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gbif-norway / helpdesk

Please submit your helpdesk request here (or send an email to helpdesk@gbif.no). We will also use this repo for documentation of node helpdesk cases.
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Standards for tissue samples/material samples - polar institute #145

Open rukayaj opened 1 year ago

rukayaj commented 1 year ago

I wonder if there are any standards for tissue samples/matrix that can be used in Darwin Core? E.g. we have biologists who go out into the field and take samples of fauna, e.g. whole animals, feathers, whole blood, plasma, hair from fur, etc. But we have not found a standardized list of these, we have to catalog them with internal designations. Wondering if this exists and if there is a standard way to associate this with events? I see that occurrence has a preparation field, but in our case it fits best with event, while occurrence will typically be a lab result of e.g. stable isotopes, analytes of environmental toxins, lipids, plastics etc. I found this thread on GBIF https://discourse.gbif.org/t/use-case-find-tissue-samples/3302/2

We have some notes on how the DNA bank publishes here: https://github.com/gbif-norway/helpdesk/wiki/DNA-data-protocol

Should we suggest that they publish events and materialSamples/occurrences separately and use organismID to connect them?

We also have biologists who work with plastic as an environmental poison both in fauna but also in soil, snow, water and air. Do these fit into Darwin Core or are there other standards that would be more natural? Does GBIF have many events that deal with samples from other than living things?

Could suggest measurementOrFact for this?

vidarbakken commented 1 year ago

I have had a dialogue with Siri concerning the publication of the DNA datasets they have. I explained how the DNA data from Corema was published with a materialSampleID. No final decisions are made, and we will continue the process when we see the actual datasets.

Plastic found in species can be handled as measurementsorfarcts, but plastic without any fauna/flora connection is not suitable for GBIF publications (as far as I know).