We established, genotyped, and phenotyped reference panels of two Tetranychus mite species, spanning their global genetic diversity. We coupled the penetrance of Wolbachia-mediated cytoplasmic incompatibility to cif gene repertoires, cif transcription, and infection density. We introduced multiple Wolbachia variants into novel host backgrounds and quantified the impact of transinfection on CI strength and infection density. We are currently dissecting the host genic factors that shape CI strength. In parallel, we quantified the expression of intraspecific and interspecific hybrid sterility in these reference panels. For these experiments, we developed a novel high-throughput genotyping tool to guarantee that these mite lines are not infected with reproductive symbionts. Leveraging our genomic and phenotypic data of European populations, we discovered likely cases of strong nuclear-mediated reproductive isolation within and between hybridizing Tetranychus species. We show that hybrid sterility can be easily recovered by generating specific recombinants. We are now dissecting causal genic factors.