Genome-enabled insights into the biology of thrips as crop pests

• Autores: Rotenberg, Dorith; Baumann, Aaron A.; Ben Mahmoud, Sulley; Christiaens, Olivier; Dermauw, Wannes; Ioannidis, Panagiotis; Jacobs, Chris G. C.; Vargas Jentzsch, Iris M.; Oliver, Jonathan E.; Poelchau, Monica F.; Rajarapu, Swapna Priya; Schneweis, Derek J.; Snoeck, Simon; Taning, Clauvis N. T.; Wei, Dong; Widana Gamage, Shirani M. K.; Hughes, Daniel S. T.; Murali, Shwetha C.; Bailey, Samuel T.; Bejerman, Nicolas; Holmes, Christopher J.; Jennings, Emily C.; Rosendale, Andrew J.; Rosselot, Andrew; Hervey, Kaylee; Schneweis, Brandi A.; Cheng, Sammy; Childers, Christopher; Simão, Felipe A.; Dietzgen, Ralf G.; Chao, Hsu; Dinh, Huyen; Doddapaneni, Harsha Vardhan; Dugan, Shannon; Han, Yi; Lee, Sandra L.; Muzny, Donna M.; Qu, Jiaxin; Worley, Kim C.; Benoit, Joshua B.; Friedrich, Markus; Jones, Jeffery W.; Panfilio, Kristen A.; Park, Yoonseong; Robertson, Hugh M.; Smagghe, Guy; Ullman, Diane E.; van der Zee, Maurijn; Van Leeuwen, Thomas; Veenstra, Jan A.; Waterhouse, Robert M.; Weirauch, Matthew T.; Werren, John H.; Whitfield, Anna E.; Zdobnov, Evgeny M.; Gibbs, Richard A.; Richards, Stephen
• Año de publicación: 2020
• Idioma: inglés
• Tipo de recurso: artículo
• Materia: CHEMOSENSORY RECEPTORS; DETOXIFICATION; HEMIPTEROID ASSEMBLAGE; INNATE IMMUNITY; INSECT GENOMICS; OPSINS; SALIVARY GLANDS; THYSANOPTERA; TOSPOVIRUS; WESTERN FLOWER THRIPS
• Institución: Consejo Nacional de Investigaciones Científicas y Técnicas

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.
Fil: Rotenberg, Dorith. North Carolina State University; Estados Unidos
Fil: Baumann, Aaron A.. University of Tennessee; Estados Unidos
Fil: Ben Mahmoud, Sulley. University of California at Davis; Estados Unidos
Fil: Christiaens, Olivier. University of Ghent; Bélgica
Fil: Dermauw, Wannes. University of Ghent; Bélgica
Fil: Ioannidis, Panagiotis. Institute of Molecular Biology and Biotechnology; Grecia. Université de Genève Faculté de Médecine; Suiza
Fil: Jacobs, Chris G. C.. Leiden University; Países Bajos
Fil: Vargas Jentzsch, Iris M.. Universitat zu Köln; Alemania
Fil: Oliver, Jonathan E.. University of Georgia; Estados Unidos
Fil: Poelchau, Monica F.. United States Department of Agriculture. Agriculture Research Service; Estados Unidos
Fil: Rajarapu, Swapna Priya. North Carolina State University; Estados Unidos
Fil: Schneweis, Derek J.. Kansas State University; Estados Unidos
Fil: Snoeck, Simon. University of Ghent; Bélgica. University of Washington; Estados Unidos
Fil: Taning, Clauvis N. T.. University of Ghent; Bélgica
Fil: Wei, Dong. University of Ghent; Bélgica. Southwest University; China
Fil: Widana Gamage, Shirani M. K.. University Of Ruhuna; Sri Lanka
Fil: Hughes, Daniel S. T.. Baylor College of Medicine;
Fil: Murali, Shwetha C.. Baylor College of Medicine;
Fil: Bailey, Samuel T.. University of Cincinnati; Estados Unidos
Fil: Bejerman, Nicolas. Instituto Nacional de Tecnología Agropecuaria. Centro Regional Buenos Aires; Argentina. Instituto Nacional de Tecnología Agropecuaria. Centro de Investigaciones Agropecuarias. Unidad de Fitopatología y Modelización Agrícola - Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Córdoba. Unidad de Fitopatología y Modelización Agrícola; Argentina
Fil: Holmes, Christopher J.. University of Cincinnati; Estados Unidos
Fil: Jennings, Emily C.. University of Cincinnati; Estados Unidos
Fil: Rosendale, Andrew J.. University of Cincinnati; Estados Unidos. Mount Saint Joseph University; Estados Unidos
Fil: Rosselot, Andrew. University of Cincinnati; Estados Unidos
Fil: Hervey, Kaylee. Kansas State University; Estados Unidos
Fil: Schneweis, Brandi A.. Kansas State University; Estados Unidos
Fil: Cheng, Sammy. University Of Rochester; Estados Unidos
Fil: Childers, Christopher. United States Department of Agriculture. Agriculture Research Service; Estados Unidos
Fil: Simão, Felipe A.. Université de Genève Faculté de Médecine; Suiza
Fil: Dietzgen, Ralf G.. The University of Queensland; Australia. University of Queensland; Australia
Fil: Chao, Hsu. Baylor College Of Medicine; Estados Unidos
Fil: Dinh, Huyen. Baylor College Of Medicine; Estados Unidos
Fil: Doddapaneni, Harsha Vardhan. Baylor College Of Medicine; Estados Unidos
Fil: Dugan, Shannon. Baylor College Of Medicine; Estados Unidos
Fil: Han, Yi. Baylor College Of Medicine; Estados Unidos
Fil: Lee, Sandra L.. Baylor College Of Medicine; Estados Unidos
Fil: Muzny, Donna M.. Baylor College Of Medicine; Estados Unidos
Fil: Qu, Jiaxin. Baylor College Of Medicine; Estados Unidos
Fil: Worley, Kim C.. Baylor College Of Medicine; Estados Unidos
Fil: Benoit, Joshua B.. University of Cincinnati; Estados Unidos
Fil: Friedrich, Markus. Wayne State University (wayne State University);
Fil: Jones, Jeffery W.. Wayne State University (wayne State University);
Fil: Panfilio, Kristen A.. Universitat zu Köln; Alemania
Fil: Park, Yoonseong. Kansas State University; Estados Unidos
Fil: Robertson, Hugh M.. University of Illinois. Urbana - Champaign; Estados Unidos
Fil: Smagghe, Guy. University of Ghent; Bélgica. Southwest University; China
Fil: Ullman, Diane E.. University of California at Davis; Estados Unidos
Fil: van der Zee, Maurijn. Leiden University; Países Bajos
Fil: Van Leeuwen, Thomas. University of Ghent; Bélgica
Fil: Veenstra, Jan A.. Universite de Bordeaux; Francia
Fil: Waterhouse, Robert M.. Universite de Lausanne; Suiza
Fil: Weirauch, Matthew T.. University of Cincinnati; Estados Unidos
Fil: Werren, John H.. University Of Rochester; Estados Unidos
Fil: Whitfield, Anna E.. North Carolina State University; Estados Unidos
Fil: Zdobnov, Evgeny M.. Université de Genève. Faculté de Médecine; Suiza
Fil: Gibbs, Richard A.. Baylor College of Medicine;
Fil: Richards, Stephen. Baylor College of Medicine;