Evidence map›Paper›PMID 33070780›Full record

ArticleBMC biology2020

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

Dorith Rotenberg, Aaron A Baumann, Sulley Ben-Mahmoud, Olivier Christiaens, Wannes Dermauw, Panagiotis Ioannidis, Chris G C Jacobs, Iris M Vargas Jentzsch, Jonathan E Oliver, Monica F Poelchau and 47 more

Erratum issuedOpen access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in BMC biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 49 papers.

0numbers the graph read from it
0cells of the map it votes in
49citing papers in PubMed
10.7field-weighted citation impact, top 1% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

49 citing papers in PubMed, 96 citations in OpenAlex.

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  14. Eavesdropping the pivotal defensive representatives of plant-thrips interaction.Physiology and molecular biology of plants : an international journal of functional plant biology · 2025
    Review
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4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

57 authors at 20 institutions in 11 countries.

Dorith RotenbergDepartment of Entomology and Plant Pathology, North Carolina State University, Raleigh, NC, 27695, USA. drotenb@ncsu.edu.ORCID 0000-0002-9018-8822
Aaron A BaumannVirology Section, College of Veterinary Medicine, University of Tennessee, A239 VTH, 2407 River Drive, Knoxville, TN, 37996, USA.
Sulley Ben-MahmoudDepartment of Entomology and Nematology, University of California Davis, Davis, CA, 95616, USA.
Olivier ChristiaensLaboratory of Agrozoology, Department of Plants and Crops, Ghent University, Coupure Links 653, 9000, Ghent, Belgium.
Wannes DermauwLaboratory of Agrozoology, Department of Plants and Crops, Ghent University, Coupure Links 653, 9000, Ghent, Belgium.
Panagiotis IoannidisInstitute of Molecular Biology and Biotechnology, Foundation for Research and Technology-Hellas, Vassilika Vouton, 70013, Heraklion, Greece.
Chris G C JacobsInstitute of Biology, Leiden University, 2333 BE, Leiden, The Netherlands.
Iris M Vargas JentzschInstitute for Zoology: Developmental Biology, University of Cologne, 50674, Cologne, Germany.
Jonathan E OliverDepartment of Plant Pathology, University of Georgia - Tifton Campus, Tifton, GA, 31793-5737, USA.
Monica F PoelchauNational Agricultural Library, USDA-ARS, Beltsville, MD, 20705, USA.
Swapna Priya RajarapuDepartment of Entomology and Plant Pathology, North Carolina State University, Raleigh, NC, 27695, USA.
Derek J SchneweisDepartment of Plant Pathology, Kansas State University, Manhattan, KS, 66506, USA.
Simon SnoeckLaboratory of Agrozoology, Department of Plants and Crops, Ghent University, Coupure Links 653, 9000, Ghent, Belgium.
Clauvis N T TaningLaboratory of Agrozoology, Department of Plants and Crops, Ghent University, Coupure Links 653, 9000, Ghent, Belgium.
Dong WeiLaboratory of Agrozoology, Department of Plants and Crops, Ghent University, Coupure Links 653, 9000, Ghent, Belgium.
Shirani M K Widana GamageDepartment of Botany, University of Ruhuna, Matara, Sri Lanka.
Daniel S T HughesHuman Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
Shwetha C MuraliHuman Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
Samuel T BaileyDepartment of Biological Sciences, University of Cincinnati, Cincinnati, OH, 45221, USA.
Nicolas E BejermanIPAVE-CIAP-INTA, 5020, Cordoba, Argentina.
Christopher J HolmesDepartment of Biological Sciences, University of Cincinnati, Cincinnati, OH, 45221, USA.
Emily C JenningsDepartment of Biological Sciences, University of Cincinnati, Cincinnati, OH, 45221, USA.
Andrew J RosendaleDepartment of Biological Sciences, University of Cincinnati, Cincinnati, OH, 45221, USA.
Andrew RosselotDepartment of Biological Sciences, University of Cincinnati, Cincinnati, OH, 45221, USA.
Kaylee HerveyDepartment of Plant Pathology, Kansas State University, Manhattan, KS, 66506, USA.
Brandi A SchneweisDepartment of Plant Pathology, Kansas State University, Manhattan, KS, 66506, USA.
Sammy ChengDepartment of Biology, University of Rochester, Rochester, NY, 14627, USA.
Christopher ChildersNational Agricultural Library, USDA-ARS, Beltsville, MD, 20705, USA.
Felipe A SimãoDepartment of Genetic Medicine and Development, University of Geneva Medical School, and Swiss Institute of Bioinformatics, Geneva, Switzerland.
