Department of Biology and Ecology, Faculty of Sciences, University of Novi Sad

[ManonGros]

University of Novi Sad

GRSciColl URL: https://www.gbif.org/grscicoll/institution/e208c3eb-21b7-42cd-9ff0-0dafea1d23d1 Synchronized with IH Code: DBE-UNS (removed BUNS) Homepage: http://www.dbe.uns.ac.rs Fuzzy name search in GBIF publisher:

• Department of Biology and Ecology, Faculty of Sciences, University of Novi Sad, Serbia

Number of linked occurrences: 2,199 (02.02.2024) 0 (03.10.2023) (https://www.gbif.org/occurrence/search?advanced=1&institution_key=e208c3eb-21b7-42cd-9ff0-0dafea1d23d1)

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1. Find out if the information is complete and up to date:

• [x] Check the homepage if available or google the institution name in the country. Check if all collections for that institution are represented in GRSciColl.
• [x] Add missing collections/information to the institution on GRSciColl directly in the registry. If some collections are digitized, put the information in the GRSciColl Notes field.

2. Check if the data is also in GBIF:

• [x] If there are GBIF occurrence records linked, check from which dataset/publisher they come. Is the institution a registered publisher? Or do the records come from a third party publisher? Are all the collections in GRSciColl also in GBIF? (add comments to the issue)
• [x] If no record is linked to GRSciColl, look for the institution name on the GBIF list of publishers. Is there any corresponding publisher? Have they published any data? (add comments to the issue)
• [x] If data has been published on GBIF but isn’t linked to GRSciColl, notify Marie (tag ManonGros), she can link the data.
• [x] Translate outcome of your checks into labels. See guidelines here: https://github.com/gbif/collection-mobilization#readme

[spalp]

• Renamed to Department of Biology and Ecology, Faculty of Sciences, University of Novi Sad, which аs already a registered publisher and has published 1 dataset with 2166 occurrences: Prime Hoverfly (Insecta: Diptera: Syrphidae) Areas (PHA) as a conservation tool in Serbia . Successuflly linked to the institution (see the next posts).
• Deleted the mastersouce (i.e. the connection with Index Herbariorum) for the institution because (1) the institution has different labs in different fields (zoology, microbiology) that are potential holders of biodiversity data: https://www.dbe.uns.ac.rs/en/research/laboratories/; (2) to update info on codes and identifiers. New InstitutionCode: DBE-UNS.
• The fungarium has its separate page on the institution website and a separate depot and curator but is registered in Index Herbariorum as part of the (Herbarium - University of Novi Sad). Therefore, I added it as a new collection Fungarium but with the same CollectionCode as the Herbarium. | CollectionCode: BUNS but added a different AlternativeCode: BUNS-Fungarium. This collection is already digitised!!! but not published.
• A new collection in GRSciColl for the living fungal culture has been added | CollectionCode: FungiCult.
• Added a new collection: Malacological Collection (07.12.2023)

[spalp]

I created the collection Insecta and added _GRSCICOLLURI and UUID of the collection as identifiers: https://registry.gbif.org/collection/59093a0f-9471-4182-9e56-455d9ce85672/identifier. | CollectionCode: Insecta. @ManonGros Could you link the following dataset: Prime Hoverfly (Insecta: Diptera: Syrphidae) Areas (PHA) as a conservation tool in Serbia to the collection?

[ManonGros]

Thanks @spalp, I can actually add default values for specified fields in a given dataset. (By "default", I mean that it will only apply if no other value is provided by the publisher for that field). I have added a default collection and institution code for the dataset Prime Hoverfly (Insecta: Diptera: Syrphidae) Areas (PHA) as a conservation tool in Serbia. You can see them here: https://registry.gbif.org/dataset/9060319d-ceb2-44ac-9423-efaa4a88214f/defaultValue

Because you just created the collection entry, I need to wait a few days before reinterpreting the dataset and linking the occurrences. As the GRSciColl cache is only updated twice a week. I am temporarily co-assigning myself so I don't forget to reinterpret the data.

PS: the Serbian dataset is orphaned. This means that the endpoint was unresponsive for a long time and we made a copy of the dataset that we are hosting on our system. If you ever contact the publisher, it would be a good idea to ask if they would be interested in adopting back the dataset (meaning to host it again). You can learn more about orphaned datasets here: https://github.com/gbif/watchdog/wiki/OrphanedDatasets

[ManonGros]

I reinterpreted the dataset and it got linked actually.

[spalp]

Thanks @spalp, I can actually add default values for specified fields in a given dataset. (By "default", I mean that it will only apply if no other value is provided by the publisher for that field). I have added a default collection and institution code for the dataset Prime Hoverfly (Insecta: Diptera: Syrphidae) Areas (PHA) as a conservation tool in Serbia. You can see them here: https://registry.gbif.org/dataset/9060319d-ceb2-44ac-9423-efaa4a88214f/defaultValue

Oh, great. I did not know one can look at default values of datasets this way. I was always going through individual records, which took so much time. Thanks for sharing.

