Dataset: Cleaned species occurrence data from 2005 to 2025 from GBIF as part of a workflow to assemble species and community temperature indices for Port Fourchon, LA in 2006, 2016, 2022 and 2023

Name: Cleaned species occurrence data from 2005 to 2025 from GBIF as part of a workflow to assemble species and community temperature indices for Port Fourchon, LA in 2006, 2016, 2022 and 2023
Published: 2026-01-08
Keywords: Louisiana, GBIF, Ranges, Climate Migration, oceans

ValidatedFinal no updates expectedDOI: 10.26008/1912/bco-dmo.991175.1Version 1 (2026-01-08)Dataset Type:SynthesisLicense:CC BY-NC-4.0

Principal Investigator: James Nelson (University of Georgia)

Student: Herbert Leavitt (University of Georgia)

Student: Alexander Thomas (University of Georgia)

BCO-DMO Data Manager: Amber D. York (Woods Hole Oceanographic Institution)

Project: CAREER: Integrating Seascapes and Energy Flow: learning and teaching about energy, biodiversity, and ecosystem function on the frontlines of climate change (Louisiana E-scapes)

Abstract

This dataset is part of a workflow to assemble species temperature indices and community temperature indices for estuarine fauna of Port Fourchon, LA based on drop sampling studies from 2006, 2016, and 2022/2023. This step assembles GBIF occurrence records for all taxa detected in the Port Fourchon nekton surveys, cleans spatial artifacts, and delivers per-taxon CSVs ready for thermal niche extraction. The workflow expands harmonized taxon names into GBIF queries, submits authenticated bulk down...

Spatial Extent: N:29.17 E:-90.16 S:29.09 W:-90.24
Temporal Extent: 2005 - 2025
Port Fourchon, Louisiana

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This is one of four datasets that were produced with the "Fourchon Nekton Turnover Workflow" (v1.0.0, doi: https://doi.org/10.5281/ZENODO.18165331). The datasets and supplemental data produced by this workflow have had minor modifications to enhance the interoperability of the data (See more in section "BCO-DMO Processing"). The workflow contains the exact formats of the data files produced and used by the workflow scripts. It also contains scripts, configurations, readme files, and input/output files for four stages listed below. Each workflow stage corresponds to a dataset in the "Related Datasets" section.

"Fourchon Nekton Turnover Workflow" steps with corresponding dataset IDs:

"1_raw_data" = includes raw drop-sampling data corresponding to BCO-DMO dataset 991168 (doi: 10.26008/1912/bco-dmo.991168.1)
"2_gbif_workflow" = includes GBIF species observation data corresponding to metadata in BCO-DMO dataset 991175 (doi: 10.26008/1912/bco-dmo.991175.1)
"3_CTI_calculations" = includes community temperature index (CTI) data corresponding to BCO-DMO dataset 941250 (doi: 10.26008/1912/bco-dmo.941250.1)
"4_species_of_interest" = includes the results of a species pool analysis identifying species of interest corresponding to BCO-DMO dataset 991182 (doi: 10.26008/1912/bco-dmo.991182.1)

The workflow release (v1.0.0) contains data and scripts used to run analyses and produce figures for publication Leavitt, H; Thomas, A; Doerr, J; Johnson, D; Nelson, J. (In press) Resilient Nekton Composition in the Face of Climate-Driven Foundation Species Shifts. Ecology. Accepted 2025-11-14

This dataset maintains the original source data licenses and rightsHolders specified at GBIF within the main dataset table 991175_v1_port-fourchon_cleaned-occurrence.csv. See the data user agreement and citation guidelines at GBIF:
GBIF Data User Agreement: https://www.gbif.org/terms/data-user
GBIF data usage and citation guidelines: https://www.gbif.org/citation-guidelines

Related Datasets

IsDerivedFrom

Dataset: https://www.gbif.org/

GBIF.org (n.d.). Global Biodiversity Information Facility: Home Page. https://www.gbif.org/

IsPartOf

Dataset: https://doi.org/10.5281/zenodo.18165331
Relationship Description:

The "Fourchon Nekton Turnover Workflow" contains scripts, configurations, readme files, and input/output files for four stages of the workflow. The workflow contains data corresponding to four related BCO-DMO datasets (See "Related Datasets" section...

heleavitt. (2026). heleavitt/Workflow-for-Leavitt_et_al_Resilient-Species-Nekton-Composition-in-the-Face-of: Workflow for Resilient Nekton Composition in the Face of Climate-Driven Foundation Species Shifts (Version v1.0.0) [Computer software]. Zenodo. https://doi.org/10.5281/ZENODO.18165331

IsRelatedTo

Dataset: Raw drop sample data
Relationship Description:

Datasets that are part of the same workflow (doi: 10.5281/zenodo.18165331) for a study to be published: Leavitt, H; Thomas, A; Doerr, J; Johnson, D; Nelson, J. (In press) Resilient Nekton Composition in the Face of Climate-Driven Foundation Species Shifts. Ecology.

