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Publications
Publications (144)
Diplosphaera chodatii, a unicellular terrestrial microalga found either free-living or in association with lichenized fungi, protects itself from desiccation by synthesizing and accumulating low-molecular-weight carbohydrates such as sorbitol. The metabolism of this algal species and the interplay of sorbitol biosynthesis with its growth, light abs...
With the simultaneous growth in interest from the mycological community to discover fungal species and classify them, there is also an important need to assemble all taxonomic information onto common platforms. Fungal classification is facing a rapidly evolving landscape and organizing genera into an appropriate taxonomic hierarchy is central to be...
Résumé : Mise à jour de la troisième édition du Catalogue des lichens de France dans l’attente de sa quatrième édition. Changements nomenclaturaux importants, plus particulièrement chez les Aspicilia s. l. et les Xanthoria. Liste commentée de 87 espèces et taxons infraspécifiques nouvellement trouvés en France. Appendice taxonomique : classificatio...
Description d’une nouvelle espèce de champignon lichénicole non lichénisé, Zwackhiomyces bagliettoanus Brien, Cl. Roux et
P. Diederich, parasite du thalle de Toniniopsis bagliettoana. Comparaison de cette nouvelle espèce avec les autres Zwackhiomyces connus, en particulier avec Z. socialis dans lequel elle était jusqu’ici incluse.
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The lichen-forming fungal fungi family Verrucariaceae (Eurotiomycetes, Ascomycota) contains about 950 species in 43 genera, several of which are found in aquatic environments. Many of these species are known to have an exclusively marine distribution, in the intertidal and supralittoral zones of rocky coasts in temperate and cold regions, or even i...
The Global Consortium for the Classification of Fungi and fungus-like taxa is an international initiative of more than 550 mycologists to develop an electronic structure for the classification of these organisms. The members of the Consortium originate from 55 countries/regions worldwide, from a wide range of disciplines, and include senior, mid-ca...
Exotic dung beetles have been introduced to Australia for over 50 years to mitigate issues caused by dung produced by livestock. This study aims at identifying fungi affecting a beetle colony and investigating their source. Fungal hyphae emerging from the cuticle of dead beetles were cultured and a multigene phylogeny showed that Beauveria bassiana...
Although genome sequences of lichenized fungi are increasingly becoming available, genome sequences of microalgae involved in the lichen symbiosis are still scarce. For lichenized eukaryotic algae, genome sequencing has focused mostly on Trebouxia and Asterochloris, with little genomic data available for Stichococcus-like algae, such as Diplosphaer...
Résumé : Révision de l’écologie et de la chorologie de Scytinium imbricatum en France sur la base de nouvelles stations découvertes. De nouvelles séquences ITS du taxon sont publiées, et une étude phylogénétique présentée.).
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Resumo : Revizio de la ekologio kaj disvastiĝo de Scytinium imbricatum en Francio surbaze de nove malkovritaj...
Résumé : Description du nouveau genre de lichen Verrucariopsis Gueidan, Monnat et Cl. Roux gen. nov. dont l’espèce–type, V. suaedae Gueidan, Monnat et Cl. Roux sp. nov., a été découverte sur le littoral de Bretagne et de Loire – Atlantique, sur le haut schorre de rias où il croît sur des tiges de Suaeda vera, à l’étage supralittoral. L’étude morpho...
Résumé : Mise à jour de la 3e édition du Catalogue des lichens de France dans l’attente de sa 4e édition. Changements nomen claturaux importants : Acarospora glaucocarpa et A. cervina ; Acarospora impressula s. l. (A. atrata, A. impressula, A. opaca, A. pseudosuzae); liste des noms de Caloplaca s.l. attribués à d’autres genres que Caloplaca; liste...
Revision of the ecology and chorology of Scytinium imbricatum in France on the basis of newly discovered stations. New its sequences of the taxon are published, and a phylogenetic study presented.
Reference sequence databases are critical to the accurate detection and identification of fungi in the environment. As repositories of large numbers of well-curated specimens, herbaria and fungal culture collections have the material resources to generate sequence data for large number of taxa, and could therefore allow filling taxonomic gaps often...
Lichen thalli provide a long-lived and stable habitat for colonization by a wide range of microorganisms. Increased interest in these lichen-associated microbial communities has revealed an impressive diversity of fungi, including several novel lineages which still await formal taxonomic recognition. Among these, members of the Eurotiomycetes and D...
