Institute of Biodiversity and Ecosystem Research, Bulgarian Academy of Sciences

[ManonGros]

Bulgarian Academy of Sciences

GRSciColl URL: https://www.gbif.org/grscicoll/institution/241f1116-604b-4815-a615-5375ba9fc9ef Synchronized with IH Code: SOM Homepage: http://www.iber.bas.bg/?q=en/node/525 Fuzzy name search in GBIF publisher: None

Number of linked occurrences: 10 (https://www.gbif.org/occurrence/search?advanced=1&institution_key=241f1116-604b-4815-a615-5375ba9fc9ef) Publishing organizations for linked occurrences:

• https://www.gbif.org/publisher/b6f05cf0-43ce-11d9-8439-b8a03c50a862
• https://www.gbif.org/publisher/90fd6680-349f-11d8-aa2d-b8a03c50a862

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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]

• Updated the name, info and URL of the institution.
• Updated the main Institution code to be: IBER-BAS
• Code 'IBER' is set as an alternative code as it is used in published collections but is not unique: https://api.gbif.org/v1/grscicoll/lookup?institutionCode=IBER and needs a manual mapping.
• Added a ROR ID
• Status of existing GRSciColl collections:
  1. Herbarium SOM
     • the bryophytes (ca. 16,000) are in the process of digitisation (code: SOM B) but vascular plants no.
     • Status (05.10.2023): The API suggests that there are 6 specimens of vascular plants published online via 2 third-party publishers (Tropicos and Instituto de Botánica Darwinion - CONICET). I am certain that 4 of the 6 are wrongly assigned due to the wrong institution code. The other two are from Bulgaria Sesleria achtarovi and Fumaria rostellata but are probably exports and not anymore a part of the SOM collection. To avoid the wrong link, I removed SOM as institution code.
     • Status (23.10.2023): No occurrences currently associated with this collection.
  2. Mycological Collection, SOMF - lichens are in the process of digitisation

I added 12 more collections, all of which are on the DiSSCo website and thus should be in the process of digitisation:

3. Еx situ Collection of Living Plants

   • Is it really in the process of digitisation?

4. Reference Palynological collection of the IBER-BAS | Code: PB

5. Paleobotany | Code: PB

6. Fossil Mammals | Code: FMC

7. Entomological and Arachnological Collections | Code: INV

   • Update (23.10.2023): 3 specimens are already linked to the institution but not yet linked to the collection. A request for link in this post.

8. Aquatic Invertebrates: Еphemeroptera, Plecoptera, Heteroptera, Chironomidae | Code: INV

9. Aquatic Invertebrates: Oligochaeta | Code: INV

10. Nematological Collection | Code: INV

11. Malacological Collection | Code: INV

12. Helminthological Collection | Code: INV

13. Recent Mammals | Code: VER

14. Protozoological Collection | Code: INV

15. Cuticle collection | Code: PB - it is mentioned on the Department's website here but not listed as a separate collection on the DiSSCo-BG website. I assumed it has the same code as the Paleobotanical and Palynological collections.

[spalp]

• [ ] Re collection SOM: Ask about the status of 2 of the published records: Sesleria achtarovi and Fumaria rostellata
• [ ] Ask the curators to check the updated information in GRSciColl

[spalp]

Link to the Entomological and Arachnological Collections | Code: INV (https://scientific-collections.gbif.org/collection/56d07a8b-e5be-45f2-80b3-f73254e92cd4) the following observations (Note: they already linked to the institution but not to the collection):

• [x] 2 occurrences from the Ants of Bulgaria dataset: https://www.gbif.org/occurrence/search?basis_of_record=PRESERVED_SPECIMEN&collection_code=Toshko%20Ljubomirov&institution_code=iber-bas
• [x] 1 occurrences from the Ants of Bulgaria dataset: https://www.gbif.org/occurrence/search?basis_of_record=PRESERVED_SPECIMEN&collection_code=Vera%20Antonova&dataset_key=e08de352-9383-48b0-88ae-be15cce386c5&institution_code=iber-bas

Update (23.10.2023): Just added 'Toshko Ljubomirov' and 'Vera Antonova' as alternative collection codes to the Entomological and Arachnological Collections | Code: INV. Perhaps it will link them in the coming days.

