TETTRIs - User contributions [en]

Metadata for "local lists"

2025-07-10T13:06:06Z

AntonGuentsch:

Categorising the taxonomic or taxonomy-related sets of data may serve to work out specific aspects of the potential relationships between the different categories. Furthermore, such categories help in the definition of use cases and audiences for the documented services.

Criteria could include
* Purpose, e.g. Aggregation of taxonomic knowledge; Support for species conservation; Used properties (medicinal, wood, ...), Governance and law (EU-Directives, CITES, ...)
* Geographic scope: Local, State, National, Regional, Global
* Taxonomic scope: Revision-scale (Genus, small family); Large group (Plants, Butterflies, Mammals, Birds, ...); All organisms
* Taxonomic in-house expertise of the operators (related to the taxonomic scope)
** Rather little: Usage of taxon names in factual datasets; Special purpose checklists (e.g. CITES etc.); General aggregators (CoL, EoL)
** Rather much: Taxonomic revision with checklist; Taxonomic Expert Network as aggregator; Community-driven aggregator (e.g. in Botany s.l.: WFO; Euro+Med, AlgaeBase; Mycobank/Index Fungorum)
* Technical in-house expertise of the operators
* Community scope (broadly anchored and used dataset/database ... individual contribution)

Metadata in ChecklistBank (see [https://www.gbif.org/data-quality-requirements-checklists Data quality requirements: Checklist datasets)] do not cover these aspects in detail, the 3 first bullets can be covered by the Description text field.

Workpackage 2

2025-01-15T08:19:50Z

AntonGuentsch: /* Project milestones: */

== [https://tettris.eu/ TETTRIs] Workpackage 2: "Connecting local and European taxonomies" ==

TETTRIs' task 2.2 responsible for the wiki started in 2023. We will gradually incorporate project results as they become available.

=== Our mission (project deliverables): ===
'''"Functional workflow for mapping local taxonomies established and documented" (Task 2.2)'''

This is to document and enhance the mapping of local taxon lists (or scientific data holdings containing lists of taxon names) to global and European aggregators of scientific names and taxa. Local lists are here understood to range from spreadsheets maintained by individual researchers to large databases containing taxonomic checklists for countries or entire regions of the world (e.g. the European plant checklist Euro+Med PlantBase). Scientific names are used to document multiple kinds of properties of organisms, the mapping process serves to unite this information while at the same time ensuring that '''[[potential caveats]]''' in the direct linking of names (and their synonyms) can be identified. The initial step in that process is matching the local name with the names in the aggregated lists. 
So why would the administrators of local lists want to relate their name data to global or regional aggregators, for example to [https://www.catalogueoflife.org/ Catalogue of Life], [https://wfoplantlist.org/plant-list/ World Flora Online Plant List] or
[https://www.eu-nomen.eu/portal/ EU-Nomen]? We are collecting such '''[[use cases for name matching]]''' and from that we are proposing [[Aggregator_services_wish_list|mechanisms to improve name matching and other services]] provided by the target aggregator systems. For end-users, we strive to document [[End-user workflows for name matching|recipe-like workflows]] covering different use cases.
 
This task will also be supported by two [https://tettris.eu/3pp/ 3PP third party projects (3PP)] funded by TETTRIs that address TETTRIs Topic 2: "Improving access to local taxon lists and taxon-related scientific data through pragmatic name-mapping workflows": [https://tettris.eu/3rd-party-projects/isedge/ iSedge] and particularly [https://tettris.eu/3rd-party-projects/test-2/ Taxonomic Name Linking Services - TNLS].

Discussion: [[Metadata for "local lists"]] and categorisation of [[global or regional aggregators]]

'''"Functional optimised EU Nomen processes and services up and running" (Task 2.1)'''

[https://www.eu-nomen.eu/portal/ EU-Nomen] is the first all-taxa inventory for European species, initially assembled by the EU-funded PESI project (Pan European Species Inventory Infrastructure). EU-Nomen is an aggregated data set allowing queries and name matching via the Internet. The central database is hosted and web access maintained by the [https://www.vliz.be/nl Vlaams Instituut voor de Zee (VLIZ)]. The content consists of several largely complementary European taxonomic datasets, each of which is maintained by a specialised taxonomic community: Fungi from [https://www.indexfungorum.org/ Index Fungorum] / [https://www.speciesfungorum.org/ Species Fungorum], Marine organisms from the [https://www.marbef.org/data/erms.php European Register of Marine Species] ERMS, Animals from [https://fauna-eu.org/ Fauna Europaea], and Plants from [https://europlusmed.org/ Euro+Med PlantBase]. Merging these datasets is the responsibility of the [https://www.bgbm.org/en/biodiversity-informatics Zentrum für Biodiversitätsinformatik und Sammlungsdatenintegration] (ZBS) in Berlin. TETTRIs will streamline the process of merging these datasets in order to enable regular updating of the EU-nomen services. It will foster the provision of globally unique identifiers provided by the source datasets. In collaboration with the [https://www.nhm-wien.ac.at/ Naturhistorisches Museum] in Vienna, special attention will also be given to common taxon names, as they are the key to data access by a broader public. 
This task will directly improve the data content of EU-Nomen (PESI), which is the principal European target for mapping taxon names.

