Data from: Pre‐adaptation and adaptation shape trait‐environment matching in the Neotropics
Authors/Creators
- 1. German Center for Integrative Biodiversity Research
- 2. New York Botanical Garden
- 3. University of Edinburgh
- 4. University of Exeter
- 5. Royal Botanic Garden Edinburgh
- 6. Philipp University of Marburg
Description
The resources provided here comprise raw and final data sets used in our study 'Preadaptation and adaptation shape trait-environment matching in the Neotropics' (DOI: 10.1111/geb.13730) comprising curated geographic occurrences for 156 Swartzia taxa across its distribution in the Neotropics, phylogenetic information for 69 Swartzia taxa, and corresponding climatic (i.e. 19 climatic variables taken from WorldClim), soil (i.e. sand, nitrogen, and clay content taken from the SoilGrids 2.0 portal), and trait data for each taxa (i.e. trait measurements for lefleats, petals, and fruits). We also provide the script used to extract trait information from botanical monographs.
Notes
The BEAST .xml file can be run using the software BEAST 2 – 'bayesian evolutionary analysis by sampling trees 2' (Bouckaert et al. 2014).
All phylogenetic trees can be loaded and visualized in the R platform using packages for handling phylogenetic data (i.e. 'ape'). Alternatively trees can be visualized using the software 'Figtree v. 1.4.4.' (Rambaut A. 2010).
Occurrence, trait and climatic data can be loaded and opened in the R platform.
The script to extract trait data from monographs can be loaded and opened in the R platform. Stepwise instructions are provided as commented text in the script.
Note: NAs in the dataset denote missing data in traits or environmental data, which means that the corresponding value was not available from the literature or from the environmental databases.
References
Bouckaert, R., Heled, J., Kühnert, D., Vaughan, T., Wu, C.-H., Xie, D., Suchard M.A., Rambaut A., Drummond, A. J. (2014). Beast 2: A software platform for bayesian evolutionary analysis. PLoS Computational Biology, 10(4), e1003537.
Rambaut, A. (2010) FigTree v1.3.1. Institute of Evolutionary Biology, University of Edinburgh, Edinburgh. https://github.com/rambaut/figtree/releases.
Funding provided by: Deutsches Zentrum für integrative Biodiversitätsforschung Halle-Jena-Leipzig
Crossref Funder Registry ID: http://dx.doi.org/10.13039/501100020056
Award Number: 202548816
Files
README.md
Files
(328.1 MB)
| Name | Size | Download all |
|---|---|---|
|
md5:3e84117d26d1bc2bb22c0861388bf252
|
5.4 kB | Preview Download |
|
md5:28fdb9bc6117bf147992f7dcf2b9918f
|
13.2 kB | Download |
|
md5:a38881822ba4dafb36fd1e187969bacc
|
34.8 kB | Download |
|
md5:8bb2ec57ca250ac6a843487a508ffdc8
|
47.9 kB | Download |
|
md5:aa26babadd2db78b11d3b94b4b85b574
|
54.2 kB | Preview Download |
|
md5:20e49ec8e38bd65356082ffa1e082a23
|
30.1 kB | Preview Download |
|
md5:a2b16f27a3744accc444e3c293d490d2
|
36.6 kB | Preview Download |
|
md5:7ba314a3ef4c739660d09b772efdbb6c
|
10.7 kB | Download |
|
md5:a0d7f1c7df5e80255d74c8a24e182b6b
|
380.2 kB | Preview Download |
|
md5:8c36984628aef811aaaca2fb042000de
|
323.9 MB | Download |
|
md5:05e9dc8082146678a585d98a67af16a9
|
122.1 kB | Download |
|
md5:e512a13c5a23bc49dc2561592026eda6
|
2.5 kB | Download |
|
md5:e7a122b041a1cc224255bbc1999d7ee4
|
2.5 MB | Download |
|
md5:48ff6bbf5b8668db122576c468dc47bc
|
732.1 kB | Download |
|
md5:db38f896ae8b526b82ba068d3fa10a3e
|
36.2 kB | Download |
|
md5:11544a564a0ada6b7808941b99d7d584
|
72.2 kB | Download |
|
md5:cd328e67edeb4eef71f2e55588cfd885
|
76.8 kB | Download |