Update (17.11.2023): The owner of the Ants of Bulgaria dataset requested to delete it from GBIF.

[spalp]

Linking occurrences to the Institution

Code = IBER-BAS (main code)

Step 1: Check - are there any datasets in GBIF using this institution code? If yes, do all of them contain occurrences from this institution?

https://www.gbif.org/occurrence/charts?basis_of_record=MATERIAL_SAMPLE&basis_of_record=MATERIAL_CITATION&basis_of_record=PRESERVED_SPECIMEN&basis_of_record=FOSSIL_SPECIMEN&basis_of_record=LIVING_SPECIMEN&institution_code=iber-bas Custom: Show Dataset per Basis of record

Result: Last check (18.11.2023): 0 occurrence.

Code = IBER (alternative code)

Step 1: Check - are there any datasets in GBIF using this institution code? If yes, do all of them contain occurrences from this institution?

https://www.gbif.org/occurrence/charts?basis_of_record=MATERIAL_SAMPLE&basis_of_record=MATERIAL_CITATION&basis_of_record=PRESERVED_SPECIMEN&basis_of_record=FOSSIL_SPECIMEN&basis_of_record=LIVING_SPECIMEN&institution_code=iber Custom: Show Dataset per Basis of record

Result: 5 datasets, two of which are from the institution.

Step 2: Is manual mapping needed?

https://api.gbif.org/v1/grscicoll/lookup?institutionCode=IBER

Yes, because the institution code is used by another institution.

Step 3: Manual mapping of occurrences that belong to this institution

NOTE: It is a good idea to list all datasets here but mark those that are not from this institution.

The following 5 occurrences were linked to the institution IBER-BAS using the OccurrenceMapping API and institutionCode= IBER: https://api.gbif.org/v1/grscicoll/institution/241f1116-604b-4815-a615-5375ba9fc9ef

• [x] 1. 4 occurrences from The mostly cavernicolous millipede genus Stygiiulus Verhoeff, 1929, stat. nov.: taxonomy, distribution and phylogenetic relationships (Diplopoda, Julida, Julidae): https://www.gbif.org/occurrence/search?dataset_key=31fec661-5dac-4626-856d-4ba4680efee7&institution_code=iber&advanced=1

2. New taxa and notes on crickets of the subfamily Landrevinae (Orthoptera: Gryllidae) from Brunei Darussalam, Borneo - DO NOT MAP
3. A new species of Tapiena (Orthoptera: Tettigonioidea: Phaneropterinae) from Brunei Darussalam (Borneo, Southeast Asia) - DO NOT MAP

• [x] 4. 1 occurrences from Rhodopotyphlus mitovi gen. et sp. nov., a new endogean millipede from the Western Rhodope Mountains, Bulgaria (Diplopoda: Julida: Julidae): https://www.gbif.org/occurrence/search?dataset_key=60bd5746-f0cc-4a32-9cfd-a3c76e4f2b72&institution_code=iber&advanced=1

5. New taxa and notes of katydids from the tribe Meconematini (Orthoptera: Meconematinae) from Brunei Darussalam (Part 2) - DO NOT MAP

Code = SOM (not used as a code because it links occurrences from other institutions)

Step 1: Check - are there any datasets in GBIF using this institution code? If yes, do all of them contain occurrences from this institution?

https://www.gbif.org/occurrence/charts?basis_of_record=MATERIAL_SAMPLE&basis_of_record=MATERIAL_CITATION&basis_of_record=PRESERVED_SPECIMEN&basis_of_record=FOSSIL_SPECIMEN&basis_of_record=LIVING_SPECIMEN&institution_code=SOM Custom: Show Dataset per Basis of record

Result: 3 datasets, none of which are from the institution.

Step 2: Manual mapping of occurrences that belong to this institution

NOTE: It is a good idea to list all datasets here but mark with DO NOT MAP those that are not from this institution.

