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Guinet B, Leobold M, Herniou EA, Bloin P, Burlet N, Bredlau J, Navratil V, Ravallec M, Uzbekov R, Kester K, Gundersen Rindal D, Drezen JM, Varaldi J, Bézier A. A novel and diverse family of filamentous DNA viruses associated with parasitic wasps. Virus Evol 2024; 10:veae022. [PMID: 38617843 PMCID: PMC11013392 DOI: 10.1093/ve/veae022] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2023] [Revised: 12/20/2023] [Accepted: 02/23/2024] [Indexed: 04/16/2024] Open
Abstract
Large dsDNA viruses from the Naldaviricetes class are currently composed of four viral families infecting insects and/or crustaceans. Since the 1970s, particles described as filamentous viruses (FVs) have been observed by electronic microscopy in several species of Hymenoptera parasitoids but until recently, no genomic data was available. This study provides the first comparative morphological and genomic analysis of these FVs. We analyzed the genomes of seven FVs, six of which were newly obtained, to gain a better understanding of their evolutionary history. We show that these FVs share all genomic features of the Naldaviricetes while encoding five specific core genes that distinguish them from their closest relatives, the Hytrosaviruses. By mining public databases, we show that FVs preferentially infect Hymenoptera with parasitoid lifestyle and that these viruses have been repeatedly integrated into the genome of many insects, particularly Hymenoptera parasitoids, overall suggesting a long-standing specialization of these viruses to parasitic wasps. Finally, we propose a taxonomical revision of the class Naldaviricetes in which FVs related to the Leptopilina boulardi FV constitute a fifth family. We propose to name this new family, Filamentoviridae.
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Affiliation(s)
- Benjamin Guinet
- LBBE, UMR CNRS 5558, Universite Claude Bernard Lyon 1, 43 bd du 11 novembre 1918, Villeurbanne CEDEX F-69622, France
| | - Matthieu Leobold
- Institut de Recherche sur la Biologie de l'Insecte, UMR 7261 CNRS-Université de Tours, 20 Avenue Monge, Parc de Grandmont, Tours 37200, France
| | - Elisabeth A Herniou
- Institut de Recherche sur la Biologie de l'Insecte, UMR 7261 CNRS-Université de Tours, 20 Avenue Monge, Parc de Grandmont, Tours 37200, France
| | - Pierrick Bloin
- Institut de Recherche sur la Biologie de l'Insecte, UMR 7261 CNRS-Université de Tours, 20 Avenue Monge, Parc de Grandmont, Tours 37200, France
| | - Nelly Burlet
- LBBE, UMR CNRS 5558, Universite Claude Bernard Lyon 1, 43 bd du 11 novembre 1918, Villeurbanne CEDEX F-69622, France
| | - Justin Bredlau
- Department of Biology, Virginia Commonwealth University, 1000 W. Cary Street, Room 126, Richmond, VA 23284-9067, USA
| | - Vincent Navratil
- PRABI, Rhône-Alpes Bioinformatics Center, Université Lyon 1, 43 bd du 11 novembre 1918, Villeurbanne CEDEX 69622, France
- UMS 3601, Institut Français de Bioinformatique, IFB-Core, 2 rue Gaston Crémieu, Évry CEDEX 91057, France
- European Virus Bioinformatics Center, Leutragraben 1, Jena 07743, Germany
| | - Marc Ravallec
- Diversité, génomes et interactions microorganismes insectes (DGIMI), UMR 1333 INRA, Université de Montpellier 2, 2 Place Eugène Bataillon cc101, Montpellier CEDEX 5 34095, France
| | - Rustem Uzbekov
- Laboratory of Cell Biology and Electron Microscopy, Faculty of Medicine, Université de Tours, 10 bd Tonnelle, BP 3223, Tours CEDEX 37032, France
- Faculty of Bioengineering and Bioinformatics, Moscow State University, Leninskye Gory 73, Moscow 119992, Russia
| | - Karen Kester
- Department of Biology, Virginia Commonwealth University, 1000 W. Cary Street, Room 126, Richmond, VA 23284-9067, USA
| | - Dawn Gundersen Rindal
- USDA-ARS Invasive Insect Biocontrol and Behavior Laboratory, Beltsville, MD 20705, USA
| | - Jean-Michel Drezen
- Institut de Recherche sur la Biologie de l'Insecte, UMR 7261 CNRS-Université de Tours, 20 Avenue Monge, Parc de Grandmont, Tours 37200, France
| | - Julien Varaldi
- LBBE, UMR CNRS 5558, Universite Claude Bernard Lyon 1, 43 bd du 11 novembre 1918, Villeurbanne CEDEX F-69622, France
| | - Annie Bézier
- Institut de Recherche sur la Biologie de l'Insecte, UMR 7261 CNRS-Université de Tours, 20 Avenue Monge, Parc de Grandmont, Tours 37200, France
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2
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Truchon AR, Chase EE, Gann ER, Moniruzzaman M, Creasey BA, Aylward FO, Xiao C, Gobler CJ, Wilhelm SW. Kratosvirus quantuckense: the history and novelty of an algal bloom disrupting virus and a model for giant virus research. Front Microbiol 2023; 14:1284617. [PMID: 38098665 PMCID: PMC10720644 DOI: 10.3389/fmicb.2023.1284617] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2023] [Accepted: 10/30/2023] [Indexed: 12/17/2023] Open
Abstract
Since the discovery of the first "giant virus," particular attention has been paid toward isolating and culturing these large DNA viruses through Acanthamoeba spp. bait systems. While this method has allowed for the discovery of plenty novel viruses in the Nucleocytoviricota, environmental -omics-based analyses have shown that there is a wealth of diversity among this phylum, particularly in marine datasets. The prevalence of these viruses in metatranscriptomes points toward their ecological importance in nutrient turnover in our oceans and as such, in depth study into non-amoebal Nucleocytoviricota should be considered a focal point in viral ecology. In this review, we report on Kratosvirus quantuckense (née Aureococcus anophagefferens Virus), an algae-infecting virus of the Imitervirales. Current systems for study in the Nucleocytoviricota differ significantly from this virus and its relatives, and a litany of trade-offs within physiology, coding potential, and ecology compared to these other viruses reveal the importance of K. quantuckense. Herein, we review the research that has been performed on this virus as well as its potential as a model system for algal-virus interactions.
