globalbioticinteractions/carvalheiro2023

Configuration to help Global Biotic Interactions (GloBI, https://globalbioticinteractions.org) index:

Luísa Carvalheiro, José Augusto Salim, Filipi Soares, Debora Drucker. 2023. WorldFAIR pilot data from: VisitationData_Luisa_Carvalheiro. https://docs.google.com/spreadsheets/d/1cJ0qX9ppqHoSyqFykwYJef-DFOzoutthBXjwKRY81T8

Derived from Carvalheiro, LG; Barbosa, E.R.M. & Memmott, J. 2008. Pollinator networks, alien species and the conservation of rare plants: Trinia glauca as a case study. Journal of Applied Ecology, 45,1419-1427. DOI: https://doi.org/10.1111/j.1365-2664.2008.01518.x .

Provenance

The provenance (or origin) of the associated (meta-) data can be cited using:

Luisa Carvalheiro, José Augusto Salim, Filipi Soares, Debora Drucker. 2023. WorldFAIR pilot data from: VisitationData_Luisa_Carvalheiro. https://docs.google.com/spreadsheets/d/1cJ0qX9ppqHoSyqFykwYJef-DFOzoutthBXjwKRY81T8 hash://md5/048875415b7cc9fb27f1189a8a946ff5 hash://sha256/dec6efdd95fd64d5c38480e0db0dfa329c94e8e0fc0736f0769cafb470fd13ce

Verification

The integrity and completeness of the data provenance and their associated contents can be verified using:

preston verify\
 --algo md5\
 --anchor hash://md5/048875415b7cc9fb27f1189a8a946ff5\
 --remote https://linker.bio,https://zenodo.org

preston verify\
 --algo sha256\
 --anchor hash://sha256/dec6efdd95fd64d5c38480e0db0dfa329c94e8e0fc0736f0769cafb470fd13ce\
 --remote https://linker.bio,https://zenodo.org,https://softwareheritage.org

Provenance for Humans

As described in Carvalheiro et al. 2008, a field study of flower visitions was done in period 2005/2006. In 2022, Luísa G. Carvalheiro (i.e., https://orcid.org/0000-0001-7655-979X) shared the file VisitationData_Luisa_Carvalheiro.xlsx (hash://md5/a2b31050b50d9e213ed62873f17c6e8e hash://sha256/0fde4fcb4090b75a84b6057f4bbbda6c0053ce3278ef4efc6a53a8241032534b) containing the associated field observation records with José Augusto Salim (i.e., https://orcid.org/0000-0002-8675-7068). José Augusto Salim used information from Carvalheiro et al. 2008 and VisitationData_Luisa_Carvalheiro.xlsx to populate a metadata table and a interaction record table using the REBIPP data template (Salim et al. 2022). This data was made available though Google Sheets via https://docs.google.com/spreadsheets/d/1cJ0qX9ppqHoSyqFykwYJef-DFOzoutthBXjwKRY81T8 . In addition, José Augusto Salim used the metadata table from https://docs.google.com/spreadsheets/d/1cJ0qX9ppqHoSyqFykwYJef-DFOzoutthBXjwKRY81T8 to create the eml.xml with a reference to the tab-separated values version of the interaction record table in the REBIPP template. Following, Jorrit Poelen https://orcid.org/0000-0003-3138-4118, updated the eml.xml to include table definition for the interaction record table. The eml.xml was published, along with a README.md, in a GitHub repository at https://github.com/globalbioticinteractions/carvalheiro2023. Subsequently, GloBI indexes the interaction records used by Carvalheiro et al. 2008 through the information provided in the eml.xml. With this, the Carvalheiro flower visitation records are available through the various GloBI services, including, but not limited to: periodic data review, interaction web search and inclusion in GloBI data products in various formats (e.g., tab-separated values, comma-separated values, Resource Definition Format).

Provenance for Machines

Provenance expressed in streamable application/n-triples format:

## field observations and their association with Carvalheiro et al. 2008
<https://raw.githubusercontent.com/globalbioticinteractions/carvalheiro2023/main/VisitationData_Luisa_Carvalheiro.xlsx> <http://purl.org/pav/hasVersion> <hash://md5/a2b31050b50d9e213ed62873f17c6e8e> .
<hash://md5/a2b31050b50d9e213ed62873f17c6e8e> <http://purl.org/dc/elements/1.1/format> "application/vnd.openxmlformats-officedocument.spreadsheetml.sheet" .
<hash://md5/a2b31050b50d9e213ed62873f17c6e8e> <https://www.w3.org/2002/07/owl#sameAs> <hash://sha256/0fde4fcb4090b75a84b6057f4bbbda6c0053ce3278ef4efc6a53a8241032534b> .
<https://orcid.org/0000-0001-7655-979X> <http://xmlns.com/foaf/0.1/name> "Luísa G. Carvalheiro" .
<hash://md5/a2b31050b50d9e213ed62873f17c6e8e> <http://purl.org/pav/authoredBy> <https://orcid.org/0000-0001-7655-979X> .
<https://doi.org/10.1111/j.1365-2664.2008.01518.x> <http://purl.org/pav/authoredBy> <https://orcid.org/0000-0001-7655-979X> .
<https://doi.org/10.1111/j.1365-2664.2008.01518.x> <prov:wasInfluencedBy> <hash://md5/a2b31050b50d9e213ed62873f17c6e8e> .
<https://doi.org/10.1111/j.1365-2664.2008.01518.x> <http://purl.org/dc/terms/bibliographicCitation> "Carvalheiro, LG; Barbosa, E.R.M. & Memmott, J. 2008. Pollinator networks, alien species and the conservation of rare plants: Trinia glauca as a case study. Journal of Applied Ecology, 45,1419-1427. DOI: https://doi.org/10.1111/j.1365-2664.2008.01518.x" .

## field observations in REBIPP template were derived from original field data provided.
<https://orcid.org/0000-0002-8675-7068> <http://xmlns.com/foaf/0.1/name> "José Augusto Salim" .
<https://docs.google.com/spreadsheets/d/1cJ0qX9ppqHoSyqFykwYJef-DFOzoutthBXjwKRY81T8> <http://purl.org/pav/authoredBy> <https://orcid.org/0000-0002-8675-7068> .
<https://docs.google.com/spreadsheets/d/1cJ0qX9ppqHoSyqFykwYJef-DFOzoutthBXjwKRY81T8> <http://purl.org/dc/terms/description> "VisitationData_Luisa_Carvalheiro - Template REBIPP Official" .
<https://docs.google.com/spreadsheets/d/1cJ0qX9ppqHoSyqFykwYJef-DFOzoutthBXjwKRY81T8> <http://www.w3.org/ns/prov#hadMember> <https://docs.google.com/spreadsheets/u/1/d/1cJ0qX9ppqHoSyqFykwYJef-DFOzoutthBXjwKRY81T8/export?format=tsv&gid=776329546> .
<https://docs.google.com/spreadsheets/u/1/d/1cJ0qX9ppqHoSyqFykwYJef-DFOzoutthBXjwKRY81T8/export?format=tsv&gid=776329546> <http://purl.org/pav/hasVersion> <hash://md5/c358eabd4b6921597f1bb3c73e6f5a8c> .
<hash://md5/c358eabd4b6921597f1bb3c73e6f5a8c> <http://www.w3.org/ns/prov#wasDerivedFrom> <hash://md5/a2b31050b50d9e213ed62873f17c6e8e> .
<hash://md5/c358eabd4b6921597f1bb3c73e6f5a8c> <http://purl.org/dc/elements/1.1/format> "text/tab-separated-values" .
<hash://md5/c358eabd4b6921597f1bb3c73e6f5a8c> <https://www.w3.org/2002/07/owl#sameAs> <hash://sha256/4d20e242ebfa3a09cafeb3f9a523b6d669b82d8a8ff9f5df63f53ea3fb220a6a> .

## metadata in REBIPP template was derived from Carvalheiro et al. 2008 publication

<https://docs.google.com/spreadsheets/d/1cJ0qX9ppqHoSyqFykwYJef-DFOzoutthBXjwKRY81T8> <http://www.w3.org/ns/prov#hadMember> <https://docs.google.com/spreadsheets/u/1/d/1cJ0qX9ppqHoSyqFykwYJef-DFOzoutthBXjwKRY81T8/export?format=tsv&gid=359918449> .

<https://docs.google.com/spreadsheets/u/1/d/1cJ0qX9ppqHoSyqFykwYJef-DFOzoutthBXjwKRY81T8/export?format=tsv&gid=359918449> <http://purl.org/pav/hasVersion> <hash://md5/cf41a46b0c42100413506bf4132a1ac0> .
<hash://md5/cf41a46b0c42100413506bf4132a1ac0> <http://purl.org/dc/elements/1.1/format> "text/tab-separated-values" .