The following 2 occurrences were linked to the institution IBER-BAS using the OccurrenceMapping API and institutionCode= SOM: https://api.gbif.org/v1/grscicoll/institution/241f1116-604b-4815-a615-5375ba9fc9ef

• [x] 1. Instituto de Botánica Darwinion - DO NOT MAP
• [x] 2. [Tropicos Specimens Non-MO:_ https://www.gbif.org/occurrence/search?dataset_key=e053ff53-c156-4e2e-b9b5-4462e9625424&institution_code=SOM] - DO NOT MAP: Only two of the 8 occ. are from Bulgaria Sesleria achtarovi and Fumaria rostellata but are probably exports and not anymore a part of the SOM collection.
• [x] 3. 2 occurrences from the dataset: A hotspot of endemism: Oreophytic Taraxacum species (Compositae, Crepidinae) in the mountains of Bulgaria: https://www.gbif.org/occurrence/search?dataset_key=f8f7b3a8-119f-438c-95d6-5d701a007727&institution_code=SOM

Code = SOMF (alternative code, the code of the mycological herbarium)

Step 1: Check - are there any datasets in GBIF using this institution code? If yes, do all of them contain occurrences from this institution?

https://www.gbif.org/occurrence/charts?institution_code=SOMF Custom: Show Dataset per Basis of record

Result: 2 datasets, all of which are from the institution. And also to the collection, but not collection code is provided.

Step 2: Manual mapping of occurrences that belong to this institution

NOTE: It is a good idea to list all datasets here but mark with DO NOT MAP those that are not from this institution.

The following 5 occurrences (Material sample) were linked to the institution IBER-BAS using the OccurrenceMapping API and institutionCode= SOMF: https://api.gbif.org/v1/grscicoll/institution/241f1116-604b-4815-a615-5375ba9fc9ef

• [x] 1. 3 occurrences from the dataset Fungal Internal Transcribed Spacer RNA (ITS) RefSeq Targeted Loci Project: https://www.gbif.org/occurrence/taxonomy?institution_code=SOMF&dataset_key=9baace02-10fe-4972-b3ec-2cb647c55194
• [x] 2. 2 occurrences from the Fungal 28S Ribosomal RNA (LSU) RefSeq Targeted Loci Project: https://www.gbif.org/occurrence/search?dataset_key=bf3f09bd-3af6-45be-a2c4-bd5c285cab8a&institution_code=SOMF

[spalp]

Linking occurrences to Collections

Collection code = IBER-BAS (i.e. the same as the Institution code)

Step 1: Are there any occurrences in GBIF using the institution code as a collection code? If yes, are these occurrences from a single collection or many collections within the same or different institutions (pay attention to the taxonomy)?

Query: https://www.gbif.org/occurrence/charts?basis_of_record=MATERIAL_SAMPLE&basis_of_record=MATERIAL_CITATION&basis_of_record=PRESERVED_SPECIMEN&basis_of_record=FOSSIL_SPECIMEN&basis_of_record=LIVING_SPECIMEN&collection_code=IBER-BAS NOTE: Better use the chart view, otherwise only the first 10 datasets are visible in the filter menu.

Result: 0 occurrences.

Collection code = IBER (i.e. the same as one of the alternative institution codes)

Step 1: Are there any occurrences in GBIF using the institution code as a collection code? If yes, are these occurrences from a single collection or many collections within the same or different institutions (pay attention to the taxonomy)?

https://www.gbif.org/occurrence/charts?basis_of_record=MATERIAL_SAMPLE&basis_of_record=MATERIAL_CITATION&basis_of_record=PRESERVED_SPECIMEN&basis_of_record=FOSSIL_SPECIMEN&basis_of_record=LIVING_SPECIMEN&collection_code=IBER NOTE: Better use the chart view, otherwise only the first 10 datasets are visible in the filter menu.

Result: 17 occurrences (2023) Results: 5 occurrences (01.02.2024) - this reduction in number happened because some Plazi dataset were accidentally deleted (https://github.com/plazi/community/issues/267). When they were put back, they used institutionCode instead of collectionCode.

Step 2: Will all occurrences using this code be automatically mapped to an existing GRSciColl collection? If, yes, does the collection match the correct one?

https://api.gbif.org/v1/grscicoll/lookup?collectionCode=IBER Results (19.11.2023): The collection matched a herbarium at Universiti Brunei Darussalam. Occurrences should be mapped manually.