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Affiliation(s)
- Alexander R Truchon
- Department of Microbiology, University of Tennessee, Knoxville, Knoxville, TN, United States
| | - Emily E Chase
- Department of Microbiology, University of Tennessee, Knoxville, Knoxville, TN, United States
| | - Eric R Gann
- The Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, MD, United States
- Department of Surgery, Uniformed Services University of the Health Sciences, Bethesda, MD, United States
- Surgical Critical Care Initiative (SC2i), Department of Surgery, Uniformed Services University of the Health Sciences, Bethesda, MD, United States
| | - Mohammad Moniruzzaman
- Department of Marine Biology and Ecology, University of Miami, Miami, FL, United States
| | - Brooke A Creasey
- Department of Microbiology, University of Tennessee, Knoxville, Knoxville, TN, United States
| | - Frank O Aylward
- Department of Biological Sciences, Virginia Tech, Blacksburg, VA, United States
| | - Chuan Xiao
- Department of Chemistry and Biochemistry, The University of Texas at El Paso, El Paso, TX, United States
| | | | - Steven W Wilhelm
- Department of Microbiology, University of Tennessee, Knoxville, Knoxville, TN, United States
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3
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Mao M, Simmonds TJ, Stouthamer CM, Kehoe TM, Geib SM, Burke GR. A chromosome scale assembly of the parasitoid wasp Venturia canescens provides insight into the process of virus domestication. G3 (BETHESDA, MD.) 2023; 13:jkad137. [PMID: 37345948 PMCID: PMC10542567 DOI: 10.1093/g3journal/jkad137] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/10/2023] [Revised: 05/16/2023] [Accepted: 05/31/2023] [Indexed: 06/23/2023]
Abstract
The parasitoid wasp Venturia canescens is an important biological control agent of stored products moth pests and serves as a model to study the function and evolution of domesticated endogenous viruses (DEVs). The DEVs discovered in V. canescens are known as virus-like particles (VcVLPs), which are produced using nudivirus-derived components and incorporate wasp-derived virulence proteins instead of packaged nucleic acids. Previous studies of virus-derived components in the V. canescens genome identified 53 nudivirus-like genes organized in six gene clusters and several viral pseudogenes, but how VcVLP genes are organized among wasp chromosomes following their integration in the ancestral wasp genome is largely unknown. Here, we present a chromosomal scale genome of V. canescens consisting of 11 chromosomes and 56 unplaced small scaffolds. The genome size is 290.8 Mbp with a N50 scaffold size of 24.99 Mbp. A high-quality gene set including 11,831 protein-coding genes were produced using RNA-Seq data as well as publicly available peptide sequences from related Hymenoptera. A manual annotation of genes of viral origin produced 61 intact and 19 pseudogenized nudivirus-derived genes. The genome assembly revealed that two previously identified clusters were joined into a single cluster and a total of 5 gene clusters comprising of 60 intact nudivirus-derived genes were located in three chromosomes. In contrast, pseudogenes are dispersed among 8 chromosomes with only 4 pseudogenes associated with nudivirus gene clusters. The architecture of genes encoding VcVLP components suggests it originates from a recent virus acquisition and there is a link between the processes of dispersal and pseudogenization. This high-quality genome assembly and annotation represents the first chromosome-scale assembly for parasitoid wasps associated with VLPs, and is publicly available in the National Center for Biotechnology Information Genome and RefSeq databases, providing a valuable resource for future studies of DEVs in parasitoid wasps.
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Affiliation(s)
- Meng Mao
- Department of Entomology, University of Georgia, Athens, GA 30602, USA
| | - Tyler J Simmonds
- Tropical Pest Genetics and Molecular Biology Research Unit, USDA-ARS Daniel K Inouye U.S. Pacific Basin Agricultural Research Center, USDA-ARS, Hilo, HI 96720, USA
- Oak Ridge Institute for Science and Education, Oak Ridge Associated Universities, Oak Ridge, TN 37830, USA
| | | | - Tara M Kehoe
- Department of Entomology, University of Georgia, Athens, GA 30602, USA
| | - Scott M Geib
- Tropical Pest Genetics and Molecular Biology Research Unit, USDA-ARS Daniel K Inouye U.S. Pacific Basin Agricultural Research Center, USDA-ARS, Hilo, HI 96720, USA
| | - Gaelen R Burke
- Department of Entomology, University of Georgia, Athens, GA 30602, USA
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4
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Heisserer C, Selosse MA, Drezen JM. [Plants and animals biological functions obtained from viruses]. Med Sci (Paris) 2022; 38:1016-1027. [PMID: 36692281 DOI: 10.1051/medsci/2022171] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022] Open
Abstract
Viruses can provide new biological functions to plants and animals. Some viruses persisting at low levels in plants might confer resistance to stress and parasites. In animals, more numerous examples of genes originating from viruses and used by different organisms have been described. For examples these genes might contribute to protect from new infections, or to ensure communication between neurons or to enable placenta development. In parasitic wasps, a complex viral machinery has been conserved as an endogenous virus dispersed in the wasp genome, which produces virions. These virions infect the parasitized host resulting in the production of virulence factors that inhibit defense mechanisms against the parasite. Different organisms have used the same viral functions repeatedly during animal evolution.