Nelson, J. (2026) Drop Sampling Data from Port Fourchon, Louisiana collected in 2006, 2016, 2022 and 2023. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2026-01-08 doi:10.26008/1912/bco-dmo.991168.1

IsRelatedTo

Dataset: Species of interest
Relationship Description:

Nelson, J. (2026) Results of a species pool analysis identifying species of interest responding to climate changes in Port Fourchon, LA in 2006, 2016, 2022 and 2023. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2026-01-08 doi:10.26008/1912/bco-dmo.991182.1

IsRelatedTo

Dataset: CTI calculations
Relationship Description:

Nelson, J., Leavitt, H., Thomas, A. (2026) Community Temperature Index Calculations for Port Fourchon, Louisiana Drop Sampling data from 2006 to 2023. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2026-01-08 doi:10.26008/1912/bco-dmo.941250.1

Related Publications

Results

Leavitt, H; Thomas, A; Doerr, J; Johnson, D; Nelson, J. (In press) Resilient Nekton Composition in the Face of Climate-Driven Foundation Species Shifts. Ecology. Accepted 2025-11-14

Methods

Global Biodiversity Information Facility (2024) Occurrence download formats :: Technical Documentation. https://techdocs.gbif.org/en/data-use/download-formats

Software

Chamberlain, S., Oldoni, D., Geffert, L., Desmet, P., Barve, V., Ram, K., Blissett, M., Waller, J., McGlinn, D., Ooms, J., Steven (Siwei) Ye, Oksanen, J., Marwick, B., , John, Sumner, M., & Sriram. (n.d). ropensci/rgbif: rgbif (no version cited) [Computer software]. Zenodo. https://doi.org/10.5281/ZENODO.1045299

Software

Zizka, A. (2017). CoordinateCleaner: Automated Cleaning of Occurrence Records from Biological Collections [dataset]. In CRAN: Contributed Packages. The R Foundation. https://doi.org/10.32614/cran.package.coordinatecleaner

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Dataset: Cleaned species occurrence data from 2005 to 2025 from GBIF as part of a workflow to assemble species and community temperature indices for Port Fourchon, LA in 2006, 2016, 2022 and 2023

ValidatedFinal no updates expectedDOI: 10.26008/1912/bco-dmo.991175.1Version 1 (2026-01-08)Dataset Type:SynthesisLicense:CC BY-NC-4.0

Principal Investigator: James Nelson (University of Georgia)

Student: Herbert Leavitt (University of Georgia)

Student: Alexander Thomas (University of Georgia)

BCO-DMO Data Manager: Amber D. York (Woods Hole Oceanographic Institution)

Project: CAREER: Integrating Seascapes and Energy Flow: learning and teaching about energy, biodiversity, and ecosystem function on the frontlines of climate change (Louisiana E-scapes)

Abstract

Spatial Extent: N:29.17 E:-90.16 S:29.09 W:-90.24
Temporal Extent: 2005 - 2025
Port Fourchon, Louisiana

49

Views

25

Downloads

"1_raw_data" = includes raw drop-sampling data corresponding to BCO-DMO dataset 991168 (doi: 10.26008/1912/bco-dmo.991168.1)
"2_gbif_workflow" = includes GBIF species observation data corresponding to metadata in BCO-DMO dataset 991175 (doi: 10.26008/1912/bco-dmo.991175.1)
"3_CTI_calculations" = includes community temperature index (CTI) data corresponding to BCO-DMO dataset 941250 (doi: 10.26008/1912/bco-dmo.941250.1)
"4_species_of_interest" = includes the results of a species pool analysis identifying species of interest corresponding to BCO-DMO dataset 991182 (doi: 10.26008/1912/bco-dmo.991182.1)

Related Datasets

IsDerivedFrom

Dataset: https://www.gbif.org/

GBIF.org (n.d.). Global Biodiversity Information Facility: Home Page. https://www.gbif.org/

IsPartOf

Dataset: https://doi.org/10.5281/zenodo.18165331
Relationship Description:

IsRelatedTo

Dataset: Raw drop sample data
Relationship Description:

IsRelatedTo

Dataset: Species of interest
Relationship Description:

IsRelatedTo

Dataset: CTI calculations
Relationship Description:

Related Publications

Results

Leavitt, H; Thomas, A; Doerr, J; Johnson, D; Nelson, J. (In press) Resilient Nekton Composition in the Face of Climate-Driven Foundation Species Shifts. Ecology. Accepted 2025-11-14

Methods

Global Biodiversity Information Facility (2024) Occurrence download formats :: Technical Documentation. https://techdocs.gbif.org/en/data-use/download-formats

