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Genome-enabled insights into the biology of thrips as crop pests
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(2020) Genome-enabled insights into the biology of thrips as crop pests. BMC Biology, 18 (1). 142. doi:10.1186/s12915-020-00862-9 ISSN 1741-7007.
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WRAP-Genome-enabled-insights-biology-thrips-crop-pests-Panfilio-2020.pdf - Published Version - Requires a PDF viewer. Available under License Creative Commons Attribution 4.0. Download (3675Kb) | Preview |
Official URL: https://doi.org/10.1186/s12915-020-00862-9
Abstract
Background: The western flower thrips, Frankliniella occidentalis (Pergande), is a globally invasive pest and plant virus vector on a wide array of food, fiber, and ornamental crops. The underlying genetic mechanisms of the processes governing thrips pest and vector biology, feeding behaviors, ecology, and insecticide resistance are largely unknown. To address this gap, we present the F. occidentalis draft genome assembly and official gene set.
Results: We report on the first genome sequence for any member of the insect order Thysanoptera. Benchmarking Universal Single-Copy Ortholog (BUSCO) assessments of the genome assembly (size = 415.8 Mb, scaffold N50 = 948.9 kb) revealed a relatively complete and well-annotated assembly in comparison to other insect genomes. The genome is unusually GC-rich (50%) compared to other insect genomes to date. The official gene set (OGS v1.0) contains 16,859 genes, of which ~ 10% were manually verified and corrected by our consortium. We focused on manual annotation, phylogenetic, and expression evidence analyses for gene sets centered on primary themes in the life histories and activities of plant-colonizing insects. Highlights include the following: (1) divergent clades and large expansions in genes associated with environmental sensing (chemosensory receptors) and detoxification (CYP4, CYP6, and CCE enzymes) of substances encountered in agricultural environments; (2) a comprehensive set of salivary gland genes supported by enriched expression; (3) apparent absence of members of the IMD innate immune defense pathway; and (4) developmental- and sex-specific expression analyses of genes associated with progression from larvae to adulthood through neometaboly, a distinct form of maturation differing from either incomplete or complete metamorphosis in the Insecta.
Conclusions: Analysis of the F. occidentalis genome offers insights into the polyphagous behavior of this insect pest that finds, colonizes, and survives on a widely diverse array of plants. The genomic resources presented here enable a more complete analysis of insect evolution and biology, providing a missing taxon for contemporary insect genomics-based analyses. Our study also offers a genomic benchmark for molecular and evolutionary investigations of other Thysanoptera species.
Item Type: | Journal Article | |||||||||||||||||||||||||||||||||
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Subjects: | Q Science > QL Zoology | |||||||||||||||||||||||||||||||||
Divisions: | Faculty of Science, Engineering and Medicine > Science > Life Sciences (2010- ) | |||||||||||||||||||||||||||||||||
SWORD Depositor: | Library Publications Router | |||||||||||||||||||||||||||||||||
Library of Congress Subject Headings (LCSH): | Frankliniella occidentalis -- Genome mapping, Frankliniella occidentalis -- Behavior, Frankliniella occidentalis -- Control | |||||||||||||||||||||||||||||||||
Journal or Publication Title: | BMC Biology | |||||||||||||||||||||||||||||||||
Publisher: | BioMed Central | |||||||||||||||||||||||||||||||||
ISSN: | 1741-7007 | |||||||||||||||||||||||||||||||||
Official Date: | 19 October 2020 | |||||||||||||||||||||||||||||||||
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Volume: | 18 | |||||||||||||||||||||||||||||||||
Number: | 1 | |||||||||||||||||||||||||||||||||
Article Number: | 142 | |||||||||||||||||||||||||||||||||
DOI: | 10.1186/s12915-020-00862-9 | |||||||||||||||||||||||||||||||||
Status: | Peer Reviewed | |||||||||||||||||||||||||||||||||
Publication Status: | Published | |||||||||||||||||||||||||||||||||
Access rights to Published version: | Open Access (Creative Commons) | |||||||||||||||||||||||||||||||||
Date of first compliant deposit: | 26 October 2020 | |||||||||||||||||||||||||||||||||
Date of first compliant Open Access: | 26 October 2020 | |||||||||||||||||||||||||||||||||
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