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Affiliation(s)
- Camille Heisserer
- Institut de recherche sur la biologie de l'insecte, UMR 7261 CNRS-Université de Tours, Parc de Grandmont 37200 Tours, France
| | - Marc-André Selosse
- Institut de systématique, évolution, biodiversité, UMR 7205 MNHN-CNRS-SU-EPHE-UA, 12 rue Buffon 75005 Paris, France
| | - Jean-Michel Drezen
- Institut de recherche sur la biologie de l'insecte, UMR 7261 CNRS-Université de Tours, Parc de Grandmont 37200 Tours, France
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5
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Conserved Viral Transcription Plays a Key Role in Virus-Like Particle Production of the Parasitoid Wasp Venturia canescens. J Virol 2022; 96:e0052422. [PMID: 35678601 DOI: 10.1128/jvi.00524-22] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Nudiviruses are large double-stranded DNA viruses related to baculoviruses known to be endogenized in the genomes of certain parasitic wasp species. These wasp-virus associations allow the production of viral particles or virus-like particles that ensure wasp parasitism success within lepidopteran hosts. Venturia canescens is an ichneumonid wasp belonging to the Campopleginae subfamily that has endogenized nudivirus genes belonging to the Alphanudivirus genus to produce "virus-like particles" (Venturia canescens virus-like particles [VcVLPs]), which package proteic virulence factors. The main aim of this study was to determine whether alphanudivirus gene functions have been conserved following endogenization. The expression dynamics of alphanudivirus genes was monitored by a high throughput transcriptional approach, and the functional role of lef-4 and lef-8 genes predicted to encode viral RNA polymerase components was investigated by RNA interference. As described for baculovirus infections and for endogenized nudivirus genes in braconid wasp species producing bracoviruses, a transcriptional cascade involving early and late expressed alphanudivirus genes could be observed. The expression of lef-4 and lef-8 was also shown to be required for the expression of alphanudivirus late genes allowing correct particle formation. Together with previous literature, the results show that endogenization of nudiviruses in parasitoid wasps has repeatedly led to the conservation of the viral RNA polymerase function, allowing the production of viruses or viral-like particles that differ in composition but enable wasp parasitic success. IMPORTANCE This study shows that endogenization of a nudivirus genome in a Campopleginae parasitoid wasp has led to the conservation, as for endogenized nudiviruses in braconid parasitoid wasps, of the viral RNA polymerase function, required for the transcription of genes encoding viral particles involved in wasp parasitism success. We also showed for the first time that RNA interference (RNAi) can be successfully used to downregulate gene expression in this species, a model in behavioral ecology. This opens the opportunity to investigate the function of genes involved in other traits important for parasitism success, such as reproductive strategies and host choice. Fundamental data acquired on gene function in Venturia canescens are likely to be transferable to other parasitoid wasp species used in biological control programs. This study also renders possible the investigation of other nudivirus gene functions, for which little data are available.
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Drezen JM, Bézier A, Burke GR, Strand MR. Bracoviruses, ichnoviruses, and virus-like particles from parasitoid wasps retain many features of their virus ancestors. CURRENT OPINION IN INSECT SCIENCE 2022; 49:93-100. [PMID: 34954138 DOI: 10.1016/j.cois.2021.12.003] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/16/2021] [Revised: 12/08/2021] [Accepted: 12/12/2021] [Indexed: 06/14/2023]
Abstract
Animal genomes commonly contain genes or sequences that have been acquired from different types of viruses. The vast majority of these endogenous virus elements (EVEs) are inactive or consist of only a small number of components that show no evidence of cooption for new functions or interaction. Unlike most EVEs, bracoviruses (BVs), ichnoviruses (IVs) and virus-like particles (VLPs) in parasitoid wasps have evolved through retention and interaction of many genes from virus ancestors. Here, we discuss current understanding of BV, IV and VLP evolution along with associated implications for what constitutes a virus. We suggest that BVs and IVs are domesticated endogenous viruses (DEVs) that differ in several important ways from other known EVEs.
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Affiliation(s)
- Jean-Michel Drezen
- Institut de Recherche sur la Biologie de l'Insecte, UMR 7261 CNRS - Université de Tours, Tours, France.
| | - Annie Bézier
- Institut de Recherche sur la Biologie de l'Insecte, UMR 7261 CNRS - Université de Tours, Tours, France
| | - Gaelen R Burke
- Department of Entomology, University of Georgia, Athens, GA 30602, USA
| | - Michael R Strand
- Department of Entomology, University of Georgia, Athens, GA 30602, USA.
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7
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Petersen JM, Bézier A, Drezen JM, van Oers MM. The naked truth: An updated review on nudiviruses and their relationship to bracoviruses and baculoviruses. J Invertebr Pathol 2022; 189:107718. [DOI: 10.1016/j.jip.2022.107718] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2021] [Revised: 01/14/2022] [Accepted: 01/17/2022] [Indexed: 10/19/2022]
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8
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Burke GR, Hines HM, Sharanowski BJ. The Presence of Ancient Core Genes Reveals Endogenization from Diverse Viral Ancestors in Parasitoid Wasps. Genome Biol Evol 2021; 13:evab105. [PMID: 33988720 PMCID: PMC8325570 DOI: 10.1093/gbe/evab105] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 05/10/2021] [Indexed: 12/12/2022] Open
Abstract
The Ichneumonoidea (Ichneumonidae and Braconidae) is an incredibly diverse superfamily of parasitoid wasps that includes species that produce virus-like entities in their reproductive tracts to promote successful parasitism of host insects. Research on these entities has traditionally focused upon two viral genera Bracovirus (in Braconidae) and Ichnovirus (in Ichneumonidae). These viruses are produced using genes known collectively as endogenous viral elements (EVEs) that represent historical, now heritable viral integration events in wasp genomes. Here, new genome sequence assemblies for 11 species and 6 publicly available genomes from the Ichneumonoidea were screened with the goal of identifying novel EVEs and characterizing the breadth of species in lineages with known EVEs. Exhaustive similarity searches combined with the identification of ancient core genes revealed sequences from both known and novel EVEs. One species harbored a novel, independently derived EVE related to a divergent large double-stranded DNA (dsDNA) virus that manipulates behavior in other hymenopteran species. Although bracovirus or ichnovirus EVEs were identified as expected in three species, the absence of ichnoviruses in several species suggests that they are independently derived and present in two younger, less widespread lineages than previously thought. Overall, this study presents a novel bioinformatic approach for EVE discovery in genomes and shows that three divergent virus families (nudiviruses, the ancestors of ichnoviruses, and Leptopilina boulardi Filamentous Virus-like viruses) are recurrently acquired as EVEs in parasitoid wasps. Virus acquisition in the parasitoid wasps is a common process that has occurred in many more than two lineages from a diverse range of arthropod-infecting dsDNA viruses.
