Tag: mycology

The Alps are home to more than 3,000 lichens

Historically, the Alps have always played an emblematic role, being one of the largest continuous natural areas in Europe. With its numerous habitats, the mountain system is easily one of the richest biodiversity hotspots in Europe.

Lichens are curious organisms comprising a stable symbiosis between a fungus and one or more photosynthetic organisms, for example green algae and/or cyanobacteria. Once the symbiosis is established, the new composite organism starts to function as a whole new one, which can now convert sunlight into essential nutrients and resist ultraviolet light at the same time.

A common fruticose lichen in the Alps (Flavocetraria nivalis). Photo: Dr Peter O. Bilovitz — *A common fruticose lichen in the Alps (Flavocetraria nivalis).*
*Photo: Dr Peter O. Bilovitz*

Being able to grow on a wide range of surfaces – from tree bark to soil and rock, lichens are extremely useful as biomonitors of air quality, forest health and climate change.

Nevertheless, while the Alps are one of the best studied parts of the world in terms of their biogeography, no overview of the Alpine lichens had been provided up until recently, when an international team of lichenologists, led by Prof. Pier Luigi Nimis, University of Trieste, Italy, concluded their 15-year study with a publication in the open access journal MycoKeys.

Sunrise in the Julian Alps. Photo: Dr Pier Luigi Nimis — *Sunrise in the Julian Alps.*
*Photo: Dr Pier Luigi Nimis*

The scientists’ joint efforts produced the first ever checklist to provide a complete critical catalogue of all lichens hitherto reported from the Alps. It comprises a total of 3,138 entries, based on data collected from eight countries – Austria, France, Germany, Italy, Liechtenstein, Monaco, Slovenia and Switzerland. In their research paper, the authors have also included notes on the lichens’ ecology and taxonomy.

A common lichen in the Alps (Xanthoria elegans). Photo: Dr Tomi Trilar — *A common lichen in the Alps (Xanthoria elegans).*
*Photo: Dr Tomi Trilar*

They point out that such catalogue has been missing for far too long, hampering research all over the world. The scientists point out that this has been “particularly annoying”, since the data from the Alps could have been extremely useful for comparisons between mountainous lichen populations from around the globe. It turns out that many lichens originally described from the Alps have been later identified in other parts of the world.

“It was a long and painstaking work, which lasted almost 15 years, revealing a surprisingly high number of yet to be resolved taxonomic problems that will hopefully trigger further research in the coming years,” say the authors.

“We think that the best criterion to judge whether a checklist has accomplished its task for the scientific community is the speed of it becoming outdated,” they conclude paradoxically.

The new checklist is expected to serve as a valuable tool for retrieving and accessing the enormous amount of information on the lichens of the Alps

A widespread alpine lichen (Thamnolia vermicularis). Photo: Dr Peter O. Bilovitz — *A widespread alpine lichen (Thamnolia vermicularis).*
*Photo: Dr Peter O. Bilovitz*

that has accumulated over centuries of research. It offers a basis for specimen revisions, critical re-appraisal of poorly-known species and further exploration of under-explored areas. Thus, it could become a catalyst for new, more intensive investigations and turn into a benchmark for comparisons between mountains systems worldwide.

###

Original source:

Nimis PL, Hafellner J, Roux C, Clerc P, Mayrhofer H, Martellos S, Bilovitz PO (2018) The lichens of the Alps – an annotated checklist. MycoKeys 31: 1-634. https://doi.org/10.3897/mycokeys.31.23568

Lichenologists at work in the Carnic Alps. Photo: Dr Pier Luigi Nimis — *Lichenologists at work in the Carnic Alps.*
*Photo: Dr Pier Luigi Nimis*

Underwater mushrooms: Curious lake fungi under every turned over stone

While fungi are well known for being essential in cycling carbon and nutrients, there are only about 100,000 described species in contrast to the 1.5 to 3 millions, assumed to exist on Earth. Of these, barely 3000 fungi belong to aquatic habitats. In fact, freshwater fungi have been researched so little, it is only now that an international research team provide the first lake-wide fungal diversity estimate in the open access journal MycoKeys.

