Seeneperekondade Cystoderma ja Cystodermella (Agaricales) taksonoomia ja fülogenees

Väitekirja elektrooniline versioon ei sisalda publikatsioone.Doktoritöös käsitletakse lehikseente perekondade Cystoderma (pisisirmik) ja Cystodermella liikide biosüstemaatikat ja evolutsiooni. Töös kasutati morfoloogilisi ja molekulaarseid tunnuseid ning fülogeneetika ja elurikkuse informaatika meetodeid. Kinnitust leidis hüpotees, et erinevate seeneliikide ja isegi nende kahe perekonna eristamine ei ole ainult morfoloogilisi ja anatoomilisi tunnuseid kasutades võimalik. Doktoritöös kasutati nende eristamiseks edukalt rDNA ITS ja LSU geenijärjestusi. Cystoderma ja Cystodermella liikide molekulaarseks määramiseks loodi rDNA ITS järjestuste baasil DNA triipkoodid. Viimased võimaldavad rahvusvahelise seente molekulaarse määraja UNITE (http://unite.ut.ee) abil määrata neid liike kõigist bioloogilistest proovidest, kus vastava liigi DNA esineda võib. Siia rühma kuuluvate seente eluviis on siiani täpselt teadmata, kuid DNA triipkoodide olemasolu võimaldab nende liikide seeneniidistiku leidumist määrata nii teistest organismidest kui ka erinevatest substraatidest, näiteks metsavarisest ja mullast. Esmakordselt on nüüd võimalik testida hüpoteese nende seente võimalikest suhetest sammaldega ja/või osalemist kõdulagundamises. ITS geenijärjestustel põhineva analüüsi tulemuste põhjal arvati seeneperekond Phaeolepiota (kuldmampel) perekonda Cystoderma. Doktoritöös kirjeldati kaks teadusele uut liiki Ecuadorist – Cystoderma andinum ja Cystodermella papallactae ning koostati perekondade Cystoderma ja Cystodermella kõigi teadaolevate liikide kriitiline nimestik. Eestist leiti esmakordselt liigi Cystoderma japonicum eksemplar, mis on ilmselt esimene leid väljaspoolt Jaapanit, kust selle liigi tüüpeksemplar on leitud ja kirjeldatud

Type studies on Coprinus dunarum Stoll

The study of the type specimens from Coprinus dunarum revealed that according to ITS sequences these specimens belong to the species Coprinopsis atramentaria. Thus, C. dunarum should be treated as a synonym of the latter

Three new species found in the Bracciano-Martignano Regional Natural Park in Lazio, Italy

We report the finding of three recently described species in late autumn and winter (October to December) in the Bracciano-Martignano Regional Natural Park in Lazio (Italy). The species are Amanita calida, Lepiota elseae and Xerocomellus sarnarii. This is the first record of Lepiota elseae for Italy. The collection site, a Quercus thicket, is located on the slopes of San Bernardino del Malpasso in Trevignano Romano, between Monte Rocca Romana (Sabatini mountains) and the nearby Bracciano Lake. A description of the specimens is given, and a comparison is made with the few descriptions of the ambient available for previous records of the respective species

Red List of Estonian Fungi – 2019 update

In 2019 the conservation status of 214 fungal species in Estonia was assessed according to IUCN criteria and an IUCN category was assigned to each taxon. Altogether 94 species were categorized as threatened (CR, EN, VU), 42 least concern (LC), 60 near threatened (NT), three regionally extinct (RE) and six as data deficient (DD). Changes compared to the previous red list and threats to the species are discussed.   Eesti seente Punane nimestik – 2019. aasta uuendus 2019. aastal hinnati 214 seeneliigi ohustatust Eestis kasutades IUCN kategooriaid ja kriteeriume. Hinnatud liikidest kuulus 94 ohustatuse kategooriatesse CR, EN ja VU, 42 hinnati kui soodsas seisundis (LC), 60 ohulähedased (NT), 3 piirkonnas välja surnud (RE) ja 6 puuduliku andmestikuga (DD). Artikkel käsitleb muudatusi võrreldes eelmise punase nimestikuga ja olulisemate seeneliikide ohutegureid

The UNITE database for molecular identification of fungi : handling dark taxa and parallel taxonomic classifications

Alfred P. Sloan Foundation [G-2015-14062]; Swedish Research Council of Environment, Agricultural Sciences, and Spatial Planning [FORMAS, 215-2011-498]; European Regional Development Fund (Centre of Excellence EcolChange) [TK131]; Estonian Research Council [IUT20-30]. Funding for open access charge: Swedish Research Council of Environment, Agricultural Sciences and Spatial Planning.Peer reviewedPublisher PD

PlutoF—a Web Based Workbench for Ecological and Taxonomic Research, with an Online Implementation for Fungal ITS Sequences