Software

Data File(s)	Type	Description	Action
991175_v1_port-fourchon_cleaned-occurrence.csv (100.23 MB)	Comma Separated Values (.csv)	Primary data file for dataset ID 991175, version 1. This file concatenates workflow files "clean_csvs/<taxon>_clean.csv." See "BCO-DMO Processing" section for minor differences between the workflow files and the BCO-DMO hosted file.	991175_v1_port-fourchon_cleaned-occurrence.csv View Table

Supplemental File(s)	Type	Description	Action
gbif_source_metadata.csv (39.20 KB)	Comma Separated Values (.csv)	Additional GBIF source data information based on the GBIF dois included in contents of workflow file gbif_ciations.txt (https://doi.org/10.5281/zenodo.18165331). The information added here was provided by the following APIs: GBIF_API = "https://api.gbif.org/v1" WORMS_API = "https://www.marinespecies.org/rest" This metadata table includes columns: name_in_data, The scientific name as used in wo...	gbif_source_metadata.csv View Table

Data File(s)	Type	Description	Action
991175_v1_port-fourchon_cleaned-occurrence.csv (100.23 MB)	Comma Separated Values (.csv)	Primary data file for dataset ID 991175, version 1. This file concatenates workflow files "clean_csvs/<taxon>_clean.csv." See "BCO-DMO Processing" section for minor differences between the workflow files and the BCO-DMO hosted file.	991175_v1_port-fourchon_cleaned-occurrence.csv View Table

Supplemental File(s)	Type	Description	Action
gbif_source_metadata.csv (39.20 KB)	Comma Separated Values (.csv)	Additional GBIF source data information based on the GBIF dois included in contents of workflow file gbif_ciations.txt (https://doi.org/10.5281/zenodo.18165331). The information added here was provided by the following APIs: GBIF_API = "https://api.gbif.org/v1" WORMS_API = "https://www.marinespecies.org/rest" This metadata table includes columns: name_in_data, The scientific name as used in wo...	gbif_source_metadata.csv View Table

Dataset: Cleaned species occurrence data from 2005 to 2025 from GBIF as part of a workflow to assemble species and community temperature indices for Port Fourchon, LA in 2006, 2016, 2022 and 2023

Principal Investigator: James Nelson (University of Georgia)

Student: Herbert Leavitt (University of Georgia)

Student: Alexander Thomas (University of Georgia)

BCO-DMO Data Manager: Amber D. York (Woods Hole Oceanographic Institution)

Project: CAREER: Integrating Seascapes and Energy Flow: learning and teaching about energy, biodiversity, and ecosystem function on the frontlines of climate change (Louisiana E-scapes)

Abstract

49

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Files

Supplemental Files

Related Datasets

Related Publications

Dataset: Cleaned species occurrence data from 2005 to 2025 from GBIF as part of a workflow to assemble species and community temperature indices for Port Fourchon, LA in 2006, 2016, 2022 and 2023

Principal Investigator: James Nelson (University of Georgia)

Student: Herbert Leavitt (University of Georgia)

Student: Alexander Thomas (University of Georgia)

BCO-DMO Data Manager: Amber D. York (Woods Hole Oceanographic Institution)

Project: CAREER: Integrating Seascapes and Energy Flow: learning and teaching about energy, biodiversity, and ecosystem function on the frontlines of climate change (Louisiana E-scapes)

Abstract

49

25

Files

Supplemental Files

Related Datasets

Related Publications

Dataset: Cleaned species occurrence data from 2005 to 2025 from GBIF as part of a workflow to assemble species and community temperature indices for Port Fourchon, LA in 2006, 2016, 2022 and 2023

Principal Investigator: James Nelson (University of Georgia)

Student: Herbert Leavitt (University of Georgia)

Student: Alexander Thomas (University of Georgia)

BCO-DMO Data Manager: Amber D. York (Woods Hole Oceanographic Institution)

Project: CAREER: Integrating Seascapes and Energy Flow: learning and teaching about energy, biodiversity, and ecosystem function on the frontlines of climate change (Louisiana E-scapes)

Abstract

Metadata

49

25

Files

Supplemental Files

Related Datasets

Related Publications

Dataset: Cleaned species occurrence data from 2005 to 2025 from GBIF as part of a workflow to assemble species and community temperature indices for Port Fourchon, LA in 2006, 2016, 2022 and 2023

Principal Investigator: James Nelson (University of Georgia)

Student: Herbert Leavitt (University of Georgia)

Student: Alexander Thomas (University of Georgia)

BCO-DMO Data Manager: Amber D. York (Woods Hole Oceanographic Institution)

Project: CAREER: Integrating Seascapes and Energy Flow: learning and teaching about energy, biodiversity, and ecosystem function on the frontlines of climate change (Louisiana E-scapes)

Abstract

Metadata

49

25

Files

Supplemental Files

Related Datasets

Related Publications