To improve the efficiency of isolating and culturing lichen mycobionts, we performed a growth assay on an Australian strain of the soil-crust lichenized fungus Endocarpon pusillum Hedw. This assay determined the preferred nitrogen and carbon sources of the fungus by limiting the available nitrogen or carbon sources to single compounds found in soil...
Lichen associations, a classic model for successful and sustainable interactions between micro-organisms, have been studied for many years. However, there are significant gaps in our understanding about how the lichen symbiosis operates at the molecular level. This review addresses opportunities for expanding current knowledge on signalling and met...
Australia’s 2019–2020 ‘Black Summer’ bushfires burnt more than 8 million hectares of vegetation across the south-east of the continent, an event unprecedented in the last 200 years. Here we report the impacts of these fires on vascular plant species and communities. Using a map of the fires generated from remotely sensed hotspot data we show that,...
Numerous new taxa and classifications of Dothideomycetes have been published following the last monograph of families of
Dothideomycetes in 2013. A recent publication by Honsanan et al. in 2020 expanded information of families in Dothideomycetidae
and Pleosporomycetidae with modern classifications. In this paper, we provide a refined updated docume...
The cosmopolitan lichen-forming fungus Endocarpon pusillum (Hedwig) has previously been used as a model for the study of symbiosis and drought resistance. Here, we present the annotated genome of the Australian strain Endocarpon pusillum EPUS1.4. This genome sequence provides additional information on the ability of this species to produce secondar...
The cosmopolitan lichen-forming fungus Endocarpon pusillum (Hedwig) has previously been used as a model for the study of symbiosis and drought resistance. Here, we present the annotated genome of the Australian strain Endocarpon pusillum EPUS1.4. This genome sequence provides additional information on the ability of this species to produce secondar...
Roux C. et coll., 2020.– Catalogue des lichens et champignons lichénicoles de France métropolitaine. 3e édition revue et augmentée (2020). Édit. Association française de lichénologie (AFL), Fontainebleau, 1769 p.).
Date de parution : 31/07/2020
Tome 1 http://www.lichenologue.org/fr/docs/doc_details.php?&docid=275
Tome 2 http://www.lichenologue.org...
The new combination Ocellomma rediuntum (Stizenb. ex Hasse) Kantvilas, Gueidan & Tehler is proposed, supported by morphological, anatomical and molecular data. Hitherto known only from the Californian coast, this species is here recorded for Kangaroo Island (South Australia), Victoria and Tasmania. It is described and illustrated from Australian co...
FRANÇAIS – Généralités et clé de détermination illustrées des espèces d’Acarosporaceae d’Europe occidentale. Traitement de 134 espèces appartenant à 9 genres. Description de 5 espèces nouvelles : Acarospora adscendens C. Roux et Poumarat, Acarospora epiaspicilia C. Roux et M. Bertrand, Acarospora episulphurata C. Roux et Poumarat, Acarospora pseudo...
The detection and identification of species of fungi in the environment using molecular methods heavily depends on reliable reference sequence databases. However, these databases are largely incomplete in terms of taxon coverage, and a significant effort is required from herbaria and living fungal collections for the mass-barcoding of well-identifi...
The detection and identification of species of fungi in the environment using molecular methods heavily depends on reliable reference sequence databases. However, these databases are largely incomplete in terms of taxon coverage, and a significant effort is required from herbaria and living fungal collections for the mass-barcoding of well-identifi...
Acremonium is known to be regularly isolated from food and also to be a cause of human disease. Herein, we resolve some sources of confusion that have strongly hampered the accurate interpretation of these and other isolations. The recently designated type species of the genus Acremonium, A. alternatum, is known only from a single isolate, but it i...
Nomenclatural type definitions are one of the most important concepts in biological nomenclature. Being physical objects that can be re-studied by other researchers, types permanently link taxonomy (an artificial agreement to classify biological diversity) with nomenclature (an artificial agreement to name biological diversity).
Two proposals to am...
Pannaria hookeri (Borrer ex Sm.) Nyl., a bipolar lichen, is recorded for the first time for Australia (south-west Tasmania) where it grew on alpine limestone outcrops. Its identity was confirmed by morphological, anatomical and DNA-sequence data.
In order to contribute to the taxonomic revision of several species of Termitomyces, sequences of 74 strains representing 28 taxa were used to generate a combined nLSU-mtSSU phylogenetic tree. The phylogenetic analysis showed that re-classification was required for 12 taxa originally misidentified under various names. The changes led to the use of...
