The Fungarium of Yugra State University

Occurrence
Latest version published by Yugra State University Biological Collection (YSU BC) on Jul 15, 2024 Yugra State University Biological Collection (YSU BC)

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Description

The Fungarium of Yugra State University is a systematic reference collection of fungi organized as a part of the Yugra State University Biological Collection (YSU BC). The main purpose of the Fungarium is to initiate and facilitate systematic studies of fungi in the region. It also serves for education and can be used by specialists in different applied disciplines.

The taxonomical structure of the collections currently includes the total number of species represented – about 1.5K, genera represented – about 500, families represented – about 150. The majority of the specimens in the YSU Fungarium belong to the Basidiomycota (about 80%), less to Ascomycota (10%) with few specimens of Zygomycota and Myxomycota. The majority of specimens were collected in Khanty-Mansi Autonomous Okrug (90%), with 11 other regions of Russia represented by small numbers.

The collection is gradually growing and is open to prospective users in systematics, ecology and geography as well as applied disciplines of mycology.

Data Records

The data in this occurrence resource has been published as a Darwin Core Archive (DwC-A), which is a standardized format for sharing biodiversity data as a set of one or more data tables. The core data table contains 7,243 records.

This IPT archives the data and thus serves as the data repository. The data and resource metadata are available for download in the downloads section. The versions table lists other versions of the resource that have been made publicly available and allows tracking changes made to the resource over time.

Versions

The table below shows only published versions of the resource that are publicly accessible.

How to cite

Researchers should cite this work as follows:

Filippova N, Zvyagina E, Bulyonkova T, Rudykina E (2024). The Fungarium of Yugra State University. Version 1.150. Yugra State University Biological Collection (YSU BC). Occurrence dataset. http://ipt.ugrasu.ru:8080/resource?r=fungariumysu&v=1.150

Rights

Researchers should respect the following rights statement:

The publisher and rights holder of this work is Yugra State University Biological Collection (YSU BC). This work is licensed under a Creative Commons Attribution (CC-BY 4.0) License.

GBIF Registration

This resource has been registered with GBIF, and assigned the following GBIF UUID: d922b606-6c94-4d51-9277-36c9b03872a7.  Yugra State University Biological Collection (YSU BC) publishes this resource, and is itself registered in GBIF as a data publisher endorsed by Participant Node Managers Committee.

Keywords

Occurrence; Occurrence

External data

The resource data is also available in other formats

Northern West Siberia collections portal http://bioportal.ugrasu.ru/ UTF-8 Specify Web Portal

Contacts

Nina Filippova
  • Metadata Provider
  • Originator
  • Point Of Contact
senior researcher
Yugra State University
Stroiteley street, 2
628508 Khanty-Mansiysk
Shapsha village, Khanty-Mansi Autonomous Okrug-Yugra
Elena Zvyagina
  • Originator
researcher
Yugra State University
Khanty-Mansiysk
RU
Tatiana Bulyonkova
  • Originator
researcher
Yugra State University
Khanty-Mansiysk
RU
Elena Rudykina
  • Originator
researcher
Yugra State University
Khanty-Mansiysk
RU

Geographic Coverage

Specimens deposited in the YSU Fungarium were collected mainly in the taiga zone of Western Siberia (Russia). The majority of specimens were collected in Khanty-Mansi Autonomous Okrug-Yugra (94%), 150 specimens from Tomskaya oblast, and several dozens of specimens from Irkutskaya, Moskovskaya, Murmanskaya oblast and from Altay, while the rest four regions represented by a few specimens (Krasnoyarskiy Kray, Novosibirskaya Oblast’, Respublica Buryatia, Tyumenskaya Oblast’). Within administrative borders of Yugra, 6 districts are represented with majority (98%) from Khanty-Mansiyskiy district. The two main sampling areas are located in the vicinities of Khanty-Mansiysk (60N 68E) and the nearby Shapsha and Mukhrino field stations of the YSU. Major vegetation types covered by the collection are coniferous dark taiga forests and their deciduous derivates (more than half of the collection), and ombrotrophic raised bogs (comprising about 30% of the collection). Coniferous forests (dominated by Pinus sibirica, Picea obovata, and Abies sibirica) and their deciduous successions (Populus tremula, Betula pubescens) are characteristic for the taiga zone of Western Siberia. The region is highly bogged, with ombrotrophic peatlands covering about 50% of the area. Other major landscapes include floodplains of big rivers, where meadow and floodplain shrub vegetation develops.