Ralf G DietzgenQueensland Alliance for Agriculture and Food Innovation, The University of Queensland, St. Lucia, QLD, 4072, Australia.
Hsu ChaoHuman Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
Huyen DinhHuman Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
Harsha Vardhan DoddapaneniHuman Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
Shannon DuganHuman Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
Yi HanHuman Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
Sandra L LeeHuman Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
Donna M MuznyHuman Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
Jiaxin QuHuman Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
Kim C WorleyHuman Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
Joshua B BenoitDepartment of Biological Sciences, University of Cincinnati, Cincinnati, OH, 45221, USA.
Markus FriedrichDepartment of Biological Sciences, Wayne State University, Detroit, MI, 48202, USA.
Jeffery W JonesDepartment of Biological Sciences, Wayne State University, Detroit, MI, 48202, USA.
Kristen A PanfilioInstitute for Zoology: Developmental Biology, University of Cologne, 50674, Cologne, Germany.
Yoonseong ParkDepartment of Entomology, Kansas State University, Manhattan, KS, 66506, USA.
Hugh M RobertsonDepartment of Entomology, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA.
Guy SmaggheLaboratory of Agrozoology, Department of Plants and Crops, Ghent University, Coupure Links 653, 9000, Ghent, Belgium.
Diane E UllmanDepartment of Entomology and Nematology, University of California Davis, Davis, CA, 95616, USA.
Maurijn van der ZeeInstitute of Biology, Leiden University, 2333 BE, Leiden, The Netherlands.
Thomas Van LeeuwenLaboratory of Agrozoology, Department of Plants and Crops, Ghent University, Coupure Links 653, 9000, Ghent, Belgium.
Jan A VeenstraINCIA UMR 5287 CNRS, University of Bordeaux, Pessac, France.
Robert M WaterhouseDepartment of Ecology and Evolution, Swiss Institute of Bioinformatics, University of Lausanne, 1015, Lausanne, Switzerland.
Matthew T WeirauchCenter for Autoimmune Genomics and Etiology, Divisions of Biomedical Informatics and Developmental Biology, Cincinnati Children's Hospital Medical Center, Cincinnati, OH, 45229, USA.
John H WerrenDepartment of Biology, University of Rochester, Rochester, NY, 14627, USA.
Anna E WhitfieldDepartment of Entomology and Plant Pathology, North Carolina State University, Raleigh, NC, 27695, USA.
Evgeny M ZdobnovDepartment of Genetic Medicine and Development, University of Geneva Medical School, and Swiss Institute of Bioinformatics, Geneva, Switzerland.
Richard A GibbsHuman Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
Stephen RichardsHuman Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
Baylor College of Medicine · USUniversity of Cincinnati · USGhent University · BEKansas State University · USNorth Carolina State University · USUniversity of Geneva · CHLeiden University · NLNational Agricultural Library · USSouthwest University · CNUniversity of California, Davis · USUniversity of Cologne · DEUniversity of Rochester · USWayne State University · USCentre National de la Recherche Scientifique · FRCincinnati Children's Hospital Medical Center · USMount St. Joseph University · USSIB Swiss Institute of Bioinformatics · CHThe University of Queensland · AUUniversity of Georgia · USUniversity of Illinois Urbana-Champaign · US

Funding

The Human Genome Sequencing CenterU54HG003273 · NHGRI · BAYLOR COLLEGE OF MEDICINE · PI GIBBS, RICHARD A · 2004 to 2015
$341.3M
NHGRI NIH HHS U54 HG003273
6 · The paper itself

Abstract

backgroundThe 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.

resultsWe 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.

conclusionsAnalysis 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.

Indexed as

Genome, InsectLife History TraitsTranscriptomeAnimalsCrops, AgriculturalFeeding BehaviorFood ChainImmunity, InnatePerceptionPhylogenyReproductionThysanopteraChemosensory receptorsDetoxificationHemipteroid assemblageInnate immunityInsect genomicsOpsinsSalivary glandsThysanopteraTospovirusWestern flower thrips

Identifiers

PMID33070780
PMCPMC7570057
OpenAlexW3093253146

What OpenQuestion holds

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LicenceCC BY
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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.