Akito Y Kawahara’s research while affiliated with Florida Museum of Natural History and other places

Aim To better understand the potential impact of climate change on butterfly assemblages across a tropical island, we model the potential for taxonomic and functional homogenization and determine climate‐ and trait‐mediated shifts in projected species distributions. Location Puerto Rico. Methods We used thousands of museum records of diurnal Lepidoptera to model current (1970–2000) and forecast future (2061–2080) species distributions and combined these to test for taxonomic and functional homogenization. We then quantified climatic‐mediated effects on current and forecasted taxonomic and functional composition and, specifically, whether temperature was a primary driver, as predicted by the temperature–size rule and the thermal melanism hypotheses. Finally, we measured wing traits important in thermoregulation (size and colour) and determined trait‐mediated changes in forecasted species distributions over time. Results Based on ensemble model outputs, taxonomic and functional richness and turnover were predicted to vary across the island's complex topography. Our models projected an increase in taxonomic and functional richness over time, and a decrease in taxonomic and functional turnover – a signature of biotic homogenization. Under future climate scenarios, models projected a decrease in wing length and an increase in wing brightness at higher elevations. One variable, temperature seasonality, was the strongest predicted driver of both the current spatial distribution and the projected per cent change over time for not only wing traits but also taxonomic and functional richness and turnover. Main conclusions The species distribution models generated here identify several priority regions and species for future research and conservation efforts. Our work also highlights the role of seasonality and climatic variability on diverse tropical Lepidoptera assemblages, suggesting that climatic variability may be an important, albeit overlooked, driver of climate change responses.

Nearly all animals have a preferred period of daily activity (diel-niche), which is strongly influenced by the light environment. Sensory systems, particularly vision, are adapted to light, and evolutionary transitions to novel light environments, especially light limited ones, can impose strong constraints on eye evolution, color, and motion vision. The adaptive changes in sensory abilities of animals during these transitions, both at the genetic and neural levels, are largely unexplored. Butterflies and moths, with their diverse diel-niche shifts, are an ideal group for investigating the gene evolution linked to these transitions. While most butterflies are day-flying, hedylid butterflies are unique in being primarily nocturnal, and they represent an important evolutionary shift from diurnality to nocturnality in this clade. Here, we sequence the first high-quality Hedylidae genome and functionally annotate genes to understand genomic changes associated with shifts in diel niche. Comparing Hedylidae visual genes against day-and night-flying Lepidoptera species revealed that visual genes are highly conserved, with no major losses. However, hedylid butterfly opsins were more similar to nocturnal moths than their diurnal congeners. Tests on the evolutionary rates (dN/dS) confirmed that color vision opsins were under strong selection, similar to nocturnal moths. We propose that a convergent event of sequence evolution took place when these butterflies became nocturnal, approximately 98 million years ago.

Rapid identification of organisms is essential for many biological and medical disciplines, from understanding basic ecosystem processes, disease diagnosis, to the detection of invasive pests. CRISPR‐based diagnostics offers a novel and rapid alternative to other identification methods and can revolutionize our ability to detect organisms with high accuracy. Here we describe a CRISPR‐based diagnostic developed with the universal cytochrome‐oxidase 1 gene (CO1). The CO1 gene is the most sequenced gene among Animalia, and therefore our approach can be adopted to detect nearly any animal. We tested the approach on three difficult‐to‐identify moth species ( Keiferia lycopersicella , Phthorimaea absoluta and Scrobipalpa atriplicella ) that are major invasive pests globally. We designed an assay that combines recombinase polymerase amplification (RPA) with CRISPR for signal generation. Our approach has a much higher sensitivity than real‐time PCR assays and achieved 100% accuracy for identification of all three species, with a detection limit of up to 120 fM for P. absoluta and 400 fM for the other two species. Our approach does not require a sophisticated laboratory, reduces the risk of cross‐contamination, and can be completed in less than 1 h. This work serves as a proof of concept that has the potential to revolutionize animal detection and monitoring.

The Poritiinae are a diverse subfamily of lycaenid butterflies with about 700 species divided into two major groups: the Asian endemic tribe Poritiini, and the African endemic tribe Liptenini. Among these, the Liptenini are notable for their lichenivorous diet and the strong but apparently non‐mutualistic ant associations of many species. We present the first molecular phylogeny for this subfamily, based on data from 14 gene regions, and including 218 representatives from 177 taxa (approximately 25% of species) in 50 of the 58 (86%) recognized genera. From this analysis, we confirm the division of the subfamily into two tribes, and we rearrange the Liptenini tribe into six subtribes, Durbaniina, Pentilina, Liptenina, Iridanina and Epitolina, plus a new tribe, Cooksoniina subtrib. n. , to fill a gap in the nomenclature revealed by the phylogenetic analysis. We also point to several genera in need of further taxonomic revision. Ancestral range reconstruction could not infer the range of the common ancestor of the Poritiinae; however, the common ancestor of the Poritiini was likely Asian, while that of the Liptenini was likely African, with subsequent narrowing of ranges in several lineages.