Bounding Coordinates South West [52.909, 22.148], North East [71.074, 172.969]

Taxonomic Coverage

The taxonomical structure of the collections currently includes the total number of species represented – about 1.5K, genera represented – about 500, families represented – about 150. The majority of the specimens in the YSU Fungarium belong to the Basidiomycota (about 80%), less to Ascomycota (10%) with few specimens of Zygomycota and Myxomycota. The majority of specimens were collected in Khanty-Mansi Autonomous Okrug (90%), with 11 other regions of Russia represented by small numbers.

Kingdom Fungi, Mycetozoa

Temporal Coverage

Start Date / End Date 2010-01-01 / 2024-01-01

Project Data

https://fungariumysu.org/moleculab/

Title Molecular methods in the study and assessment of biodiversity in the Northern regions
Identifier FENG-2024-0003
Funding [RU] Субсидия из федерального бюджета на выполнение государственного задания "Молекулярно-генетические методы в изучении и оценке состояния биоразнообразия Северных регионов (FENG-2024-0003)" №1023041300017-6-1.6.4 от 13.03.2024 [EN] Grant from the federal budget for the implementation of the state assignment "Molecular-genetic methods in the study and assessment of biodiversity in the Northern regions (FENG-2024-0003)" No. 1023041300017-6-1.6.4 dated 13.03.2024.

The personnel involved in the project:

Nina Filippova
  • Point Of Contact

Sampling Methods

Specimens in the collection are accumulated by direct observation and extraction of fruiting structures of fungi. The two major approaches are used: observation and collection of fruiting structures of larger fungi (macromycetes) by naked eye, and lens observations of substrates followed by extraction of smaller fruiting structures of discomycetes, hyphomycetes, pyrenomycetes etc. A common procedure of collecting, describing and preserving specimens recommended for inventories of macrofungi is used (Mueller et al., 2004, Biodiversity of fungi).

Study Extent Currently the database holds about 10K collection objects, 18K preparations, and 5 Type specimens (1 isotype, 1 holotype and 3 paratypes).
Quality Control 27% of the collection specimens have been cited in one to four publications. A total of 107 publications are linked to specimens in the database, including journal papers, descriptions in the Red Book and publications of specimens in Internet mycological forums (AscoFrance, MushroomObserver, iNaturalist and others). The collections are made by the trained mycologists or amateur mycologists, the total number of collectors – 14, the majority of specimens (87%) in the collection were collected by one person (Filippova N.). Identification was performed by a total of 30 specialists through direct work in the Fungarium (Filippova N., Bulyonkova T. – a total of 5150 specimens), in other laboratories with loaned material (Zmitrovich I. – 50 specimens, Rebriev Yu. – 34, Novozhilov Yu. – 9, Khimich Yu. – 27, Popov E. – 15, Blagoveschenskaya E. – 12, and others), or making comments on identification through Internet mycological forums (Baral H. – 27 specimens, and others). About 20% of the collection specimens are currently not identified to the species rank (representatives of the systematically complex groups, like Russula, Cortinarius, Mycena, Entoloma, Inocybe, Clitocybe, and others).

Method step description:

