DNA sequencing brings another dimension to exploration of biodiversity, and large-scale mitochondrial DNA cytochrome oxidase I barcoding has exposed many potential new cryptic species. Here, we add complete nuclear genome sequencing to DNA barcoding, ecological distribution, natural history, and subtleties of adult color pattern and size to show that a widespread neotropical skipper butterfly known as Udranomia kikkawai (Weeks) comprises three different species in Costa Rica. Full-length barcodes obtained from all three century-old Venezuelan syntypes of U. kikkawai show that it is a rainforest species occurring from Costa Rica to Brazil. The two new species are Udranomia sallydaleyae Burns, a dry forest denizen occurring from Costa Rica to Mexico, and Udranomia tomdaleyi Burns, which occupies the junction between the rainforest and dry forest and currently is known only from Costa Rica. Whereas the three species are cryptic, differing but slightly in appearance, their complete nuclear genomes totaling 15 million aligned positions reveal significant differences consistent with their 0.00065-Mbp (million base pair) mitochondrial barcodes and their ecological diversification. DNA barcoding of tropical insects reared by a massive inventory suggests that the presence of cryptic species is a widespread phenomenon and that further studies will substantially increase current estimates of insect species richness.cryptic species | ACG | butterflies | DNA barcoding | genomics T he 35-y ongoing biodiversity inventory of the estimated 15,000 species of moths and butterflies of Area de Conservación Guanacaste (ACG)-a large complex tropical conserved wildland in northwestern Costa Rica (1-4)-poses many questions of core interest to evolution, ecology, and conservation. The intense collecting (3) followed by mitochondrial DNA barcoding (4, 5) often suggests that what was known as a single species may comprise several species. But is there really more than one species? Subsequent study often finds characters from morphology, ecology, or natural history that covary with the barcodes and thereby confirm a complex of several species that may not differ from each other in their external appearance (3-10). Udranomia kikkawai, a small and long-known Costa Rican skipper butterfly (Hesperiidae), is one exemplar among many. Here, we unravel its biology and taxonomy, in part by augmenting barcoding with complete genomic analysis. Every species, even cryptic, carries a unique set of biological traits and should be recognized as a unit of biodiversity.
Act OneUdranomia kikkawai was first encountered in the ACG dry forest caterpillar inventory when it began in 1978. An adult was reared from a small caterpillar feeding only on the youngest leaves of Ouratea lucens (Ochnaceae), a common dry forest understory evergreen shrub. Today, 1,303 reared wild-caught ACG caterpillars later (among 650,000+ reared wild-caught caterpillars of 7,000+ species), U. kikkawai still has the same limited diet. In 1999, the ACG inventory discovered its caterpillar...