Functional connectivity in sympatric spiny rats reflects different dimensions of Amazonian forest-association

Aim: Understanding how the landscape influences gene flow is important in explaining biodiversity, especially when co-distributed taxa across heterogeneous landscapes exhibit species-specific habitat associations. Here, we test predictions about the effects of forest-type on population connectivity in two sympatric species of spiny rats that differ in their forest associations. Specifically, we evaluate the hypothesis that seasonal floodplain forests (várzea) provide linear connectivity, facilitating gene flow among individuals, while non-flooded forests (terra-firme) may diminish the functional connectivity.
Location: Western Amazon, South America.
Taxon: Proechimys simonsi (non-flooded forests, terra-firme) and Proechimys steerei (seasonal floodplain forests, várzea).
Methods: We analyze about 13,000 SNPs along with characterizations of landscape heterogeneity for two forest types to test for differences in the functional connectivity. Influence of the landscape and environmental vari..., , Supporting Information for the manuscript: Functional connectivity in sympatric spiny rats reflects different dimensions of Amazonian forest-association
Including:-Raw Data: Fastq files by individuals after Stacks processing reads (.fq.gz);-Genetic Data: Raw and Filtered VCF by species (.vcf);-Spatial Data: coordinates of all localities by the individuals (.csv);-MLPE Tables: input for IBR analyses in MLPE mixed models (.csv);-Supporting_Information: Table S1.1 with details on geographic information for each individual (.csv); and the Supporting Information file (Appendix S1, S2, and S3) in a single file (.pdf);
R scripts are available in:https://github.com/jdalapicolla/LanGen_pipeline_version2https://github.com/jdalapicolla/IBD_models.Rhttps://github.com/jdalapicolla/MLPE.R, # Data from: Functional connectivity in sympatric spiny rats reflects different dimensions of Amazonian forest-association

[https://doi.org/10.5061/dryad.4qrfj6qbf](https://doi.org/10.5061/dryad.4qrfj6qbf)

## Description of the data and file structure

Supporting Information files for the paper \"Functional connectivity in sympatric spiny rats reflects different dimensions of Amazonian forest-association\" ([https://doi.org/10.1111/jbi.14281](https://doi.org/10.1111/jbi.14281))

**1) Raw Data:** Fastq files by individuals after Stacks processing reads (.fq.gz). Samples were sequenced using the ddRAD-Seq technique in one lane of a HiSeq2500 (Illumina, San Diego, CA, USA) at the Center for Applied Genomics in Toronto, Canada to generate 150 bp, single-end reads. More details can be found in \"Functional connectivity in sympatric spiny rats reflects different dimensions of Amazonian forest-association\" ([https://doi.org/10.1111/jbi.14281](https://doi.org/10.1111/jbi.14281))

**2) Genetic Da...