=== Project milestones: ===
'''"MS4 Agreed strategy for mapping local taxonomies (31 May 2024)" (Task 2.2)''' [https://tettris.eu/wp-content/uploads/2024/07/TETTRIs-MS4-Agreed-strategy-for-mapping-local-taxonomies-.docx.pdf Download PDF]

Strategy for synchronising taxonomies agreed and documented

'''"MS3 Taxonomic Resolution Platform up and running (30 Nov 2024)" (Task 2.3)'''

Taxonomic Resolution Engine is available and linked to backbone services

Workpackage 2

2023-08-24T09:18:42Z

AntonGuentsch:

== [https://tettris.eu/ TETTRIs] Workpackage 2: "Connecting local and European taxonomies" ==

Please note that TETTRIs' task 2.2 responsible for the wiki has only recently started. We will gradually incorporate project results as they become available.

=== Our mission (project deliverables): ===
'''''"Functional workflow for mapping local taxonomies established and documented"'''''

This is to document and enhance the mapping of local taxon lists (or scientific data holdings containing lists of taxon names) to global and European aggregators of scientific names and taxa. Local lists are here understood to range from spreadsheets maintained by individual researchers to large databases containing taxonomic checklists for countries or entire regions of the world (e.g. the European plant checklist Euro+Med PlantBase). Scientific names are used to document multiple kinds of properties of organisms, the mapping process serves to unite this information while at the same time ensuring that '''[[potential caveats]]''' in the direct linking of names (and their synonyms) can be identified. The initial step in that process is matching the local name with the names in the global lists. 
So why would the administrators of local lists want to relate their name data to global aggregators, for example to [https://www.catalogueoflife.org/ Catalogue of Life], [https://wfoplantlist.org/plant-list/ World Flora Online Plant List] or
[https://www.eu-nomen.eu/portal/ EU-Nomen]? We are collecting such '''[[use cases for name matching]]''' and from that we are proposing mechanisms to improve name matching and other services provided by the target aggregator systems.
 
This task will also be supported by third party projects funded by TETTRIs' [https://tettris.eu/3pp/ 3PP call for project proposals], in particular those addressing TETTRIs Topic 2: "Improving access to local taxon lists and taxon-related scientific data through pragmatic name-mapping workflows".

'''''"Functional optimised EU Nomen processes and services up and running"'''''

[https://www.eu-nomen.eu/portal/ EU-Nomen] is the first all-taxa inventory for European species, initially assembled by the EU-funded PESI project (Pan European Species Inventory Infrastructure). EU-Nomen is an aggregated data set allowing queries and name matching via the Internet. The central database is hosted and web access maintained by the [https://www.vliz.be/nl Vlaams Instituut voor de Zee (VLIZ)]. The content consists of several largely complementary European taxonomic datasets, each of which is maintained by a specialised taxonomic community: Fungi from [https://www.indexfungorum.org/ Index Fungorum] / [https://www.speciesfungorum.org/ Species Fungorum], Marine organisms from the [https://www.marbef.org/data/erms.php European Register of Marine Species] ERMS, Animals from [https://fauna-eu.org/ Fauna Europaea], and Plants from [https://europlusmed.org/ Euro+Med PlantBase]. Merging these datasets is the responsibility of the [https://www.bgbm.org/en/biodiversity-informatics Zentrum für Biodiversitätsinformatik und Sammlungsdatenintegration] (ZBS) in Berlin. TETTRIs will streamline the process of merging these datasets in order to enable regular updating of the EU-nomen services. It will foster the provision of globally unique identifiers provided by the source datasets. In collaboration with the [https://www.nhm-wien.ac.at/ Naturhistorisches Museum] in Vienna, special attention will also be given to common taxon names, as they are the key to data access by a broader public. 
This task will directly improve the data content of EU-Nomen (PESI), which is the principal European target for mapping taxon names.