Timing and magnitude of climate driven range shifts in transboundary fish stocks challenge their management

This repository is intended to support the paper Timing and magnitude of climate driven range shifts in transboundary fish stocks challenge their management

Authors: Juliano Palacios-Abrantes^1,6, Thomas L. Frölicher^2,3, Gabriel Reygondeau¹, U. Rashid Sumaila¹, Alessandro Tagliabue⁴, Colette C.C. Wabnitz^1,5, and William W.L. Cheung¹

1- Institute for the Oceans and Fisheries, University of British Columbia, Vancouver, Canada.

2- Climate and Environmental Physics, Physics Institute, University of Bern.

3- Oeschger Centre for Climate Change Research, University of Bern, Switzerland.

4- School of Environmental Sciences, University of Liverpool.

5- Stanford Center for Ocean Solutions, Stanford University, Stanford, United States"

6- Center for Limnology, University of Wisconsin-Madison, United States

*Corresponding author: Juliano Palacios-Abrantes, j.palacios@oceans.ubc.ca

Citation: Palacios-Abrantes, J., Frölicher, T. L., Reygondeau, G., Sumaila, U. R., Tagliabue, A., Wabnitz, C. C. C., & Cheung, W. W. L. (2022). Timing and magnitude of climate-driven range shifts in transboundary fish stocks challenge their management. Global Change Biology, 00, 1–15.

Project Goal:

• Determine the changes in in range shift of transboundary species

Files and folders organization:

In this repository you will find all of the code related to the manuscript Matching the Time of Emergence of Transboundary Fish Stocks to Lead Time for Policy Response Under Climate Change. Note that the code needs to compile data from external sources. Due to the large volume of data, these are not in GitHub. Please email me to discuss other ways to share the data.

Scripts

This folder holds the cripts related to the project

• Initial_Analysis.Rmd: This is the RMD where all the data analysis for the manuscript can be found

• Manuscript_draft.RMD: An eraly version of the manuscript (draft) to be submitted as a PDF or word document

• Supplements.RMD: Supplement draft to be submitted as a PDF or word document

References

Documents needed for the references of the manuscript including the reference list

• ToE_Ref.bib: list of bibliography used in the project
• gcb.csl: Reference form according to the journal where the manuscript was published

Figures

Here you will find all of the figures, main and supplemental, that were published alongside the project

Tables

Here you will find all of the tables, main and supplemental, that were published alongside the project in .csv format

Data availabillity

All of the data used to generate the results of the current project (both primary and secondary) are freely available at their respective repositories. See below for instructions on how/where to collect the data used. Feel free to contact me for this purpose and I will do my best to help you get these data.

Primary data

All primary data generated by this project can be found at the Scholars Portal Dataverse.

Palacios Abrantes, Juliano; Frölicher, Thomas L.; Reygondeau, Gabriel; Sumaila, U. Rashid; Tagliabue, Alessandro; Wabnitz , Colette C.C.; Cheung, William W.L., 2021, "Replication Data for: Timing and magnitude of climate driven range shifts in transboundary fish stocks challenge their management", https://doi.org/10.5683/SP3/TMPEHR, Scholars Portal Dataverse

Support data

Support data used in this project is called along the Initial_analysis.Rmd script.

• sau_matching_names.csv, This is a cross-reference list of spatial entities between the Sea Around Us data, the United Nations data and Natural Earth shapefiles.

• eez_centroids.csv, This data set contains the centroids (latitude and longitude) of the EEZs produced using the sf package.

External Data (Secondary)

All secondary data (i.e., data collected or produced by others in previous efforts) used in this project are publicly available, but we are not allowed to make them available for the public. Please see below information on how to get access.

• Transboundary_spp.csv, This is the list of transboundary species identified by Palacios-Abrantes et al., 2020 and can be retrieved from the project's github FishForVisa

• exploited_species_list.csv, This list references the taxon_key with the taxon_sci_name. Can be extracted from the toe_data.csv (See Primary data above)

• Neighbours_eez_id.csv, This is the list of neighboring EEZs. Can be extracted from toe_data.csv (See Primary data above)

• sau_catch_value_country_taxon_JEPA.csv, This is the Sea Around Us (SAU) catch and value data within the world EEZs. Please contact the SAU for data access.

• DBEM raw species projection data, projections of species distributions based on environmental variables were carried using a Dynamic Bioclimate Envelope Model DBEM. Please contact Dr. William W.L. Cheung at The Institute for the Oceans and Fisheries (IOF) for further discussion of the DBEM model and raw data.

• GFDL raw environmental data, sea surface temperature, dissolved oxygen concentration, chlorophyll-a concentration, salinity, pH, silicate concentration and euphotic depth are from 10 ensembles (runs) of the Geophysical Fluid Dynamics Laboratory Earth System Model 2M (GFDLESM2M) under a high-emission cliamte change scenario. For data access, please visit The Inter-Sectoral Impact Model Intercomparison Project ISIMIP website.

Shapefiles

• SAUEEZ_July2015.shp, This is the Sea Around Us shapefile used to estimate the EEZ's centroids and presented in figures 3-5. See Figure S1 for a graphical representation of the shapefile and contact the SAU for a version of it.

Final note. If you are interested in any data used in this research I encourage you to contact me so we can further discuss ways to move forward.

As of January of 2022 the paper has been published and this repository has been archived