Step 3: Manual mapping to individual collections

• [x] 1. Link to the Millipede collection: http://api.gbif.org/v1/grscicoll/collection/4d653685-c120-475d-a826-2d61520dae43 9 occurrences from New records of millipedes and centipedes from Bulgaria, with an annotated checklist of the Bulgarian myriapods: https://www.gbif.org/occurrence/charts?collection_code=IBER&dataset_key=e542d309-1af6-465f-816b-3ef3e62a526e
• [x] 2. Morphological and molecular review of the Gekko diversity of Laos with descriptions of three new species --> DO NOT MAP
• [x] 3. Link to the Entomological and Arachnological Collections: http://api.gbif.org/v1/grscicoll/collection/collection/56d07a8b-e5be-45f2-80b3-f73254e92cd4 2 occurrences from the dataset Description of Titanoeca deltshevi sp. n. from Bulgaria with faunistic notes on related species in the Balkans (Araneae, Titanoecidae): https://www.gbif.org/occurrence/search?collection_code=IBER&dataset_key=91a51391-41b1-4184-bb62-6cd3bbbfdd74
• [x] 4. First Velarifictorus (Orthoptera: Gryllidae, Gryllinae) cricket described from Borneo (Southeast Asia) and notes on a co-occurring congener --> DO NOT MAP
• [x] 5. Taxonomic review of Stictophaula (Orthoptera: Phaneropterinae) with the description of one new species from Brunei Darussalam --> DO NOT MAP
• [x] 6. Link to the Entomological and Arachnological Collections 1 occurrences from the datasets New Faunistic And Taxonomic Notes On The Haplogyne And Cribellate Spiders (Araneae: Dictynidae, Dysderidae, Eresidae, Filistatidae, Sicariidae) From Three Balkan Countries: https://www.gbif.org/occurrence/search?collection_code=IBER&dataset_key=50e48d61-aaca-4af9-9ef3-d2104aba3b8b

Collection code = SOM (Herbarium SOM)

Step 1: Are there any occurrences in GBIF using the herbarium code as a collection code? If yes, are these occurrences from a single collection or many collections within the same or different institutions (pay attention to the taxonomy)?

https://www.gbif.org/occurrence/charts?basis_of_record=MATERIAL_SAMPLE&basis_of_record=MATERIAL_CITATION&basis_of_record=PRESERVED_SPECIMEN&basis_of_record=FOSSIL_SPECIMEN&basis_of_record=LIVING_SPECIMEN&collection_code=SOM NOTE: Better use the chart view, otherwise only the first 10 datasets are visible in the filter menu.

Result: 1 occurrence to be linked to Herbarium SOM.

Step 2: Are all occurrences using this code going to be automatically mapped to an existing GRSciColl collection? If, yes, is the matched collection the correct one?

https://api.gbif.org/v1/grscicoll/lookup?collectionCode=SOM Results (19.11.2023): The code matches the correct collection. No need for manual mapping.

Collection code = SOMF (Herbarium SOMF)

Step 1: Are there any occurrences in GBIF using the herbarium code as a collection code? If yes, are these occurrences from a single collection or many collections within the same or different institutions (pay attention to the taxonomy)?

https://www.gbif.org/occurrence/charts?basis_of_record=MATERIAL_SAMPLE&basis_of_record=MATERIAL_CITATION&basis_of_record=PRESERVED_SPECIMEN&basis_of_record=FOSSIL_SPECIMEN&basis_of_record=LIVING_SPECIMEN&collection_code=SOMF NOTE: Better use the chart view, otherwise only the first 10 datasets are visible in the filter menu.

Result (20.11.2023): 0 occurrence to be linked to Herbarium SOM.

Step 2: Are all occurrences using this code going to be automatically mapped to an existing GRSciColl collection? If, yes, is the matched collection the correct one?

https://api.gbif.org/v1/grscicoll/lookup?collectionCode=SOMF Results (20.11.2023): The code matches the correct collection. No need for manual mapping.