Over the spring and the early summer of 2010, a large team of scientists, led by Dr Christian Wurzbacher and Dr Norman Warthmann, affiliated with the Leibniz-Institute of Freshwater Ecology and Inland Fisheries and the Berlin Center for Genomics in Biodiversity Research, Germany (currently at University of Gothenburg, Sweden, and the Australian National University, Australia, respectively), collected a total of 216 samples from 54 locations, encompassing eight different habitats within Lake Stechlin in North-East Germany.

Having recovered samples on three occasions over the course of the study, their aim was to test how habitat specificity affects the fungal community and whether fungal groups would reflect the availability of particulate organic matter as substrate. Unlike previous studies of aquatic fungi that compared water samples among different lakes or seasons, theirs would compare the diversity among habitats within a single lake. This included the study of fungi living in the water and the sediments, as well as fungi living on the surfaces of plants and other animals.

As a result, the scientists concluded that every type of habitat, i.e. sediments, biofilms, and submerged macrophytes (large aquatic plants), has a specific fungal community that varies more than initially expected. Of these, lake biofilms, representing a group of microorganisms, whose cells stick to each other, and cling together to a surface, turned out to be the hotspots for aquatic fungi.

“Our study provides the first estimate of lake-wide fungal diversity and highlights the important contribution of habitat heterogeneity to overall diversity and community composition,” the scientists summarise. “Habitat diversity should be considered in any sampling strategy aiming to assess the fungal diversity of a water body.”

###

Original source:

Wurzbacher C, Warthmann N, Bourne EC, Attermeyer K, Allgaier M, Powell JR, Detering H, Mbedi S, Grossart H-P, Monaghan MT (2016) High habitat-specificity in fungal communities in oligo-mesotrophic, temperate Lake Stechlin (North-East Germany). MycoKeys 16: 17-44. https://doi.org/10.3897/mycokeys.16.9646

From a bulletin to a modern open access journal: Italian Botanist in Pensoft’s portfolio

Established in the distant 1888, the Italian Botanical Society has gone a long way towards publishing its achievements and research. Originated as a bulletin within an Italian journal, they have been growing ever since to now form a new international journal in its own right. Covering both Italian and international research in botany and mycology, the online open access journal Italian Botanist, published by Pensoft, is now officially launched via its first papers.

Although what was later to become Italian Botanist, published its first issue as an independent journal, called Informatore Botanico Italiano in 1969, the publications were still rather bulletin-style. It consisted of a mixture of administrative and scientific proceedings of the Society, the yearbook of the members, as well as scientific notes.

Nevertheless, such a major transition has been set to change everything fundamentally. Establishing its name, the journal started picking up, so that it was not long before the scientific contributions were prevailing. Impressively, for the Society’s centenary the journal published a celebratory 331-page contribution.

Gradually, its scope was expanded to cover several scientific fields. It hosted several themed columns, including cytotaxonomic contributions on the Italian flora, relevant new floristic records for Italy, conservational issues concerning the Italian flora and mycology.

However, the Directive Council of the Italian Botanical Society has not seemed to be ready to give up on their journal’s evolution. Last year, the botanists decided that they need to transform the journal to an an online, open access journal written in English and called Italian Botanist, in order to boost the scientific value and international visibility of Informatore Botanico Italiano.

Under the name Italian Botanist, the journal has now joined Pensoft’s portfolio of peer-reviewed open access journals, all of which take advantage of the advanced technologies and innovations developed by the publisher.

The new journal’s scope ranges from molecular to ecosystem botany and mycology. The geographical coverage of Italian Botanist is specially focused on the Italian territory, but studies from other areas are also welcome.