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Affiliation(s)
- Gaelen R Burke
- Department of Entomology, University of Georgia, Athens, Georgia, USA
| | - Heather M Hines
- Department of Biology and Department of Entomology, Pennsylvania State University, University Park, Pennsylvania, USA
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9
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Di Giovanni D, Lepetit D, Guinet B, Bennetot B, Boulesteix M, Couté Y, Bouchez O, Ravallec M, Varaldi J. A Behavior-Manipulating Virus Relative as a Source of Adaptive Genes for Drosophila Parasitoids. Mol Biol Evol 2021; 37:2791-2807. [PMID: 32080746 DOI: 10.1093/molbev/msaa030] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022] Open
Abstract
Some species of parasitic wasps have domesticated viral machineries to deliver immunosuppressive factors to their hosts. Up to now, all described cases fall into the Ichneumonoidea superfamily, which only represents around 10% of hymenoptera diversity, raising the question of whether such domestication occurred outside this clade. Furthermore, the biology of the ancestral donor viruses is completely unknown. Since the 1980s, we know that Drosophila parasitoids belonging to the Leptopilina genus, which diverged from the Ichneumonoidea superfamily 225 Ma, do produce immunosuppressive virus-like structure in their reproductive apparatus. However, the viral origin of these structures has been the subject of debate. In this article, we provide genomic and experimental evidence that those structures do derive from an ancestral virus endogenization event. Interestingly, its close relatives induce a behavior manipulation in present-day wasps. Thus, we conclude that virus domestication is more prevalent than previously thought and that behavior manipulation may have been instrumental in the birth of such associations.
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Affiliation(s)
- Deborah Di Giovanni
- Université de Lyon Université Lyon 1, CNRS, Laboratoire de Biométrie et Biologie Evolutive UMR 5558, Villeurbanne, France
| | - David Lepetit
- Université de Lyon Université Lyon 1, CNRS, Laboratoire de Biométrie et Biologie Evolutive UMR 5558, Villeurbanne, France
| | - Benjamin Guinet
- Université de Lyon Université Lyon 1, CNRS, Laboratoire de Biométrie et Biologie Evolutive UMR 5558, Villeurbanne, France
| | - Bastien Bennetot
- Université de Lyon Université Lyon 1, CNRS, Laboratoire de Biométrie et Biologie Evolutive UMR 5558, Villeurbanne, France.,Ecologie Systématique & Evolution (UMR 8079), Université Paris Sud, Orsay, France
| | - Matthieu Boulesteix
- Université de Lyon Université Lyon 1, CNRS, Laboratoire de Biométrie et Biologie Evolutive UMR 5558, Villeurbanne, France
| | - Yohann Couté
- Université de Grenoble Alpes, CEA, Inserm, IRIG-BGE, Grenoble, France
| | - Olivier Bouchez
- Institut National de la Recherche Agronomique (INRA), US 1426, GeT-PlaGe, Genotoul, Castanet-Tolosan, France
| | - Marc Ravallec
- UMR 1333 INRAE - Université Montpellier "Diversité, Génomes et Interactions Microorganismes-Insectes" (DGIMI), Montpellier, France
| | - Julien Varaldi
- Université de Lyon Université Lyon 1, CNRS, Laboratoire de Biométrie et Biologie Evolutive UMR 5558, Villeurbanne, France
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10
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Liu S, Sappington TW, Coates BS, Bonning BC. Nudivirus Sequences Identified from the Southern and Western Corn Rootworms (Coleoptera: Chrysomelidae). Viruses 2021; 13:v13020269. [PMID: 33572446 PMCID: PMC7916170 DOI: 10.3390/v13020269] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2021] [Revised: 02/01/2021] [Accepted: 02/02/2021] [Indexed: 01/08/2023] Open
Abstract
Analysis of pooled genomic short read sequence data revealed the presence of nudivirus-derived sequences from U.S. populations of both southern corn rootworm (SCR, Diabrotica undecimpunctata howardi Barber) and western corn rootworm (WCR, Diabrotica virgifera virgifera LeConte). A near complete nudivirus genome sequence was assembled from sequence data for an SCR population with relatively high viral titers. A total of 147,179 bp was assembled from five contigs that collectively encode 109 putative open reading frames (ORFs) including 20 nudivirus core genes. In contrast, genome sequence recovery was incomplete for a second nudivirus from WCR, although sequences derived from this virus were present in three geographically dispersed populations. Only 48,989 bp were assembled with 48 putative ORFs including 13 core genes, representing about 20% of a typical nudivirus genome. Phylogenetic analysis indicated that both corn rootworm nudiviruses grouped with the third known nudivirus of beetles, Oryctes rhinoceros nudivirus in the genus Alphanudivirus. On the basis of phylogenetic and additional analyses, we propose further taxonomic separation of nudiviruses within Alphanudivirus and Betanudivirus into two subfamilies and five genera. Identification of nudivirus-derived sequences from two species of corn rootworm highlights the diversity of viruses associated with these agricultural insect pests.
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Affiliation(s)
- Sijun Liu
- Department of Entomology, Iowa State University, Ames, IA 50011, USA;
| | - Thomas W. Sappington
- Corn Insects and Crop Genetics Research Unit, USDA-ARS, Ames, IA 50011, USA; (T.W.S.); (B.S.C.)
| | - Brad S. Coates
- Corn Insects and Crop Genetics Research Unit, USDA-ARS, Ames, IA 50011, USA; (T.W.S.); (B.S.C.)
