Approaches to biological species delimitation based on genetic and spatial dissimilarity

The delimitation of biological species, i.e., deciding which individuals belong to the same species and whether and how many different species are represented in a dataset, is key to the conservation of biodiversity. Much existing work uses only genetic data for species delimitation, often employing some kind of cluster analysis. This can be misleading, because geographically distant groups of individuals can be genetically quite different even if they belong to the same species. We investigate the problem of testing whether two potentially separated groups of individuals can belong to a single species or not, based on genetic and spatial data. Already exist- ing methods such as the partial Mantel test and jackknife-based distance-distance regression are considered. New approaches, i.e., an adaptation of a mixed effects model, a bootstrap approach, and a jackknife version of partial Mantel, are proposed. All these methods address the issue that distance data violate the independence as- sumption for standard inference regarding correlation and regression. A standard linear regression is also considered. The approaches are compared on simulated meta-populations generated with the software packages SLiM and GSpace that can simulate spatially explicit genetic data at an individual level. Simulations show that the new jackknife version of the partial Mantel test provides a good compromise between power and respecting the nominal type I error rate. Mixed-effects models have larger power than jackknife-based methods, but in some situations they dis- play type I error rates above the significance level. An application on brassy ringlets concludes the paper.