Genome evolution and introgression in the New Zealand mud snailsPotamopyrgus estuarinusandPotamopyrgus kaitunuparaoa

Abstract

We have sequenced, assembled, and analyzed the nuclear and mitochondrial genomes and transcriptomes ofPotamopyrgus estuarinusandPotamopyrgus kaitunuparaoa, two prosobranch snail species native to New Zealand that together span the continuum from estuary to freshwater. These two species are the closest known relatives of the freshwater speciesP. antipodarum—a model for studying the evolution of sex, host-parasite coevolution, and biological invasiveness—and thus provide key evolutionary context for understanding its unusual biology. TheP. estuarinusandP. kaitunuparaoagenomes are very similar in size and overall gene content. Comparative analyses of genome content indicate that these two species harbor a near-identical set of genes involved in meiosis and sperm functions, including seven genes with meiosis-specific functions. These results are consistent with obligate sexual reproduction in these two species and provide a framework for future analyses ofP. antipodarum—a species comprising both obligately sexual and obligately asexual lineages, each separately derived from a sexual ancestor. Genome-wide multigene phylogenetic analyses indicate thatP. kaitunuparaoais likely the closest relative toP. antipodarum.We nevertheless show that there has been considerable introgression betweenP. estuarinusandP. kaitunuparaoa.That introgression does not extend to the mitochondrial genome, which appears to serve as a barrier to hybridization betweenP. estuarinusandP. kaitunuparaoa.Nuclear-encoded genes whose products function in joint mitochondrial-nuclear enzyme complexes exhibit similar patterns of non-introgression, indicating that incompatibilities between the mitochondrial and the nuclear genome may have prevented more extensive gene flow between these two species.Significance StatementNo whole-nuclear genome sequences are currently available for snails of the genusPotamopyrgus, best known forPotamopyrgus antipodarum, an invasive species of rivers and lakes worldwide, and a famous model for the study of the evolution of sex. We have sequenced and analyzed the genome of sexualP. estuarinusandP. kaitunuparaoa, the closest known relatives ofP. antipodarum. We show that 1) the genomes are very similar in gene content and size, 2)P. kaitunuparaoais the closest relative toP. antipodarum, 3) significant introgression has occurred betweenP. estuarinusandP. kaitunuparaoa; these genomes set the stage for powerful direct analyses of the genomic features,e.g., sex to asexual transitions and invasive success, that makeP. antipodarumunique.