A growing understanding of complex biotic interactions clarified the importance of symbioses with respect to the ecology and evolution of life. In particular, knowledge of symbioses between eukaryotes and microorganisms such as bacteria and fungi has revolutionized the fields of medicine and agriculture, and made clear the roles of microbes in fostering human and environmental sustainability. For example, diverse fungi associate with the seeds of plants following dispersal. These fungi can influence seed survival and germination in a host-specific and spatially explicit manner, thus influencing plant community dynamics in agricultural and natural systems. In species-rich tropical forests, seed-fungus interactions are emerging as one of the most important aspects of plant demography and community ecology. However, even closely related fungi can have opposing effects on seeds of particular plants, such that mechanisms influencing host-specific effects require further attention. Such mechanisms can include genomic traits of fungi and hosts, and the environmental context of interactions. However, studies have shown that many fungi also harbor endosymbionts than can influence their functional traits. In particular, fungi often harbor endohyphal bacteria that influence fungal phenotypes. This suggested the potential for similar, co-occurring microbes to influence the ecology of seed-associated fungi. Here, I explore the diversity, evolutionary relationships, and influence on fungal phenotypes of endohyphal bacteria inhabiting seed- and leaf-associated fungi with a focus that begins in tropical forest ecology and expands to include gene expression in an emerging model system from the temperate zone. To determine the occurrence, abundance, taxonomic diversity, and phylogenetic diversity of endohyphal bacteria among tropical seed-associated fungi, my coauthors and I used PCR and fluorescence microscopy to screen members of two common orders of seed-associated fungi, comparin