Repo to accompany

Unevenly distributed biological invasion costs among origin and recipient regions

in Nature Sustainability.

Emma J. Hudgins*, Ross N. Cuthbert*, Phillip J. Haubrock*, Nigel G. Taylor, Melina Kourantidou, Dat Nguyen, Alok Bang, Anna J. Turbelin, Desika Moodley, Elizabeta Briski, Syrmalenia G. Kotronaki, Franck Courchamp

* equivalent contribution

code written by Dat Nguyen and Emma J Hudgins

SCRIPTS

1. 001-get_range_EH.R

• provides the functions getRangeGISD, getRangeCABI and trim to retrieve dataset

2. 002-native_ranges_countries_fourpointone.R

• using all invacost species in invacost package (version 4.1), attempts to download the ranges
• also checks whether it has an accepted name or synonyms and attempts the process on those as well

see our extended InvaCost region-to-country designation:

• 6 unique cases were manually mapped:

  kosovo = "Europe"
  tropical america = "Central America"
  pacific northwest = "Asia"
  north america = "North America"
  atlantic coast (north america) = "North America"
  indian ocean - western = "Africa"

3. 003-data_cleaning_fourpointone.R

• joins double-checked origin list (givers_takers_doublecheck_.csv) to invacost data

4. 004-assign_con_DN_fourpointone.R

• standardizes continent designations with pre-defined list

5. 0041-add4p1Countries.R

• additional code to add continent designations for new data entries not present in the first version of our analysis (Invacost 3.0)

6. 005_analysis_script.R

• performs analyses of the manuscript at the continent level (Figs 1-2)

7. 006_countrylevel_script.R

• performs country-level analyses of the manuscript (Figs 3-4)

KEY FILES

see also old_data_givers_takers folder for Invacost 3.0 files

1. Datasheet_201911240709.csv

• Full list of species with datasheets from CABI
• Used in get_native.R to supplement the downloading process, to reduce error as getRangeCABI would have to Google the species without a match

2. country-origin-ref_4p1_DN.csv

• reference for continent designation by country and iso3c code

3. givers_takers_doublecheck_fourpointone.csv

• result of manual double checking of web scraped origin data

4. Gravity_V202102.Rds

• CEPII Gravity database as of February 2022

5. island.nations.csv

• pre-determined continent designations for island nations

6. Invacost_database_v4.1.csv

• equivalent to calling data(invacost) from the invacost package with the version argument set to 4.1

7. invacost_origin_expanded_fourpointone_DN2.csv

• expanded invacost database joined to origin country designations

8. soc_econ_country.rds

• socioeconomic predictors from Sardain et al. 2019

9. sTwist_database.csv

• IAS first record and country occurrence information from Seebens et al. (2022)

10.turbelinetal_2017_IAS.csv

• IAS load for each country by iso3c code from Turbelin et al. 2017

KEY OUTPUT

1. tax_accepted_fourpointone.rds and tax_synonyms_fourpointone.rds

• output from native_ranges_countriesnew.R
• list of accepted names and synonyms for species that were originally missing from first pass using invacost species names

2. trade_averaged.RDS, trade_historical.RDS

• average yearly pairwise trade for 21st and 20th century

3. senders.RDS, receivers.RDS, top_pairs.RDS

• flows at country level

4. given., received.

• flows at continent level

5. invacost_givers_data., invacost_takers_data.

• decadal flows at continent level

6. pubs_per_receiving_continent.csv

• number of publications by which cost per publication was derived per receiving continent