Overview

Teaching: 30 min
Exercises: 0 min

Questions

• What datasets can I look to as examples of how to format and publish my data?

Objectives

• Review available examples

Datasets From Course

Enriched Occurrence (Preserved Specimen + DNA extension)

• Dataset Link: https://www.gbif.org/dataset/02cc981e-d1d8-4ea6-9db5-dfb73acca024

• Example Occurrence: https://www.gbif.org/occurrence/1423744013

Exploring marine biodiversity with 16S + 18S

• Dataset Link: https://www.gbif.org/dataset/9012def0-bd87-48a0-ac9e-e0e78dd37689

• Example Occurrence: https://www.gbif.org/occurrence/444507210

COI eDNA of intertidal zone

• Dataset Link: https://www.gbif.org/dataset/9358fbd7-cfd0-4eab-99fa-0934396a0529

• Example Occurrence: https://www.gbif.org/occurrence/4537370216

qPCR + metabarcoding of invasive species

• Dataset Link: https://www.gbif.org/dataset/b88e40a8-c39e-4f8f-962a-7f6d93a977a4

• Example Occurrence: https://www.gbif.org/occurrence/4406079323

NEON DNA Extracts

• Dataset Link: https://www.gbif.org/dataset/66da3373-5cca-4d00-a477-af751b5ed052

• Example Occurrence: https://www.gbif.org/occurrence/4951988498

Bonus Examples!

• GitHub repo: https://github.com/iobis/mwhs-data-mobilization

*Chandra Earl mobilized about 50 datasets for OBIS using R. The individual R notebooks can be explored here: https://iobis.github.io/mwhs-data-mobilization/. The related paper is:

Lien Reyserhove, Peter Desmet, Damiano Oldoni, Tim Adriaens, Diederik Strubbe, Amy J S Davis, Sonia Vanderhoeven, Filip Verloove, Quentin Groom, A checklist recipe: making species data open and FAIR, Database, Volume 2020, 2020, baaa084, https://doi.org/10.1093/database/baaa084

Key Points

• There are many varieties of DNA derived data that can be published to GBIF