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Data from: Colonize, radiate, decline: unraveling the dynamics of island community assembly with Fijian trap-jaw ants

Citation

Liu, Cong et al. (2020), Data from: Colonize, radiate, decline: unraveling the dynamics of island community assembly with Fijian trap-jaw ants, Dryad, Dataset, https://doi.org/10.5061/dryad.k3j9kd54m

Abstract

The study of island community assembly has been fertile ground for developing and testing theoretical ideas in ecology and evolution.  The eco-evolutionary trajectory of lineages after colonization has been a particular interest, as this is a key component of understanding community assembly.  In this system, existing ideas such as the taxon cycle posit that lineages pass through a regular sequence of eco-evolutionary changes after colonization, with lineages shifting toward reduced dispersal ability, increased ecological specialization, and declines in abundance. However, these predictions have historically been difficult to test. Here, we integrate phylogenomics, population genomics, and x-ray microtomography/3D morphometrics, to test hypotheses for whether the ecomorphological diversity of trap-jaw ants (Strumigenys) in the Fijian archipelago is assembled primarily through colonization or post-colonization radiation, and whether species show ecological shifts toward niche specialization, toward upland habitats, and decline in abundance after colonization. We infer that most Fijian endemic Strumigenys evolved in situ from a single colonization and have diversified to fill a large fraction of global morphospace occupied by the genus. Within this adaptive radiation, lineages trend to different degrees toward high elevation, reduced dispersal ability, and demographic decline, and we find no evidence of repeated colonization that displaces the initial radiation.  Overall these results are only partially consistent with taxon cycle and associated ideas, while highlighting the potential role of priority effects in assembling island communities.

Methods

We provide three datasets that have been used in the paper:

1. Phylogenimics data. All phylogenies and the original PHYLIP file generated by ipyrad assembly.

2. VCF data. Filtered vcf files that used for all the population genomics analyses. The vcf files were generated by ipyrad.

3. 3D geometric morphometrics data. 3D surface models of Fijian Strumigenys and R script for 3D geometric morphometrics analysis.

Usage Notes

There are three folders:

1. Phylogeny: including the Ml tree infered by IQtree ("Fijian_Strumigenys_IQtree.tre"), the date-calibrated tree inferred by BEAST ("Fijian_Strumigenys_Beast.tre"), and the SNP tree inferred by Tetrad ("Fijian_Strumigenys_Tetrad.tre"). In addition, this folder also include the original supermatrix ("Fijian_Strumigenys.phy") for all the phylogeneic analysis.

2 Vcf: All the filtered vcf files.

3. 3D morphometrics. including all the 3d surface data generated by microCT, and the 3D geometric morphometrics analyzing code ("Landmark_Analysis.html")