We study natural variation mainly in three legume species: Lotus japonicus, white clover and faba bean. Our aim is to detect and understand the genetic signatures left by selection, natural or plant breeding-associated, and to dissect the genetic basis of complex traits. We are particularly interested in the impact of plant-microbe interactions, especially those involving legumes, their nitrogen-fixing rhizobial symbionts and complex soil microbial communities. To investigate these topics, we make extensive use of high-throughput sequencing and bioinformatic analysis, including genome assembly, variant calling, QTL and GWA mapping, microbiome analysis, and transcriptional profiling.