The Colorado potato beetle is one of the most challenging agricultural pests to manage. It has shown a spectacular ability to adapt to a variety of solanaceaeous plants and variable climates during its global invasion, and, notably, to rapidly evolve insecticide resistance. To examine evidence of rapid evolutionary change, and to understand the genetic basis of herbivory and insecticide resistance, we tested for structural and functional genomic changes relative to other arthropod species using genome sequencing, transcriptomics, and community annotation. Two factors that might facilitate rapid evolutionary change include transposable elements, which comprise at least 17% of the genome and are rapidly evolving compared to other Coleoptera, and high levels of nucleotide diversity in rapidly growing pest populations. Adaptations to plant feeding are evident in gene expansions and differential expression of digestive enzymes in gut tissues, as well as expansions of gustatory receptors for bitter tasting. Surprisingly, the suite of genes involved in insecticide resistance is similar to other beetles. Finally, duplications in the RNAi pathway might explain why Leptinotarsa decemlineata has high sensitivity to dsRNA. The L. decemlineata genome provides opportunities to investigate a broad range of phenotypes and to develop sustainable methods to control this widely successful pest.
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We would like to acknowledge the following funding sources: sequencing, assembly and automated annotation was supported by NIH grant NHGRI U54 HG003273 to RAG; the UVM Agricultural Experiment Station Hatch grant to YHC (VT-H02010); the NIH postdoctoral training grant to RFM (K12 GM000708); MMT’s work with Apollo was supported by NIH grants (5R01GM080203 from NIGMS, and 5R01HG004483 from NHGRI) and by the Director, Office of Science, Office of Basic Energy Sciences, of the U.S. Department of Energy (contract No. DE-AC02-05CH11231); the National Science Centre (2012/07/D/NZ2/04286) and Ministry of Science and Higher Education scholarship to AM.
Supplementary information accompanies this paper at https://doi.org/10.1038/s41598-018-20154-1.
All data generated or analyzed during this study have been made publicly available (see Methods for NCBI accession numbers), or included in this published article and its supplementary information. The genome assembly and official gene sets can be accessed at: https://data. nal.usda.gov/dataset/leptinotarsa-decemlineata-genome-assembly-10_5667, https://data.nal.usda.gov/ dataset/leptinotarsa-decemlineata-genome-annotations-v053_5668 and https://data.nal.usda.gov/dataset/ leptinotarsa-decemlineata-ofcial-gene-set-v11.
Schoville, Sean D.; Chen, Yolanda H.; Andersson, Martin N.; Benoit, Joshua B.; Bhandari, Anita; Bowsher, Julia H.; Brevik, Kristian; Cappelle, Kaat; Chen, Mei-Ju M.; Childers, Anna K.; Childers, Christopher; Christiaens, Olivier; Clements, Justin; Didion, Elise M.; Elpidina, Elena N.; Engsontia, Patamarerk; Friedrich, Markus; García-Robles, Inmaculada; Gibbs, Richard A.; Goswami, Chandan; Grapputo, Alessandro; Gruden, Kristina; Grynberg, Marcin; Henrissat, Bernard; Jennings, Emily C.; Jones, Jeffery W.; Kalsi, Megha; Khan, Sher A.; Kumar, Abhishek; Li, Fei; Lombard, Vincent; Palli, Subba Reddy; and Yoon, June-Sun, "A Model Species for Agricultural Pest Genomics: The Genome of the Colorado Potato Beetle, Leptinotarsa decemlineata (Coleoptera: Chrysomelidae)" (2018). Entomology Faculty Publications. 154.