic associations with cultural and wild plants and pathogenicity. The high importance of fungi in the ecosystem processes contrasts with the incompleteness of understanding of the patterns of fungal biogeography and the environmental factors that drive...
Article
Full-text available
Aspergillus section Nidulantes encompasses almost 80 homothallic and anamorphic species, mostly isolated from soil, plant material, or the indoor environment. Some species are clinically relevant or produce mycotoxins. This study reevaluated the species boundaries within several clades of section Nidulantes. Five data sets were assembled, each cont...
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The internal transcribed spacer (ITS) region of the ribosomal DNA (rDNA) has been established (and is generally accepted) as a primary "universal" genetic barcode for fungi for many years, but the actual value for taxonomy has been heavily disputed among mycologists. Recently, twelve draft genome sequences, mainly derived from type species of the f...
Preprint
Full-text available
The internal transcribed spacer (ITS) region of the ribosomal DNA (rDNA) has been established (and is generally accepted) as a primary "universal" genetic barcode for fungi for many years, but the actual value for taxonomy has been heavily disputed among mycologists. Recently, twelve draft genome sequences, mainly derived from type species of the f...
Article
Full-text available
Novel species of fungi described in this study include those from various countries as follows: Antarctica , Apenidiella antarctica from permafrost, Cladosporium fildesense from an unidentified marine sponge. Argentina , Geastrum wrightii on humus in mixed forest. Australia , Golovinomyces glandulariae on Glandularia aristigera , Neoanungitea eucal...
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The paper reports on the occurrence of Phaeoclavulina clavarioides and P. roellinii in dry grasslands of rock steppes in the Czech Republic. Occurrence in this habitat is characteristic of both species, formerly considered members of the genus Ramaria, and they are apparently the only known representatives within the Gomphales with this ecology in...
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Comparative ecophysiology is highly valuable approach to reveal adaptive traits linked with specific ecological niches. Although long-term in vitro preserved fungal isolates are often used for analyses, only sparse data is available about the effect of such handling on fungal physiology. The purpose of our data is to show the effect of long-term in...
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Ergot, fungal genus Claviceps, are worldwide distributed grass pathogens known for their production of toxic ergot alkaloids (EAs) and the great agricultural impact they have on both cereal crop and farm animal production. EAs are traditionally considered as the only factor responsible for ergot toxicity. Using broad sampling covering 13 ergot spec...
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A phenotype is the expression of interactions between species genotype and environment. We quantified the contributions of ecological and phylogenetic associations to phenotypic variation in Geosmithia fungi. Geosmithia are symbiotic beetle-associated saprotrophs with a range of life histories and host specific-ities, including obligate nutritional...
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Earthworms are not endowed with adaptive immunity and they are rely on the tools of innate immunity. Cells of the innate immune system utilize pattern recognition receptors, such as Toll-like receptors, to detect the pathogen-associated molecular patterns (PAMPs). The first earthworm TLR was isolated from Eisenia andrei earthworms (EaTLR), which be...
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The Russula globispora lineage is a morphologically and phylogenetically well-defined group of ectomycorrhizal fungi occurring in various climatic areas. In this study we performed a multi-locus phylogenetic study based on collections from boreal, alpine and arctic habitats of Europe and Western North America, subalpine collections from the southea...
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Tree-killing bark beetles are the most economically important insects in conifer forests worldwide. However, despite >200 years of research, the drivers of population eruptions and crashes are still not fully understood and the existing knowledge is thus insufficient to face the challenges posed by the Anthropocene. We critically analyze potential...
Article
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 rema...
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Interesting Tricholomopsis collections from old-growth forests in Slovakia and Poland were studied morphologically and molecularly using the ITS-LSU rDNA regions. Phylogenetic analysis of sequence data for all hitherto sequenced Tricholomopsis species revealed a geographic pattern. Species distributed primarily in the Holarctic are separated from t...
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Janda V., Kříž M., Kolařík M. (2019): Butyriboletus regius and Butyriboletus fechtneri: typification of two well-known species.-Czech Mycol. 71(1): 1-32. The paper deals with type material of two species of the genus Butyriboletus, which were described from the Czech Republic, originally as Boletus regius (Krombholz 1983) and Boletus fechtneri (Vel...
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Zoophilic dermatophytes are the most important agents of the superficial mycoses in domestic and farm animals, and are often transmitted to humans. This group includes approximately ten specialized parasitic fungi belonging to the genera Trichophyton and Microsporum. While infections in animals have often mild symptoms or are asymptomatic, human in...
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We report five cases of tinea faciei and tinea corporis in four young women and a boy, caused by zoophilic species Tri- chophyton erinacei. All patients kept hedgehogs (Atelerix albiventris) at home and they consistently stated that animals did not show any visible signs of the infection. These are the first cases in the Czech Republic described in...
Article
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Although Aspergillus fumigatus is the major agent of invasive aspergillosis, an increasing number of infections are caused by its cryptic species, especially A. lentulus and the A. viridinutans species complex (AVSC). Their identification is clinically relevant because of antifungal drug resistance and refractory infections. Species boundaries in t...
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This genome announcement includes draft genomes from Claviceps purpurea s.lat., including C. arundinis, C. humidiphila and C. cf. spartinae. The draft genomes of Davidsoniella eucalypti, Quambalaria eucalypti and Teratosphaeria destructans, all three important eucalyptus pathogens, are presented. The insect associate Grosmannia galeiformis is also...
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Pythium oligandrum (Oomycota) is known for its strong mycoparasitism against more than 50 fungal and oomycete species. However, the ability of this oomycete to suppress and kill the causal agents of dermatophytoses is yet to be studied. We provide a complex study of the interactions between P. oligandrum and dermatophytes representing all species d...
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Novel species of fungi described in this study include those from various countries as follows: Australia, Chaetopsina eucalypti on Eucalyptus leaf litter, Colletotrichum cobbittiense from Cordyline stricta × C. australis hybrid, Cyanodermella banksiae on Banksia ericifolia subsp. macrantha, Discosia macrozamiae on Macrozamia miquelii, Elsinoë bank...
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Penicillium oxalicum is a frequently isolated fungus exhibiting a wide range of physiological activities that are of relevance in agriculture, biotechnology, food quality assessments, and medicine. Although widely studied, this fungus is usually identified on the basis of morphological characters but its taxonomy has never been systematically revis...