[spalp]

Link occurrences to collections by parent code

SOMF

Mycological collection (SOMF)

http://api.gbif.org/v1/grscicoll/collection/514ab348-f935-4e54-8b94-a9b9b85e67d7

• [x] 3 occurrences from the dataset Fungal Internal Transcribed Spacer RNA (ITS) RefSeq Targeted Loci Project: https://www.gbif.org/occurrence/charts?dataset_key=9baace02-10fe-4972-b3ec-2cb647c55194&institution_code=SOMF
• [x] 2 occurrences from the Fungal 28S Ribosomal RNA (LSU) RefSeq Targeted Loci Project: https://www.gbif.org/occurrence/search?dataset_key=bf3f09bd-3af6-45be-a2c4-bd5c285cab8a&institution_code=SOMF

NOTE: The above 5 occurrences are not linked. Any idea why? @ManonGros

[spalp]

Link occurrence by parent code (2 of 3)

Code: IBER

https://www.gbif.org/occurrence/charts?basis_of_record=MATERIAL_SAMPLE&basis_of_record=MATERIAL_CITATION&basis_of_record=PRESERVED_SPECIMEN&basis_of_record=FOSSIL_SPECIMEN&basis_of_record=LIVING_SPECIMEN&institution_code=iber

Result: 26 occurrences (02.02.2024)

Millipede collection

http://api.gbif.org/v1/grscicoll/collection/4d653685-c120-475d-a826-2d61520dae43

• [x] 9 occurrences from New records of millipedes and centipedes from Bulgaria, with an annotated checklist of the Bulgarian myriapods: https://www.gbif.org/occurrence/charts?institution_code=iber&dataset_key=e542d309-1af6-465f-816b-3ef3e62a526e
• [x] 4 occurrences from The mostly cavernicolous millipede genus Stygiiulus Verhoeff, 1929, stat. nov.: taxonomy, distribution and phylogenetic relationships (Diplopoda, Julida, Julidae): https://www.gbif.org/occurrence/charts?dataset_key=31fec661-5dac-4626-856d-4ba4680efee7&institution_code=iber

[spalp]

Entomological and Arachnological Collections

http://api.gbif.org/v1/grscicoll/collection/56d07a8b-e5be-45f2-80b3-f73254e92cd4

• [x] 6 occurrences from the dataset "Description of Titanoeca deltshevi sp. n. from Bulgaria with faunistic notes on related species in the Balkans (Araneae, Titanoecidae)": https://www.gbif.org/occurrence/search?institution_code=iber&dataset_key=91a51391-41b1-4184-bb62-6cd3bbbfdd74
• [x] 3 occurrences from "New taxa and notes on crickets of the subfamily Landrevinae (Orthoptera: Gryllidae) from Brunei Darussalam, Borneo": https://www.gbif.org/occurrence/charts?dataset_key=8718a968-18bd-49fa-aaa9-d8b56f49baa7&institution_code=iber
• [x] 1 occurrence from "Catamicrophyllum beroni sp. nov. - the first European record of the genus Catamicrophyllum Verhoeff, 1901 (Diplopoda: Julida: Julidae)": https://www.gbif.org/occurrence/charts?dataset_key=41e4f06d-7dd0-4ef1-8e26-bcaeaaac28bf&institution_code=iber
• [x] 1 occurrence from "Rhodopotyphlus mitovi gen. et sp. nov., a new endogean millipede from the Western Rhodope Mountains, Bulgaria (Diplopoda: Julida: Julidae)": https://www.gbif.org/occurrence/charts?dataset_key=60bd5746-f0cc-4a32-9cfd-a3c76e4f2b72&institution_code=iber
• [x] 1 occurrences from the datasets "New Faunistic And Taxonomic Notes On The Haplogyne And Cribellate Spiders (Araneae: Dictynidae, Dysderidae, Eresidae, Filistatidae, Sicariidae) From Three Balkan Countries": https://www.gbif.org/occurrence/search?institution_code=iber&dataset_key=50e48d61-aaca-4af9-9ef3-d2104aba3b8b - 0 occurrences (02.02.2024)- reported

[spalp]

Added CITES Code as an identifier