DNA sequences accumulating in the International Nucleotide Sequence Databases (INSD) form a rich source of information for taxonomic and ecological meta-analyses. However, these databases include many erroneous entries, and the data itself is poorly annotated with metadata, making it difficult to target and extract entries of interest with any degree of precision. Here we describe the web-based workbench PlutoF, which is designed to bridge the gap between the needs of contemporary research in biology and the existing software resources and databases. Built on a relational database, PlutoF allows remote-access rapid submission, retrieval, and analysis of study, specimen, and sequence data in INSD as well as for private datasets though web-based thin clients. In contrast to INSD, PlutoF supports internationally standardized terminology to allow very specific annotation and linking of interacting specimens and species. The sequence analysis module is optimized for identification and analysis of environmental ITS sequences of fungi, but it can be modified to operate on any genetic marker and group of organisms. The workbench is available at http://plutof.ut.ee

The UNITE database for molecular identification and taxonomic communication of fungi and other eukaryotes : sequences, taxa and classifications reconsidered

Acknowledgements We acknowledge Marie Zirk for her work in designing the UNITE logotype and creating the visual abstract for this article. Funding UNITE database development is financed by the Estonian Research Council [PRG1170]; European Union's Horizon 2020 project BGE [101059492]. The PlutoF digital infrastructure is supported by the European Union's Horizon 2020 project BiCIKL [101007492]; Estonian Research Infrastructure roadmap project DiSSCo Estonia. Funding for open access charge: UNITE Community. Conflict of interest statement. None declared.Peer reviewedPublisher PD

What Do the First 597 Global Fungal Red List Assessments Tell Us about the Threat Status of Fungi?

Fungal species are not immune to the threats facing animals and plants and are thus also prone to extinction. Yet, until 2015, fungi were nearly absent on the IUCN Red List. Recent efforts to identify fungal species under threat have significantly increased the number of published fungal assessments. The 597 species of fungi published in the 2022-1 IUCN Red List update (21 July 2022) are the basis for the first global review of the extinction risk of fungi and the threats they face. Nearly 50% of the assessed species are threatened, with 10% NT and 9% DD. For regions with a larger number of assessments (i.e., Europe, North America, and South America), subanalyses are provided. Data for lichenized and nonlichenized fungi are also summarized separately. Habitat loss/degradation followed by climate change, invasive species, and pollution are the primary identified threats. Bias in the data is discussed along with knowledge gaps. Suggested actions to address these gaps are provided along with a discussion of the use of assessments to facilitate on-the-ground conservation efforts. A research agenda for conservation mycology to assist in the assessment process and implementation of effective species/habitat management is presented

What Do the First 597 Global Fungal Red List Assessments Tell Us about the Threat Status of Fungi?

Fungal species are not immune to the threats facing animals and plants and are thus also prone to extinction. Yet, until 2015, fungi were nearly absent on the IUCN Red List. Recent efforts to identify fungal species under threat have significantly increased the number of published fungal assessments. The 597 species of fungi published in the 2022-1 IUCN Red List update (21 July 2022) are the basis for the first global review of the extinction risk of fungi and the threats they face. Nearly 50% of the assessed species are threatened, with 10% NT and 9% DD. For regions with a larger number of assessments (i.e., Europe, North America, and South America), subanalyses are provided. Data for lichenized and nonlichenized fungi are also summarized separately. Habitat loss/degradation followed by climate change, invasive species, and pollution are the primary identified threats. Bias in the data is discussed along with knowledge gaps. Suggested actions to address these gaps are provided along with a discussion of the use of assessments to facilitate on-the-ground conservation efforts. A research agenda for conservation mycology to assist in the assessment process and implementation of effective species/habitat management is presented

What Do the First 597 Global Fungal Red List Assessments Tell Us about the Threat Status of Fungi?

Fungal species are not immune to the threats facing animals and plants and are thus also prone to extinction. Yet, until 2015, fungi were nearly absent on the IUCN Red List. Recent efforts to identify fungal species under threat have significantly increased the number of published fungal assessments. The 597 species of fungi published in the 2022-1 IUCN Red List update (21 July 2022) are the basis for the first global review of the extinction risk of fungi and the threats they face. Nearly 50% of the assessed species are threatened, with 10% NT and 9% DD. For regions with a larger number of assessments (i.e., Europe, North America, and South America), subanalyses are provided. Data for lichenized and nonlichenized fungi are also summarized separately. Habitat loss/degradation followed by climate change, invasive species, and pollution are the primary identified threats. Bias in the data is discussed along with knowledge gaps. Suggested actions to address these gaps are provided along with a discussion of the use of assessments to facilitate on-the-ground conservation efforts. A research agenda for conservation mycology to assist in the assessment process and implementation of effective species/habitat management is presented