Within the lichen family Verrucariaceae, the genera Endocarpon, Willeya and Staurothele are characterised by muriform ascospores and the presence of algal cells in the hymenium. Endocarpon thalli are squamulose to subfruticose, whereas Willeya and Staurothele include only crustose species. Endocarpon pulvinatum, an arctic-alpine species newly repor...
Full text in: http://lichenologue.org/fr/index.php
The frequency and the geographical extent of symbiotic associations between ants and fungi of the order Chaetothyriales have been highlighted only recently. Using a phylogenetic approach based on seven molecular markers, we showed that ant-associated Chaetothyriales are scattered through the phylogeny of this order. There was no clustering accordin...
RÉSUMÉ : Après avoir résumé l’état des connaissances sur le genre Trimmatothelopsis jusqu’en 2015, les auteurs montrent que la conception élargie de ce genre proposée par Knudsen et Lendemer (2016) est contestable, car basée sur une étude phylogénétique insuffisante de la famille des Acarosporaceae, et rectifient quelques affirmations erronées de c...
Several Australian Riccia taxa have been sequenced for the first time, with the majority from the monsoon tropics of the Northern Territory, north of 18° latitude. This allowed testing of several infrageneric groupings within the genus as well as morphological species concepts. Molecular data from one nuclear and four plastid markers support the ge...
The following 46 new species of Trypetheliaceae are described: Astrothelium aenascens Aptroot from Papua New Guinea, which is similar to A. aenoides but differs by the hamathecium which is not inspersed; A. alboverrucoides Aptroot from Indonesia with globose ascomata with constricted base, internally similar to A. megaspermum ; A. clypeatum Aptroot...
Based on separately obtained and analyzed molecular data and within the framework of a global revision of the family Trypetheliaceae , 21 new species are described, from the Neotropics and tropical Asia, in the genera Architrypethelium (1), Astrothelium (15), Bathelium (1), Nigrovothelium (1), Trypethelium (1), and Viridothelium (2), namely: Archit...
We provide an expanded and updated, 2-locus phylogeny (mtSSU, nuLSU) of the lichenized fungal family Trypetheliaceae , with a total of 196 ingroup OTUs, in order to further refine generic delimitations and species concepts in this family. As a result, the following 15 clades are recognized as separate genera, including five newly established genera...
The Pyrenulaceae is one of the most common lichen families in tropical rainforests. These mostly lichenised ascomycete fungi are relatively well known, as identification tools are available for many members of the family, including the most species-rich genus Pyrenula. However, despite the past boom in DNA sequence generation for most living organi...
We provide an expanded and updated, 2-locus phylogeny (mtSSU, nuLSU) of the lichenized fungal family Trypetheliaceae, with a total of 196 ingroup OTUs, in order to further refine generic delimitations and species concepts in this family. As a result, the following 15 clades are recognized as separate genera, including five newly established genera:...
We studied the evolutionary history of the Parmeliaceae (Lecanoromycetes, Ascomycota), one of the largest families of lichen-forming fungi with complex and variable morphologies, also including several lichenicolous fungi. We assembled a six-locus data set including nuclear, mitochondrial and low-copy protein-coding genes from 293 operational taxon...
Adaptive radiations play key roles in the generation of biodiversity and biological novelty, and therefore understanding the factors that drive them remains one of the most important challenges of evolutionary biology. Although both intrinsic innovations and extrinsic ecological opportunities contribute to diversification bursts, few studies have l...
Abstract— Willeya is a recently resurrected genus comprising crustose pyrenolichens common on rock in terrestrial habitats in southeastern Asia, Australasia, and eastern North America. The generic type W. diffractella is endemic to eastern North America, and is currently delimited to include considerable morphological and ecological variation. Prev...
The freshwater lichens Verrucaria elaeomelaena, V. alpicola, and V. funckii (Verrucariaceae/Ascomycota) have long been
confused with V. margacea and V. placida and conclusions on the substratum preference and distribution have been obscured
due to misidentifications. Independent phylogenetic analyses of a multigene dataset (RPB1, mtSSU, nuLSU) and...
Lecanoromycetes is the class of Ascomycota with the largest number of lichen-forming fungi. Members of this class are important components of most terrestrial ecosystems and occur in various habitats and on different substrates, from tropical to polar regions. Morphological, anatomical, and chemical characters have traditionally been used to classi...
