Dataset Information

A model species for agricultural pest genomics: the genome of the Colorado potato beetle, Leptinotarsa decemlineata (Coleoptera: Chrysomelidae).

ABSTRACT: 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.

SUBMITTER: Schoville SD

PROVIDER: S-EPMC5792627 | biostudies-literature | 2018 Jan

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

A model species for agricultural pest genomics: the genome of the Colorado potato beetle, Leptinotarsa decemlineata (Coleoptera: Chrysomelidae).

Schoville Sean D SD Chen Yolanda H YH Andersson Martin N MN Benoit Joshua B JB Bhandari Anita A Bowsher Julia H JH Brevik Kristian K Cappelle Kaat K Chen Mei-Ju M MM Childers Anna K AK Childers Christopher C Christiaens Olivier O Clements Justin J Didion Elise M EM Elpidina Elena N EN Engsontia Patamarerk P Friedrich Markus M García-Robles Inmaculada I Gibbs Richard A RA Goswami Chandan C Grapputo Alessandro A Gruden Kristina K Grynberg Marcin M Henrissat Bernard B Jennings Emily C EC Jones Jeffery W JW Kalsi Megha M Khan Sher A SA Kumar Abhishek A Li Fei F Lombard Vincent V Ma Xingzhou X Martynov Alexander A Miller Nicholas J NJ Mitchell Robert F RF Munoz-Torres Monica M Muszewska Anna A Oppert Brenda B Palli Subba Reddy SR Panfilio Kristen A KA Pauchet Yannick Y Perkin Lindsey C LC Petek Marko M Poelchau Monica F MF Record Éric É Rinehart Joseph P JP Robertson Hugh M HM Rosendale Andrew J AJ Ruiz-Arroyo Victor M VM Smagghe Guy G Szendrei Zsofia Z Thomas Gregg W C GWC Torson Alex S AS Vargas Jentzsch Iris M IM Weirauch Matthew T MT Yates Ashley D AD Yocum George D GD Yoon June-Sun JS Richards Stephen S

Scientific reports 20180131 1

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 ...[more]

PMID: 29386578

Similar Datasets

Project description:BackgroundThe Colorado potato beetle (Leptinotarsa decemlineata) is a major pest and a serious threat to potato cultivation throughout the northern hemisphere. Despite its high importance for invasion biology, phenology and pest management, little is known about L. decemlineata from a genomic perspective. We subjected European L. decemlineata adult and larval transcriptome samples to 454-FLX massively-parallel DNA sequencing to characterize a basal set of genes from this species. We created a combined assembly of the adult and larval datasets including the publicly available midgut larval Roche 454 reads and provided basic annotation. We were particularly interested in diapause-specific genes and genes involved in pesticide and Bacillus thuringiensis (Bt) resistance.ResultsUsing 454-FLX pyrosequencing, we obtained a total of 898,048 reads which, together with the publicly available 804,056 midgut larval reads, were assembled into 121,912 contigs. We established a repository of genes of interest, with 101 out of the 108 diapause-specific genes described in Drosophila montana; and 621 contigs involved in insecticide resistance, including 221 CYP450, 45 GSTs, 13 catalases, 15 superoxide dismutases, 22 glutathione peroxidases, 194 esterases, 3 ADAM metalloproteases, 10 cadherins and 98 calmodulins. We found 460 putative miRNAs and we predicted a significant number of single nucleotide polymorphisms (29,205) and microsatellite loci (17,284).ConclusionsThis report of the assembly and annotation of the transcriptome of L. decemlineata offers new insights into diapause-associated and insecticide-resistance-associated genes in this species and provides a foundation for comparative studies with other species of insects. The data will also open new avenues for researchers using L. decemlineata as a model species, and for pest management research. Our results provide the basis for performing future gene expression and functional analysis in L. decemlineata and improve our understanding of the biology of this invasive species at the molecular level.

Dataset Information

A model species for agricultural pest genomics: the genome of the Colorado potato beetle, Leptinotarsa decemlineata (Coleoptera: Chrysomelidae).

Publications

A model species for agricultural pest genomics: the genome of the Colorado potato beetle, Leptinotarsa decemlineata (Coleoptera: Chrysomelidae).

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets