Island biogeography predicts vertebrate trait space

Corey Bradshaw
Global Ecology, Flinders University, Australia
e-mail

John Llewelyn
Global Ecology, Flinders University, Australia
e-mail

Accompanies paper:

Bradshaw, CJA, A Naglis, F Saltr, C Mudge, J Llewelyn. Island biogeography similarly predicts species and trait diversity of vertebrate communities on oceanic islands (in preparation)

Scripts

• islbiogeogrtraits.R: R code for all analyses

Data

GIS layers

• ausislavala.zip: Atlas of Living Australia data for bird species (shapefile). Due to Github file-size constraints, we have broken the zip file into similar-sized chunks. Combine chunks aa to ah using the following Terminal (or equivalent) command: cat ausislavalazipchunk* > ausislavala.zip. Once chunks are recombined, unzip the corresponding shapefile.
• reptislavala.zip: Atlas of Living Australia data for reptile species (shapefile).
• mamaislavala.zip: Atlas of Living Australia data for mammal species (shapefile).
• amphislavala.zip: Atlas of Living Australia data for amphibians species (shapefile).
• ausislands.zip: Australian islands shapefile (Australian Albers Equal Area projection). Derived from the Australian Bureau of Statistics.
• ausislandsAlbersGeom_corrected.zip: Australian islands shapefile (Australian Albers Equal Area projection) after removing ~ 30% of islands following criteria outlined in the main text.
• mainlandsLL.zip: mainlands (Australia and surrounding continents) in lat/lon datum.

Distance

• ausIslDist2mainlAlbers.csv: shortest straight-line distance of all Australian islands to mainland.
• d2ausislandscorr.csv: shortest straight-line distance of processed (i.e., removing ~ 30% of islands; see main text) Australian islands to mainland.

RDS

Due to file-size constraints in Github, we do not provide the *.rds (serialised interface for single objects) files mentioned in the script. However, these files are not required to repeat the analyses because the pre-processed GIS shapefiles (ausislavala.shp, ausislmamala.shp, ausislreptala.shp, ausislamphala.shp) include the necessary information (code with *.rds files shown for understanding the workflow only).

Traits

Birds

• AVONET1_Birdlife.xlsx: AVONET BirdLife bird traits dataset
• AVONET2_eBird.xlsx: AVONET eBird traits bird dataset
• AVONET3_BirdTree.xlsx: AVONET BirdTree bird traits dataset

Mammals

• SahulTraitsMam.csv: SahulTraits mammal traits database

Required R libraries

dismo, dplyr, galah, gawdis, gbm, ggplot2, gridExtra, mFD, readxl,sf, terra