The class Eurotiomycetes is a morphologically and ecologically diverse clade of filamentous ascomycetes (Ascomycota; Pezizomycotina). Based on a series of molecular phylogenetic discoveries, the taxonomic concept has expanded significantly in the past decade. While our phylogenetic knowledge has advanced greatly, we still lack a satisfactorily comp...
Despite their importance in bio-deterioration, the taxonomy of the calcicolous endolithic lichen genus Bagliettoa is still problematic, mostly because of difficult identifications and unsettled species concepts. In this study, the traditional morphology-based species and genus
delimitations were tested using the phylogenetic markers ITS, mcm7 and m...
Trimmatothelopsis versipellis : discovery of several localities in the department of Finistère (France), phylogenetic placement and taxonomic consequences.— The discovery of several new localities of Trimmatothelopsis versipellis in the department of Finistère in 2013 allowed us to better describe this species, to understand its ecology and to anal...
Article 59.1, of the International Code of Nomenclature for Algae, Fungi, and Plants (ICN; Melbourne Code), which addresses the nomenclature of pleomorphic fungi, became effective from 30 July 2011. Since that date, each fungal species can have one nomenclaturally correct name in a particular classification. All other previously used names for this...
The subclass Chaetothyriomycetidae (Eurotiomycetes, Ascomycota) is an assemblage of ecologically diverse species, ranging from mutualistic lichenised fungi to human opportunistic pathogens. Recent contributions from molecular studies have changed our understanding of the composition of this subclass. Among others, ant-associated fungi, deep-sea fun...
While the phylogenetic position of Trypetheliaceae has been the subject of recent molecular studies, the relationships within this family have been little studied. Here we construct a detailed genus-level phylogeny of the family. We confirm previous morphology-based findings suggesting
that a substantial proportion of genera are not monophyletic, a...
DNA phylogenetic comparisons have shown that morphology-based species recognition often underestimates fungal diversity. Therefore, the need for accurate DNA sequence data, tied to both correct taxonomic names and clearly annotated specimen data, has never been greater. Furthermore, the growing number of molecular ecology and microbiome projects us...
The Lecanoromycetes is the largest class of lichenized Fungi, and one of the most species-rich classes in the kingdom. Here we provide a multigene phylogenetic synthesis (using three ribosomal RNA-coding and two protein-coding genes) of the Lecanoromycetes based on 635 newly generated and 3307 publicly available sequences representing 1139 taxa, 31...
The crustose genus Staurothele (Verrucariaceae, Ascomycota) is a common component of the lichen flora from acidic or alkaline rock surfaces in temperate to cold temperate climates. Our field study in the karst system of Northern Vietnam showed that it is also very common on dry to humid limestone in the wet Tropics. Molecular data revealed that spe...
Dothideomycetes comprise a highly diverse range of fungi characterized mainly by asci with two wall layers (bitunicate asci) and often with fissitunicate dehiscence. Many species are saprobes, with many asexual states comprising important plant pathogens. They are also endophytes, epiphytes, fungicolous, lichenized, or lichenicolous fungi. They occ...
The genus Ochroconis (Sympoventuriaceae, Venturiales) is revised and currently contains 13 species for which the phylogenetic position has been determined using multilocus sequencing. The older generic name Scoleco-basidium is considered to be of doubtful identity because the type specimen is ambiguous. Within the Ochroconis lineage, phylogenetic d...
As part of a worldwide sampling nine black
fungi were isolated from rocks collected in four distinct
sites of the Alps at high altitudes. Based on a nucSSU,
nucLSU and mtSSU multi-locus phylogeny, seven of
them were found to cluster into a distinct and wellsupported
clade in a basal position within the Class
Dothideomycetes. As in other rock fungi...
Ochroconis is a genus of ascomycete fungi that includes oligotrophic saprobes and some opportunistic species causing infections in vertebrates. The most important of these opportunists is the neurotropic species Ochroconis gallopava, which occurs in birds and occasionally in immunocompromised humans. Other Ochroconis species have been isolated from...
The crustose genus Staurothele (Verrucariaceae, Ascomycota) is a common component of thelichen flora from subneutral to alkaline silicated rock surfaces in temperate to cold temperate climates. Our field study in the karst system of Northern Vietnam showed that it is also verycommon on dry to humid limestone in the wet Tropics. Molecular data revea...
Many black meristematic fungi persist on rock surfaces-hostile and exposed habitats where high doses of radiation and periods of desiccation alternate with rain and temperature extremes. To cope with these extremes, rock-inhabiting black fungi show phenotypic plasticity and produce melanin as cell wall pigments. The rather slow growth rate seems to...