  1. Fruitbodies of larger fungi are photographed and their growing conditions are described in the field, extracted from the substrate and packed in aluminium foil to be processed in the laboratory later on the day of collection.
  2. Macro-morphological features of sporocarps are described according to schemes required for specific systematic groups.
  3. Spore prints are obtained when the number of sporocarps is sufficient.
  4. Sporocarps are dried after processing in a drying oven under 50°C and stored as dry specimens in Ziploc bags and kraft-paper envelopes.
  5. The preparations are made from vital or dried specimens soaked in tap water, ammonia, or KOH (10%), with dyes when necessary (Melzer solution and Congo red).
  6. Microscopical characters are studied using a Zeiss Stemi-2000C stereomicroscope (providing a magnification from 6x to 50x), and Zeiss Axiostar transmitted light microscope (50x to 1000x) with Achromat 5/0.12, 10/0.25, 40/0.65 (dry) and Achromat 100/1.25 (oil immersion) lenses.
  7. Microphotographs are obtained under transmitted light microscopes using a AxioCam ERc5c digital camera and processed with AxioVision software.
  8. Measurements made using AxioVision software.
  9. Since 2021, the barcoding (sequencing) of collection has been initiated. We relied primarily on the ITS region using the ITS1-F and ITS4 primers TEF1 and LSU regions were amplified occasionally.
  10. Ready sequences are uploaded to the YSU Fungarium database in Specify 7. Sequence metadata, the edited sequence and original files are saved. Each sample may correspond to one or several sequences (different regions). Each sequence may have one or several original files with their sequencing parameters. Primer parameters are filled in a separate table.
  11. During the two years of the project, over 1500 sequences from about 2000 specimens were performed. About a third was a part of the revision of the large genus Cortinarius. Another large part was within the effort of raised bog fungi barcoding. The remaining specimens were from revisions of minor groups, students projects and sequencing of noteworthy finds and taxa potentially new to region or to science in general.
  12. Currently the dataset presents abotu 500 sequences as DNA-derived extension. The sequences linked to their specimens and contain 10 fields describing the sequence and its metadata.

Collection Data

Collection Name Yugra State University Biological Collection (Fungarium YSU)
Collection Identifier YSU-F
Parent Collection Identifier YSU
Specimen preservation methods Dried
Curatorial Units Count 10,000 +/- 100 Dried specimens

Bibliographic Citations

  1. Filippova N.V., Lapshina E.D. 2016. Коллекция ваучерных образцов грибов ЮГУ: значение и основы функционирования (Reference collection of fungi of YSU – importance and operation). In: Biological collections of Yugra: collecting, fixation, storage and scientific use. Proceedings of the scientific-methodological seminar (Биологические коллекции Югры: сбор, фиксация, хранение, введение в научный оборот. Материалы научно-петодического семинара в Музее Природы и Человека. Ханты-Мансийск. 27 марта 2015 г. \ под ред. Белогай О.И., Скучас Ю.В.). Khanty-Mansiysk, 27 march 2015. P. 73-85.
  2. Filippova N.V., Bulyonkova T.M. 2016. Fungarium of Yugra State University. In: Biological collections of Yugra: collecting, fixation, storage and scientific use. Proceedings of the scientific-methodological seminar (Биологические коллекции Югры: сбор, фиксация, хранение, введение в научный оборот. Материалы научно-петодического семинара в Музее Природы и Человека. Ханты-Мансийск. 27 марта 2015 г. \ под ред. Белогай О.И., Скучас Ю.В.). Khanty-Mansiysk, 27 march 2015. P. 90-98.
  3. Filippova N, Ganasevich G, Filippov I, Meshcheryakova A, Lapshina E, Karpov D (2022) Yugra State University Biological Collection (Khanty-Mansiysk, Russia): general and digitisation overview. Biodiversity Data Journal 10: e77669. https://doi.org/10.3897/BDJ.10.e77669 https://doi.org/10.3897/BDJ.10.e77669
  4. Filippova N, Zvyagina E, Rudykina E, Dobrynina A, Bolshakov S (2023) The diversity of macromycetes in peatlands: nine years of plot-based monitoring and barcoding in the raised bog «Mukhrino», West Siberia. Biodiversity Data Journal 11: e105111. https://doi.org/10.3897/BDJ.11.e105111 https://doi.org/10.3897/BDJ.11.e105111

Additional Metadata

Purpose The collection is gradually growing and is opened to prospective users such as taxonomists interested in work with a particular group of fungi represented in the region and other research areas of basic and applied mycology. We support practices of actual visits for work with the collection and remote access to the database and photographs. You are kindly welcome to visit the YSU Fungarium!
Maintenance Description The database of YSU Fungarium is developed using Specify 6 software and its web version, Specify 7 (available at http://specify.ugrasu.ru/, login requred) hosted on the Yugra State University server. The Specify Web Portal with legular collections exports, including pictures and sequences, is available at http://bioportal.ugrasu.ru/
Alternative Identifiers d922b606-6c94-4d51-9277-36c9b03872a7
http://ipt.ugrasu.ru:8080/resource?r=fungariumysu