| | - Bryony C. Bonning
- Department of Entomology and Nematology, University of Florida, Gainesville, FL 32611, USA
- Correspondence:
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11
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Gauthier J, Boulain H, van Vugt JJFA, Baudry L, Persyn E, Aury JM, Noel B, Bretaudeau A, Legeai F, Warris S, Chebbi MA, Dubreuil G, Duvic B, Kremer N, Gayral P, Musset K, Josse T, Bigot D, Bressac C, Moreau S, Periquet G, Harry M, Montagné N, Boulogne I, Sabeti-Azad M, Maïbèche M, Chertemps T, Hilliou F, Siaussat D, Amselem J, Luyten I, Capdevielle-Dulac C, Labadie K, Merlin BL, Barbe V, de Boer JG, Marbouty M, Cônsoli FL, Dupas S, Hua-Van A, Le Goff G, Bézier A, Jacquin-Joly E, Whitfield JB, Vet LEM, Smid HM, Kaiser L, Koszul R, Huguet E, Herniou EA, Drezen JM. Chromosomal scale assembly of parasitic wasp genome reveals symbiotic virus colonization. Commun Biol 2021; 4:104. [PMID: 33483589 PMCID: PMC7822920 DOI: 10.1038/s42003-020-01623-8] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2020] [Accepted: 12/10/2020] [Indexed: 02/06/2023] Open
Abstract
Endogenous viruses form an important proportion of eukaryote genomes and a source of novel functions. How large DNA viruses integrated into a genome evolve when they confer a benefit to their host, however, remains unknown. Bracoviruses are essential for the parasitism success of parasitoid wasps, into whose genomes they integrated ~103 million years ago. Here we show, from the assembly of a parasitoid wasp genome at a chromosomal scale, that bracovirus genes colonized all ten chromosomes of Cotesia congregata. Most form clusters of genes involved in particle production or parasitism success. Genomic comparison with another wasp, Microplitis demolitor, revealed that these clusters were already established ~53 mya and thus belong to remarkably stable genomic structures, the architectures of which are evolutionary constrained. Transcriptomic analyses highlight temporal synchronization of viral gene expression without resulting in immune gene induction, suggesting that no conflicts remain between ancient symbiotic partners when benefits to them converge.
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Affiliation(s)
- Jérémy Gauthier
- Institut de Recherche sur la Biologie de l’Insecte, UMR 7261 CNRS-Université de Tours, Faculté des Sciences et Techniques, Parc de Grandmont, 37200 Tours, France ,grid.466902.f0000 0001 2248 6951Geneva Natural History Museum, 1208 Geneva, Switzerland
| | - Hélène Boulain
- Institut de Recherche sur la Biologie de l’Insecte, UMR 7261 CNRS-Université de Tours, Faculté des Sciences et Techniques, Parc de Grandmont, 37200 Tours, France ,grid.418656.80000 0001 1551 0562EAWAG, Swiss Federal Institute of Aquatic Science and Technology, Dübendorf, Switzerland
| | - Joke J. F. A. van Vugt
- grid.418375.c0000 0001 1013 0288Department of Terrestrial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Droevendaalsesteeg 10, 6708 PB Wageningen, The Netherlands
| | - Lyam Baudry
- Institut Pasteur, Unité Régulation Spatiale des Génomes, UMR 3525, CNRS, Paris, 75015 France ,grid.462844.80000 0001 2308 1657Sorbonne Université, Collège Doctoral, 75005 Paris, France
| | - Emma Persyn
- grid.462350.6Sorbonne Université, INRAE, CNRS, IRD, UPEC, Univ. de Paris, Institute of Ecology and Environmental Science of Paris (iEES-Paris), 75005 Paris, France
| | - Jean-Marc Aury
- grid.8390.20000 0001 2180 5818Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, 91057 Evry, France
| | - Benjamin Noel
- grid.8390.20000 0001 2180 5818Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, 91057 Evry, France
| | - Anthony Bretaudeau
- grid.410368.80000 0001 2191 9284IGEPP, INRAE, Institut Agro, Univ Rennes, 35000 Rennes, France ,grid.420225.30000 0001 2298 7270Univ Rennes, Inria, CNRS, IRISA, 35000 Rennes, France
| | - Fabrice Legeai
- grid.410368.80000 0001 2191 9284IGEPP, INRAE, Institut Agro, Univ Rennes, 35000 Rennes, France ,grid.420225.30000 0001 2298 7270Univ Rennes, Inria, CNRS, IRISA, 35000 Rennes, France
| | - Sven Warris
- grid.4818.50000 0001 0791 5666Applied Bioinformatics, Wageningen University & Research, Wageningen, The Netherlands
| | - Mohamed A. Chebbi
- Institut de Recherche sur la Biologie de l’Insecte, UMR 7261 CNRS-Université de Tours, Faculté des Sciences et Techniques, Parc de Grandmont, 37200 Tours, France
| | - Géraldine Dubreuil
- Institut de Recherche sur la Biologie de l’Insecte, UMR 7261 CNRS-Université de Tours, Faculté des Sciences et Techniques, Parc de Grandmont, 37200 Tours, France
| | - Bernard Duvic
- grid.503158.aUniversité Montpellier, INRAE, DGIMI, 34095 Montpellier, France
| | - Natacha Kremer
- grid.462854.90000 0004 0386 3493Laboratoire de Biométrie et Biologie Evolutive Université de Lyon, Université Claude Bernard Lyon 1, CNRS, UMR 5558, 43 bd du 11 novembre 1918, bat. G. Mendel, 69622 Villeurbanne Cedex, France
| | - Philippe Gayral
- Institut de Recherche sur la Biologie de l’Insecte, UMR 7261 CNRS-Université de Tours, Faculté des Sciences et Techniques, Parc de Grandmont, 37200 Tours, France
| | - Karine Musset
- Institut de Recherche sur la Biologie de l’Insecte, UMR 7261 CNRS-Université de Tours, Faculté des Sciences et Techniques, Parc de Grandmont, 37200 Tours, France
| | - Thibaut Josse
- Institut de Recherche sur la Biologie de l’Insecte, UMR 7261 CNRS-Université de Tours, Faculté des Sciences et Techniques, Parc de Grandmont, 37200 Tours, France