Invasive insects can cause catastrophic damage to ecosystems and cost billions of dollars each year due to management expenses and lost revenue. Rapid detection is an important step to prevent invasive insects from spreading, but improvements in detection capabilities are needed for bulk collections like those from sticky traps. Here we present a bulk DNA extraction method designed for the detection of Phthorimaea absoluta Meyrick (Lepidoptera: Gelechiidae), an invasive moth that can decimate tomato crops. We test the extraction method for insect specimens on sticky traps, subjected to different temperature and humidity conditions, and among mock insect communities left in the field for up to 21 d. We find that the extraction method yielded high success (>92%) in recovering target DNA across field and lab trials, without a decline in recovery after three weeks, across all treatments. These results may have a large impact on tomato growing regions where P. absoluta is in the early stages of invasion or not yet present. The extraction method can also be used to improve detection capabilities for other bulk insect collections, especially those using sticky traps, to the benefit of pest surveys and biodiversity studies.

Many species that are extensively studied in the laboratory are less well characterized in their natural habitat, and laboratory strains represent only a small fraction of the variation in a species’ genome. Here we investigate genomic variation in three natural North American populations of an agricultural pest and a model insect for many scientific disciplines, the tobacco hornworm (Manduca sexta). We show that hornworms from Arizona, Kansas, and North Carolina are genetically distinct, with Arizona being particularly differentiated from the other two populations using Illumina whole-genome resequencing. Peaks of differentiation exist across the genome, but here we focus in on the most striking regions. In particular, we identify two likely segregating inversions found in the Arizona population. One inversion on the Z chromosome may enhance adaptive evolution of the sex chromosome. The larger, 8 megabase inversion on chromosome 12 contains a pseudogene which may be involved in the exploitation of a novel hostplant in Arizona, but functional genetic assays will be required to support this hypothesis. Nevertheless, our results reveal undiscovered natural variation and provide useful genomic data for both pest management and evolutionary genetics of this insect species.

Gracillariidae is the most taxonomically diverse cosmopolitan leaf-mining moth family, consisting of nearly 2000 named species in 105 described genera, classified into eight extant subfamilies. The majority of gracillariid species are internal plant feeders as larvae, creating mines and galls in plant tissue. Despite their diversity and ecological adaptations, their phylogenetic relationships , especially among subfamilies, remain uncertain. Genomic data (83 taxa, 589 loci) were integrated with Sanger data (130 taxa, 22 loci), to reconstruct a phylogeny of Gracillariidae. Based on analyses of both datasets combined and analyzed separately , monophyly of Gracillariidae and all its subfamilies, monophyly of the clade "LAMPO" (subfamilies: Lithocolletinae, Acrocercopinae, Marmarinae, Phyllocnistinae, and Oecophyllembiinae) and relationships of its subclade "AMO" (subfamilies: Acrocercopinae, Marmarinae, and Oecophyllembiinae) were strongly supported. A sister-group relationship of Ornixolinae to the remainder of the family, and a monophyletic leaf roller lineage (Callicercops V ari + Parornichinae) + Gracillariinae, as sister to the "LAMPO" clade were supported by the most likely tree. Dating analyses indicate a mid-Cretaceous (105.3 Ma) origin of the family, followed by a rapid diversification into the nine subfamilies predating the Cretaceous-Palaeogene extinction. We hypothesize that advanced larval behaviours, such as making keeled or tentiform blotch mines, rolling leaves and galling, allowed gracillariids to better avoid larval parasitoids allowing them to further diversify. Finally, we stabilize the classification by formally re-establishing the subfamily ranks of Marmarinae stat.rev., Oecophyllembiinae stat.rev. and Parornichinae stat.rev., and erect a new subfamily, Callicercopinae Li, Ohshima and Kawahara to accommodate the enigmatic genus Callicercops.

We provide a new, annotated genome assembly of Neomicropteryx cornuta, a species of the so-called “mandibulate archaic moths” (Lepidoptera: Micropterigidae). These moths belong to a lineage that is thought to have split from all other Lepidoptera more than 300 million years ago and are consequently vital to understanding the early evolution of superorder Amphiesmenoptera, which contains the order Lepidoptera (butterflies and moths) and its sister order Trichoptera (caddisflies). Using PacBio HiFi sequencing reads, we assembled a highly-contiguous genome with a contig N50 of nearly 17 Mbp. The assembled genome length of 541,115,538 bp is about half the length of the largest published Amphiesmenoptera genome (Limnephilus lunatus, Trichoptera) and double the length of the smallest (Papilio polytes, Lepidoptera). We find high recovery of universal single copy orthologs with 98.1% of BUSCO genes present and provide a genome annotation of 15,643 genes aided by resolved isoforms from PacBio IsoSeq data. This high-quality genome assembly provides an important resource for studying ecological and evolutionary transitions in the early evolution of Amphiesmenoptera.