Staying faithful to its spirit and philosophy, it keeps its column-format, with each issue to contain five columns, namely Chromosome numbers for the Italian flora, Global and Regional IUCN Red List Assessments, Notulae to the Italian flora of algae, briophytes, fungi and lichens, Notulae to the Italian native vascular flora and Notulae to the Italian alien vascular flora.

“Our hope is that this renewed version of the journal will serve the Italian – and foreign – botanical community more efficiently and provide readers worldwide with an easier access to knowledge concerning the Italian flora,” says Italian Botanist‘s Editor-in-Chief Lorenzo Peruzzi.

###

Original source:

Peruzzi L, Siniscalco C (2016) From Bullettino della Società Botanica Italiana to Italian Botanist, passing through Informatore Botanico Italiano. A 128 years-long story. Italian Botanist 1: 1-4. doi: 10.3897/italianbotanist.1.8646

Top 50 most wanted fungi: New search function zooms in on the dark fungal diversity

There are many millions of undescribed fungi, and public DNA sequence databases contain thousands of fungal sequences that cannot be assigned to any known fungal group with confidence. Many of these sequences have defied robust taxonomic assignment for more than 10 years.

Frustrated at this situation, an international group of researchers presents a search functionin the UNITE database for molecular identification of fungi. Its aim is to highlight the fungi we know the least about, and invite the scientific community to resolve their taxonomic affiliation. The effort seeks to bridge the substantial knowledge gap between fungal taxonomy and molecular ecology through a list, the authors refer to as the “50 Most Wanted Fungi”. Their work is presented in a new research paper published in the open-access journal MycoKeys.

Some 100,000 species of fungi have been described formally, although current estimates put the number of extant fungal species to at least 6 million. There is clearly no shortage of research venues in the study of fungi – but are there other shortages? The vast dark fungal diversity unravelled with molecular techniques hints that the interaction between fungal taxonomy and DNA sequencing of environmental substrates such as soil and water is not necessarily optimal.

“There is no taxonomic feedback loop in place to highlight the presence of these enigmatic lineages to the mycological community, and they often end up in sequence databases for years without attracting significant research interest,” explain the authors. “More than 10 years in some cases, as a matter of fact.”

Therefore, the researchers, led by Dr Henrik Nilsson, University of Gothenburg, now present a search function that produces lists of approximately genus-level clusters of fungal DNA sequences whose taxonomic affiliation we know next to nothing about. These lists are recomputed on a monthly basis, accounting for any updates and additions contributed by the scientific community in between each iteration. Community participation is encouraged, and the UNITE database has extensive support for third-party annotation.

By putting the spotlight on these fungal lineages, Dr Nilsson and colleagues hope to speed up the study and formal description of the underlying species. To support researchers focusing on select groups of fungi or environments, a set of keyword-filtered lists is provided. This allows researchers to zoom in on unknown fungi recovered, for example, from the built environment or aquatic habitats.

Commenting on their choice of a name for the list, the researchers clarify that the underlying fungi are not guilty of any crime. “Indeed, nothing can be said of the way they make a living. It is simply not known. We make no claim as to the importance of these fungi from whatever point of view – ecological, economic, or otherwise,” they stress. “We do make claim to their uniqueness, though, because it is frustrating, in the year 2016, not to be able to assign a name to a fungal sequence even at the phylum level.”

“We hope that the present publication will serve to put the spotlight on these uncharted parts of the fungal tree of life, and we invite the reader to examine them through our online tools or otherwise,” they conclude.

###

Original source:

Nilsson RH, Wurzbacher C, Bahram M, Coimbra VRM, Larsson E, Tedersoo L, Eriksson J, Duarte Ritter C, Svantesson S, Sánchez-García M, Ryberg M, Kristiansson E, Abarenkov K (2016) Top 50 most wanted fungi. MycoKeys 12: 29-40. doi: 10.3897/mycokeys.12.7553