| | - Diane Bigot
- Institut de Recherche sur la Biologie de l’Insecte, UMR 7261 CNRS-Université de Tours, Faculté des Sciences et Techniques, Parc de Grandmont, 37200 Tours, France
| | - Christophe Bressac
- Institut de Recherche sur la Biologie de l’Insecte, UMR 7261 CNRS-Université de Tours, Faculté des Sciences et Techniques, Parc de Grandmont, 37200 Tours, France
| | - Sébastien Moreau
- Institut de Recherche sur la Biologie de l’Insecte, UMR 7261 CNRS-Université de Tours, Faculté des Sciences et Techniques, Parc de Grandmont, 37200 Tours, France
| | - Georges Periquet
- Institut de Recherche sur la Biologie de l’Insecte, UMR 7261 CNRS-Université de Tours, Faculté des Sciences et Techniques, Parc de Grandmont, 37200 Tours, France
| | - Myriam Harry
- grid.460789.40000 0004 4910 6535Université Paris-Saclay, CNRS, IRD, UMR Évolution, Génomes, Comportement et Écologie, 91198 Gif-sur-Yvette, France
| | - Nicolas Montagné
- grid.462350.6Sorbonne Université, INRAE, CNRS, IRD, UPEC, Univ. de Paris, Institute of Ecology and Environmental Science of Paris (iEES-Paris), 75005 Paris, France
| | - Isabelle Boulogne
- grid.462350.6Sorbonne Université, INRAE, CNRS, IRD, UPEC, Univ. de Paris, Institute of Ecology and Environmental Science of Paris (iEES-Paris), 75005 Paris, France
| | - Mahnaz Sabeti-Azad
- grid.462350.6Sorbonne Université, INRAE, CNRS, IRD, UPEC, Univ. de Paris, Institute of Ecology and Environmental Science of Paris (iEES-Paris), 75005 Paris, France
| | - Martine Maïbèche
- grid.462350.6Sorbonne Université, INRAE, CNRS, IRD, UPEC, Univ. de Paris, Institute of Ecology and Environmental Science of Paris (iEES-Paris), 75005 Paris, France
| | - Thomas Chertemps
- grid.462350.6Sorbonne Université, INRAE, CNRS, IRD, UPEC, Univ. de Paris, Institute of Ecology and Environmental Science of Paris (iEES-Paris), 75005 Paris, France
| | - Frédérique Hilliou
- grid.435437.20000 0004 0385 8766Université Côte d’Azur, INRAE, CNRS, ISA, 06903 Sophia-Antipolis, France
| | - David Siaussat
- grid.462350.6Sorbonne Université, INRAE, CNRS, IRD, UPEC, Univ. de Paris, Institute of Ecology and Environmental Science of Paris (iEES-Paris), 75005 Paris, France
| | - Joëlle Amselem
- grid.507621.7Université Paris-Saclay, INRAE, URGI, 78026 Versailles, France
| | - Isabelle Luyten
- grid.507621.7Université Paris-Saclay, INRAE, URGI, 78026 Versailles, France
| | - Claire Capdevielle-Dulac
- grid.460789.40000 0004 4910 6535Université Paris-Saclay, CNRS, IRD, UMR Évolution, Génomes, Comportement et Écologie, 91198 Gif-sur-Yvette, France
| | - Karine Labadie
- grid.8390.20000 0001 2180 5818Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, 91057 Evry, France
| | - Bruna Laís Merlin
- grid.11899.380000 0004 1937 0722Insect Interactions Laboratory, Department of Entomology and Acarology, Luiz de Queiroz College of Agriculture (ESALQ), University of São Paulo, Piracicaba, São Paulo 13418-900 Brazil
| | - Valérie Barbe
- grid.8390.20000 0001 2180 5818Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, 91057 Evry, France
| | - Jetske G. de Boer
- grid.418375.c0000 0001 1013 0288Department of Terrestrial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Droevendaalsesteeg 10, 6708 PB Wageningen, The Netherlands ,grid.4818.50000 0001 0791 5666Laboratory of Entomology, Wageningen University, P.O. Box 16, Droevendaalsesteeg 1, 6708 PB Wageningen, The Netherlands ,grid.4830.f0000 0004 0407 1981Evolutionary Genetics, University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands
| | - Martial Marbouty
- Institut Pasteur, Unité Régulation Spatiale des Génomes, UMR 3525, CNRS, Paris, 75015 France
| | - Fernando Luis Cônsoli
- grid.11899.380000 0004 1937 0722Insect Interactions Laboratory, Department of Entomology and Acarology, Luiz de Queiroz College of Agriculture (ESALQ), University of São Paulo, Piracicaba, São Paulo 13418-900 Brazil
| | - Stéphane Dupas
- grid.460789.40000 0004 4910 6535Université Paris-Saclay, CNRS, IRD, UMR Évolution, Génomes, Comportement et Écologie, 91198 Gif-sur-Yvette, France
| | - Aurélie Hua-Van
- grid.460789.40000 0004 4910 6535Université Paris-Saclay, CNRS, IRD, UMR Évolution, Génomes, Comportement et Écologie, 91198 Gif-sur-Yvette, France
| | - Gaelle Le Goff
- grid.435437.20000 0004 0385 8766Université Côte d’Azur, INRAE, CNRS, ISA, 06903 Sophia-Antipolis, France
| | - Annie Bézier
- Institut de Recherche sur la Biologie de l’Insecte, UMR 7261 CNRS-Université de Tours, Faculté des Sciences et Techniques, Parc de Grandmont, 37200 Tours, France
| | - Emmanuelle Jacquin-Joly
- grid.462350.6Sorbonne Université, INRAE, CNRS, IRD, UPEC, Univ. de Paris, Institute of Ecology and Environmental Science of Paris (iEES-Paris), 75005 Paris, France
| | - James B. Whitfield
- Department of Entomology, 320 Morrill Hall, 505 South Goodwin Avenue, University of Illinois, Urbana, IL 61801 USA
| | - Louise E. M. Vet
- grid.418375.c0000 0001 1013 0288Department of Terrestrial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Droevendaalsesteeg 10, 6708 PB Wageningen, The Netherlands ,grid.4818.50000 0001 0791 5666Laboratory of Entomology, Wageningen University, P.O. Box 16, Droevendaalsesteeg 1, 6708 PB Wageningen, The Netherlands
| | - Hans M. Smid
- grid.4818.50000 0001 0791 5666Laboratory of Entomology, Wageningen University, P.O. Box 16, Droevendaalsesteeg 1, 6708 PB Wageningen, The Netherlands
| | - Laure Kaiser
