With 136 species across 6 continents, the genus Myotis provides a rich source of genetic diversity for studying the connection between genotype and phenotype. While nearly all Myotis share the same 2n=44 karyotype, we see a large amount of structural diversity at the sequence level. With the advent of long-read sequencing, a Myotis pangenome provides the perfect system to study how genetic diversity at both the nucleotide and structural level shapes phenotypic diversity and adaptations to local environments.