| 1. |
- Abarenkov, Kessy, et al.
(författare)
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PlutoF—a web based workbench for ecological and taxonomic research, with an online implementation for fungal ITS sequences
- 2010
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Ingår i: Evolutionary Bioinformatics. - 1176-9343. ; 6, s. 189-196
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Tidskriftsartikel (refereegranskat)abstract
- 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.
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| 2. |
- Ghobad-Nejhad, Masoomeh, et al.
(författare)
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A first annotated checklist of corticioid and polypore basidiomycetes of the Caucasus region
- 2010
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Ingår i: Mycologia Balcanica. - 1312-3300. ; 6, s. 123-168
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Tidskriftsartikel (refereegranskat)abstract
- Abstract. This is the first checklist from the territories in the Caucasus region, including Armenia, Azerbaijan, Georgia, Russian Caucasus, NE Turkey, and N–NW Iran. Altogether 349 corticioid and 246 polypore species are known from the area, 74 of which are reported as new to the entire region. Each record includes literature references, and, when available, selected unpublished specimens deposited in herbaria or collected recently are listed. The distribution of each species in the Caucasian countries is summarized, and brief notes are provided for some species. Finally, a table and a diagram representing the number of corticioids and polypores and the ratio of these in each country are provided. The checklist aims to serve as a baseline for more detailed studies on wood-inhabiting basidiomycetes in the Caucasus region. The importance of this catalogue for fungal conservation is also mentioned.
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| 3. |
- Parmasto, Erast, et al.
(författare)
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Cortbase version 2 – extensive updates of a nomenclatural database for corticioid fungi (Hymenomycetes)
- 2004
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Ingår i: PhyloInformatics. ; 5, s. 1-7
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Tidskriftsartikel (refereegranskat)abstract
- Cortbase is a nomenclatural database for corticioid (resupinate) fungi (Corticiaceae s.l. and related hymenomycetes) with basionyms, synonyms, taxonomically correct names, data on name usage, literature references, and evaluation of nomenclatural status. It is available as an on-line service (http://andromeda.botany.gu.se/cortbase.html) and as an MS-DOS executable for local installation. The database includes 8112 species names; of the 4412 basionyms included, 2101 represent taxonomically acceptable species, 1434 are heterotypic synonyms, and 877 are of uncertain application. The improvements over the previous version include the new, platformindependent on-line search interface, some 800 more corticioid names, numerous additions to the existing data, and six new categories for searching, including searches for location of type specimens and for authors of species names.
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| 4. |
- Parmasto, Erast, et al.
(författare)
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Phylogenetic taxonomy of Hymenochaete and related genera (Hymenochaetales)
- 2014
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Ingår i: Mycological progress. - : Springer Science and Business Media LLC. - 1617-416X .- 1861-8952. ; 13:1, s. 55-64
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Tidskriftsartikel (refereegranskat)abstract
- Species delimitation in Hymenochaete sensu lato was evaluated based on partial nucLSU rDNA sequences, isoenzyme analyses and morphological data. Analyses of LSU data revealed Hymenochaete sensu stricto and Pseudochaete as distinct monophyletic genera. Transfer of Hydnochaete olivacea into genus Pseudochaete and Dichochaete setosa into genus Hymenochaete (as H. resupinata) was supported by the results of molecular analyses. A new species Hymenochaete koeljalgii from Tanzania was described. The species of genus Hymenochaete sensu stricto were divided into four well-supported clades possessing no distinctive morphological characters.
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