- grid.460789.40000 0004 4910 6535Université Paris-Saclay, CNRS, IRD, UMR Évolution, Génomes, Comportement et Écologie, 91198 Gif-sur-Yvette, France
| | - Romain Koszul
- Institut Pasteur, Unité Régulation Spatiale des Génomes, UMR 3525, CNRS, Paris, 75015 France
| | - Elisabeth Huguet
- Institut de Recherche sur la Biologie de l’Insecte, UMR 7261 CNRS-Université de Tours, Faculté des Sciences et Techniques, Parc de Grandmont, 37200 Tours, France
| | - Elisabeth A. Herniou
- Institut de Recherche sur la Biologie de l’Insecte, UMR 7261 CNRS-Université de Tours, Faculté des Sciences et Techniques, Parc de Grandmont, 37200 Tours, France
| | - Jean-Michel Drezen
- Institut de Recherche sur la Biologie de l’Insecte, UMR 7261 CNRS-Université de Tours, Faculté des Sciences et Techniques, Parc de Grandmont, 37200 Tours, France
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12
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Salvia R, Scieuzo C, Grimaldi A, Fanti P, Moretta A, Franco A, Varricchio P, Vinson SB, Falabella P. Role of Ovarian Proteins Secreted by Toxoneuron nigriceps (Viereck) (Hymenoptera, Braconidae) in the Early Suppression of Host Immune Response. INSECTS 2021; 12:insects12010033. [PMID: 33466542 PMCID: PMC7824821 DOI: 10.3390/insects12010033] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/10/2020] [Revised: 12/30/2020] [Accepted: 12/31/2020] [Indexed: 11/16/2022]
Abstract
Simple Summary Toxoneuron nigriceps is an endoparasitoid of the tobacco budworm Heliothis virescens. Parasitoid strategies to survive involve different regulating factors that are injected into the host body together with the egg: the venom and the calyx fluid, containing a Polydnavirus (PDV) and Ovarian Proteins (OPs). The combination of these factors increases the success of parasitism. Although many studies have been reported on venom protein components and the knowledge on PDVs is increasing, little is known on OPs. These secretions are able to interfere early with the host cellular immune response, acting specifically on host haemocytes, cells involved in immune response. Our results show that OPs induce several alterations on haemocytes, including cellular oxidative stress condition and modifications of actin cytoskeleton, so inducing both a loss of haemocyte functionality and cell death. Overall, in synergy with PDV and venom, OPs positively contribute to the evasion of the host immune response by T. nigriceps. Abstract Toxoneuron nigriceps (Viereck) (Hymenoptera, Braconidae) is an endophagous parasitoid of the larval stages of the tobacco budworm, Heliothis virescens (Fabricius) (Lepidoptera, Noctuidae). During oviposition, T. nigriceps injects into the host body, along with the egg, the venom, the calyx fluid, which contains a Polydnavirus (T. nigriceps BracoVirus: TnBV), and the Ovarian Proteins (OPs). Although viral gene expression in the host reaches detectable levels after a few hours, a precocious disruption of the host metabolism and immune system is observed right after parasitization. This alteration appears to be induced by female secretions including TnBV venom and OPs. OPs, originating from the ovarian calyx cells, are involved in the induction of precocious symptoms in the host immune system alteration. It is known that OPs in braconid and ichneumonid wasps can interfere with the cellular immune response before Polydnavirus infects and expresses its genes in the host tissues. Here we show that T. nigriceps OPs induce several alterations on host haemocytes that trigger cell death. The OP injection induces an extensive oxidative stress and a disorganization of actin cytoskeleton and these alterations can explain the high-level of haemocyte mortality, the loss of haemocyte functionality, and so the reduction in encapsulation ability by the host.
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Affiliation(s)
- Rosanna Salvia
- Department of Sciences, University of Basilicata, Via dell’Ateneo Lucano 10, 85100 Potenza, Italy; (R.S.); (C.S.); (P.F.); (A.M.); (A.F.)
- Spinoff XFlies s.r.l, University of Basilicata, Via dell’Ateneo Lucano 10, 85100 Potenza, Italy
| | - Carmen Scieuzo
- Department of Sciences, University of Basilicata, Via dell’Ateneo Lucano 10, 85100 Potenza, Italy; (R.S.); (C.S.); (P.F.); (A.M.); (A.F.)
- Spinoff XFlies s.r.l, University of Basilicata, Via dell’Ateneo Lucano 10, 85100 Potenza, Italy
| | - Annalisa Grimaldi
- Department of Biotechnology and Life Science, University of Insubria, Via J.H. Dunant 3, 21100 Varese, Italy;
| | - Paolo Fanti
- Department of Sciences, University of Basilicata, Via dell’Ateneo Lucano 10, 85100 Potenza, Italy; (R.S.); (C.S.); (P.F.); (A.M.); (A.F.)
| | - Antonio Moretta
- Department of Sciences, University of Basilicata, Via dell’Ateneo Lucano 10, 85100 Potenza, Italy; (R.S.); (C.S.); (P.F.); (A.M.); (A.F.)
| | - Antonio Franco
- Department of Sciences, University of Basilicata, Via dell’Ateneo Lucano 10, 85100 Potenza, Italy; (R.S.); (C.S.); (P.F.); (A.M.); (A.F.)
- Spinoff XFlies s.r.l, University of Basilicata, Via dell’Ateneo Lucano 10, 85100 Potenza, Italy
| | - Paola Varricchio
- Department of Agricultural Sciences, University of Naples “Federico II”, 80055 Portici, Italy;
| | - S. Bradleigh Vinson
- Department of Entomology, Texas A&M University, 370 Olsen Blvd, College Station, TX 77843-2475, USA;
| | - Patrizia Falabella
- Department of Sciences, University of Basilicata, Via dell’Ateneo Lucano 10, 85100 Potenza, Italy; (R.S.); (C.S.); (P.F.); (A.M.); (A.F.)