[ManonGros]

@spalp only admins can add default values If you would like to get an overview of the codes used for a given selection of occurrences, you can do so via the API and/or (for the institution codes) in the web interface. For example, https://www.gbif.org/occurrence/charts?dataset_key=9060319d-ceb2-44ac-9423-efaa4a88214f&d=institutionCode

I can show how to work with the API on our Friday meeting if we have time.

[spalp]

PS: the Serbian dataset is orphaned. This means that the endpoint was unresponsive for a long time and we made a copy of the dataset that we are hosting on our system. If you ever contact the publisher, it would be a good idea to ask if they would be interested in adopting back the dataset (meaning to host it again). You can learn more about orphaned datasets here: https://github.com/gbif/watchdog/wiki/OrphanedDatasets

Yes, I will make it part of my data mobilization plan:

Data mobilization plan:

• [ ] Ask the Point of Contact for the entomological collection whether they have new data to share,
• [ ] Ask the Point of Contact for the entomological collection whether they whether they would like to adopt this dataset again:Prime Hoverfly (Insecta: Diptera: Syrphidae) Areas (PHA) as a conservation tool in Serbia
• [ ] Ask the Curator of the herbarium, whether they are interested to publish data from the Herbarium collection
• [ ] Ask the Head of the Mycology lab, whether they are interested to publish data from the Fungarium, which is already digitised, and from FungiCult.
• [ ] Ask at the level of the whole institution (using the institutional mail: biologija@dbe.uns.ac.rs), whether they have other collections missing from the GRSciColl.

[spalp]

Linking occurrences to the institution

Step 1: Check which institution codes need manual mapping?

https://api.gbif.org/v1/grscicoll/lookup?institutionCode=DBE-UNS - correct match https://api.gbif.org/v1/grscicoll/lookup?institutionCode=UNSPMF - correct match https://api.gbif.org/v1/grscicoll/lookup?institutionCode=FSUNS - correct match https://api.gbif.org/v1/grscicoll/lookup?institutionCode=BUNS - no match, needs manual mapping

Step 2: Check occurrences that use the above institution codes?

https://www.gbif.org/occurrence/search?basis_of_record=LIVING_SPECIMEN&basis_of_record=FOSSIL_SPECIMEN&basis_of_record=PRESERVED_SPECIMEN&basis_of_record=MATERIAL_CITATION&basis_of_record=MATERIAL_SAMPLE&institution_code=BUNS&institution_code=DBE-UNS&institution_code=UNSPMF&institution_code=FSUNS

No dataset with institution code BUNS.

Step 3: Check whether occurrences from the following datasets should be linked to the institution

• Prime Hoverfly (Insecta: Diptera: Syrphidae) Areas (PHA) as a conservation tool in Serbia - 2,166 occurrences where 'Institution code' equals: dbe-uns and 'Basis of record' Preserved specimen --> OK
• An updated checklist of the hoverflies (Diptera: Syrphidae) of Slovenia - 24 occurrences where 'Institution code' equals: fsuns and 'Basis of record' Material citation --> OK
• Three new species of the Merodon ruficornis group (Diptera: Syrphidae) discovered at the edge of its range - 8 occurrences where 'Institution code' equals: fsuns and 'Basis of record': Material citation --> OK, authors are from the institutions, paper checked
• Defining species boundaries in the Merodon avidus complex (Diptera, Syrphidae) using integrative taxonomy, with the description of a new species - 1 occurrences where 'Institution code' equals: fsuns and 'Basis of record': Material citation --> OK, authors are from the institutions

[spalp]

Linking occurrences to the institution's collections

Step 1: Check occurrences using institution codes as a collection code.

https://www.gbif.org/occurrence/search?basis_of_record=LIVING_SPECIMEN&basis_of_record=FOSSIL_SPECIMEN&basis_of_record=PRESERVED_SPECIMEN&basis_of_record=MATERIAL_CITATION&basis_of_record=MATERIAL_SAMPLE&collection_code=BUNS&collection_code=DBE-UNS&collection_code=UNSPMF&collection_code=FSUNS

07.12.2023: 28 results. All are insects, thus should be linked to: https://registry.gbif.org/collection/59093a0f-9471-4182-9e56-455d9ce85672. All use FSUNS as collection code and https://api.gbif.org/v1/grscicoll/lookup?collectionCode=FSUNS returns a unique match, so no need for manual mapping.

[spalp]

• Contacted by Will Morris within the TETTRIS project.
• Agreed to review their GRSciColl entires
• Are supposed to mobilize for the project. Therefore,marked as agreed to mobilize.