10.5061/DRYAD.92TT0
Paz-Vinas, Ivan
Aix-Marseille University
Blanchet, Simon
Centre national de la recherche scientifique
Data from: Dendritic connectivity shapes spatial patterns of genetic
diversity: a simulation-based study
Dryad
dataset
2015
Theory
2015-03-26T20:02:08Z
2015-03-26T20:02:08Z
en
https://doi.org/10.1111/jeb.12626
3560 bytes
1
CC0 1.0 Universal (CC0 1.0) Public Domain Dedication
Landscape features notoriously affect spatial patterns of biodiversity.
For instance, in dendritic ecological networks (such as river basins),
dendritic connectivity has been proposed to create unique spatial patterns
of biodiversity. Here, we compared genetic datasets simulated under a
lattice-like, a dendritic and a circular landscape to test the influence
of dendritic connectivity on neutral genetic diversity. The circular
landscape had a level of connectivity similar to that of the dendritic
landscape, so as to isolate the influence of dendricity on genetic
diversity. We found that genetic diversity and differentiation varied
strikingly among the three landscapes. For instance, the dendritic
landscape generated higher total number of alleles and higher global Fst
than the lattice-like landscape, and these indices also varied between the
dendritic and the circular landscape, suggesting an effect of dendricity.
Furthermore, in the dendritic landscape, allelic richness was higher in
highly connected demes (e.g. confluences in rivers) than in low connected
demes (e.g. upstream and downstream populations), which was not the case
in the circular landscape, hence confirming the major role of dendricity.
This led to bell-shaped distributions of allelic richness along an
upstream-downstream gradient. Conversely, genetic differentiation (Fst)
was lower in highly than in low connected demes (which was not observed in
circular landscape), and significant patterns of isolation-by-distance
(IBD) were also observed in the dendritic landscape. We conclude that in
dendritic networks, the combined influence of dendricity and connectivity
generates unique spatial patterns of neutral genetic diversity, which has
implications for population geneticists and conservationists.
Simcoal 2 and ABCsampler input files for the three modelsThis file
contains the .est and .par input files used for simulating the genetic
datasets used in this article. There are three different couples of
.est/.par files, each of them being associated to one of the three models
presented in the article (i.e. dendritic, lattice and circular models).
The event at 40,000 generations before present (i.e. all genes in the
network were send back to an unique deme at this date, considering a
backwards in time timeframe), was used to uniformize coalescence times
across simulations and models.Simcoal_and_ABCsampler_input_files.zip