A universal feature of cellular organisms is the capacity to recognize self from nonself, which ensures correct identification of mating partners, protection from parasites, and stability of multicellular growth. The genes controlling self-nonself recognition (SNR) are typically fast-evolving and can affect multiple phenotypic traits. As one of these traits is sexual compatibility, I propose that the evolution of SNR genes can contribute to the buildup of reproductive isolation, and ultimately speciation. In the fungus Podospora anserina, a group of SNR genes called NLRs are known to also cause sexual incompatibility. The resources of this computing project are being used to study the diversification and molecular evolution of Podospora NLR genes using population and comparative genomics. Currently, we are in the process of creating a recombination map for P. anserina, which will be indispensable for modelling changes in effective population size, age of introgression events between Podospora species, and the detection of selective sweeps involving NLR genes. The results will contribute to our understanding of the genetics of reproductive isolation in fungi, as well as NLR-mediated speciation across different eukaryotic groups.