<hash://md5/cf41a46b0c42100413506bf4132a1ac0> <https://www.w3.org/2002/07/owl#sameAs> <hash://sha256/149b9657bc2c7c549bc29e1e08d9f7e5f56b1c85dc9e2f2e18589a9a6043a4ff> .

<https://doi.org/10.1111/j.1365-2664.2008.01518.x> <http://purl.org/pav/hasVersion> <hash://md5/b9c93efe3e897b19dfc2f8f5f2bce43f> .
<hash://md5/b9c93efe3e897b19dfc2f8f5f2bce43f> <http://purl.org/dc/elements/1.1/format> "application/pdf" .
<hash://md5/b9c93efe3e897b19dfc2f8f5f2bce43f> <https://www.w3.org/2002/07/owl#sameAs> <hash://sha256/b83cacd5899d0714d6370186f77ae0c72cab8b4388d62c3ababd599eed8b5362> .

<hash://md5/cf41a46b0c42100413506bf4132a1ac0> <http://www.w3.org/ns/prov#wasDerivedFrom> <hash://md5/b9c93efe3e897b19dfc2f8f5f2bce43f> .

## eml.xml was derived from the REBIPP metadata

<https://raw.githubusercontent.com/globalbioticinteractions/carvalheiro2023/main/eml.xml> <http://purl.org/pav/hasVersion> <hash://md5/644e726d2cd6ea9e926e9e2f50e172d8> .
<hash://md5/644e726d2cd6ea9e926e9e2f50e172d8> <https://www.w3.org/2002/07/owl#sameAs> <hash://sha256/a06bfd7d29589f51f3ec300039629e4813ca23a1caa413f49de94e74760f6914> .
<hash://md5/644e726d2cd6ea9e926e9e2f50e172d8> <http://www.w3.org/ns/prov#wasDerivedFrom> <hash://md5/cf41a46b0c42100413506bf4132a1ac0> .

<hash://md5/644e726d2cd6ea9e926e9e2f50e172d8> <http://purl.org/pav/authoredBy> <https://orcid.org/0000-0002-8675-7068> .
<https://orcid.org/0000-0003-3138-4118> <http://xmlns.com/foaf/0.1/name> "Jorrit H. Poelen" .
<hash://md5/644e726d2cd6ea9e926e9e2f50e172d8> <http://purl.org/pav/contributedBy> <https://orcid.org/0000-0003-3138-4118> .

Packaging

Preston (Elliott et al. 2020,2023) was used to package and sign the data provenance in both md5 and sha256 hash spaces.

md5

cat README.md | preston append --algo md5 cat VisitationData_Luisa_Carvalheiro.xlsx | preston track --algo md5 cat Carvalheiro2008.pdf | preston track --algo md5 cat VisitationData_Luisa_Carvalheiro-metadata-REBIPP.tsv | preston track --algo md5 cat VisitationData_Luisa_Carvalheiro-REBIPP.tsv | preston track --algo md5 cat eml.xml | preston track --algo md5 preston verify --algo md5

sha256

cat README.md | preston append --algo sha256 cat VisitationData_Luisa_Carvalheiro.xlsx | preston track --algo sha256 cat Carvalheiro2008.pdf | preston track --algo sha256 cat VisitationData_Luisa_Carvalheiro-metadata-REBIPP.tsv | preston track --algo sha256 cat VisitationData_Luisa_Carvalheiro-REBIPP.tsv | preston track --algo sha256 cat eml.xml | preston track --algo sha256 preston verify --algo sha256

References

Carvalheiro, LG; Barbosa, E.R.M. & Memmott, J. 2008. Pollinator networks, alien species and the conservation of rare plants: Trinia glauca as a case study. Journal of Applied Ecology, 45,1419-1427. DOI: https://doi.org/10.1111/j.1365-2664.2008.01518.x

Salim J.A. et al. (2022). Data standardization of plant–pollinator interactions, GigaScience, Volume 11, giac043, https://doi.org/10.1093/gigascience/giac043

Elliott M.J., Poelen J.H., Fortes J.A.B. (2020). Toward Reliable Biodiversity Dataset References. Ecological Informatics. https://doi.org/10.1016/j.ecoinf.2020.101132 hash://sha256/136c3c1808bcf463bb04b11622bb2e7b5fba28f5be1fc258c5ea55b3b84f482c

Elliott M.J., Poelen, J.H. & Fortes, J.A.B. (2023) Signing data citations enables data verification and citation persistence. Sci Data. https://doi.org/10.1038/s41597-023-02230-y hash://sha256/f849c870565f608899f183ca261365dce9c9f1c5441b1c779e0db49df9c2a19d