- Spinoff XFlies s.r.l, University of Basilicata, Via dell’Ateneo Lucano 10, 85100 Potenza, Italy
- Correspondence:
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13
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Gallot A, Sauzet S, Desouhant E. Kin recognition: Neurogenomic response to mate choice and sib mating avoidance in a parasitic wasp. PLoS One 2020; 15:e0241128. [PMID: 33104752 PMCID: PMC7588116 DOI: 10.1371/journal.pone.0241128] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2020] [Accepted: 10/08/2020] [Indexed: 12/01/2022] Open
Abstract
Sib mating increases homozygosity, which therefore increases the risk of inbreeding depression. Selective pressures have favoured the evolution of kin recognition and avoidance of sib mating in numerous species, including the parasitoid wasp Venturia canescens. We studied the female neurogenomic response associated with sib mating avoidance after females were exposed to courtship displays by i) unrelated males or ii) related males or iii) no courtship (controls). First, by comparing the transcriptional responses of females exposed to courtship displays to those exposed to controls, we saw a rapid and extensive transcriptional shift consistent with social environment. Second, by comparing the transcriptional responses of females exposed to courtship by related to those exposed to unrelated males, we characterized distinct and repeatable transcriptomic patterns that correlated with the relatedness of the courting male. Network analysis revealed 3 modules of specific ‘sib-responsive’ genes that were distinct from other ‘courtship-responsive’ modules. Therefore, specific neurogenomic states with characteristic brain transcriptomes associated with different behavioural responses affect sib mating avoidance behaviour.
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Affiliation(s)
- Aurore Gallot
- Laboratoire de Biométrie et Biologie Evolutive, CNRS, Université Lyon 1, Université de Lyon, UMR 5558, Villeurbanne, France
- * E-mail:
| | - Sandrine Sauzet
- Laboratoire de Biométrie et Biologie Evolutive, CNRS, Université Lyon 1, Université de Lyon, UMR 5558, Villeurbanne, France
- Institut de Génétique Humaine, CNRS–Université de Montpellier, UMR 9002, Biology of Repetitive Sequences, Montpellier, France
| | - Emmanuel Desouhant
- Laboratoire de Biométrie et Biologie Evolutive, CNRS, Université Lyon 1, Université de Lyon, UMR 5558, Villeurbanne, France
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14
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The Unconventional Viruses of Ichneumonid Parasitoid Wasps. Viruses 2020; 12:v12101170. [PMID: 33076395 PMCID: PMC7602663 DOI: 10.3390/v12101170] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2020] [Revised: 10/07/2020] [Accepted: 10/08/2020] [Indexed: 12/18/2022] Open
Abstract
To ensure their own immature development as parasites, ichneumonid parasitoid wasps use endogenous viruses that they acquired through ancient events of viral genome integration. Thousands of species from the campoplegine and banchine wasp subfamilies rely, for their survival, on their association with these viruses, hijacked from a yet undetermined viral taxon. Here, we give an update of recent findings on the nature of the viral genes retained from the progenitor viruses and how they are organized in the wasp genome.
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15
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Liu S, Coates BS, Bonning BC. Endogenous viral elements integrated into the genome of the soybean aphid, Aphis glycines. INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY 2020; 123:103405. [PMID: 32534986 DOI: 10.1016/j.ibmb.2020.103405] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/23/2019] [Revised: 05/12/2020] [Accepted: 05/12/2020] [Indexed: 06/11/2023]
Abstract
Sequence analysis of the genomic DNA isolated from four biotypes of the soybean aphid, Aphis glycines (AG), revealed that in addition to the commonly observed retrovirus-related retrotransposons, viral sequences derived from multiple RNA and DNA viruses have integrated into the genome. Notably, sequences of more than 60 nudiviral genes were identified from de novo assembled DNA contigs, and mapped to assembled genomic scaffolds of AG, indicating that an ancient nudivirus, named Aphis glycines endogenous nudivirus (AgENV), had integrated into the AG genome. Furthermore, sequences derived from a similar endogenous nudivirus, Melanaphis sacchari endogenous nudivirus (MsENV), were identified from the genomic scaffolds of the sugarcane aphid, Melanaphis sacchari. Analysis of transcriptome and small RNA sequence data derived from AG did not provide evidence for transcription of the integrated AgENV genes. Hence, the genes of AgENV may be present as pseudogenes. Phylogenetic analysis based on nudivirus core genes indicated that these aphid ENVs belong to the genus Alphanudivirus.
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Affiliation(s)
- Sijun Liu
- Department of Entomology, Iowa State University, Ames, IA, 50011, USA
| | - Brad S Coates
- USDA-ARS, Corn Insects & Crop Genetics Research Unit, Ames, IA, 50011, USA
| | - Bryony C Bonning
- Department of Entomology and Nematology, University of Florida, Gainesville, FL, 32611, USA.
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16
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Zhang Y, Wang J, Han GZ. Chalcid wasp paleoviruses bridge the evolutionary gap between bracoviruses and nudiviruses. Virology 2020; 542:34-39. [PMID: 32056666 DOI: 10.1016/j.virol.2020.01.007] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2019] [Revised: 01/14/2020] [Accepted: 01/14/2020] [Indexed: 12/14/2022]
Abstract
Polydnaviruses are obligate mutualists of parasitoid wasps and are divided into two genera, Bracovirus and Ichnovirus. Bracoviruses are thought to originate from a single integration of an ancestral nudivirus into the ancestor of microgastroid complex ~100 million years ago. However, all the known nudiviruses are only distantly related to bracoviruses, and much remains obscure about the origin of bracoviruses. Here we employ a paleovirological method to screen endogenous nudivirus-like elements across arthropods. Interestingly, we identify many endogenous nudivirus-like elements within the genome of Eurytoma brunniventris, a species of the Chalcidoidea superfamily. Among them, we find 14 core gene sequences are likely to be derived from a betanudivirus (designated EbrENV-β), suggesting that betanudivirus has been circulating in parasitoid wasps. Phylogenomic analysis suggests that EbrENV-β is the known closest relative of bracoviruses. Synteny analyses show the order of core genes is not well conserved between EbrENV-β and nudiviruses, revealing the dynamic nature of the evolution of nudivirus genome structures. Our findings narrow down the evolutionary gap between bracoviruses and nudiviruses and provide novel insights into the origin and evolution of polydnaviruses.
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Affiliation(s)
- Yu Zhang
- Jiangsu Key Laboratory for Microbes and Functional Genomics, College of Life Sciences, Nanjing Normal University, Nanjing, Jiangsu, 210023, China
| | - Jianhua Wang
- Jiangsu Key Laboratory for Microbes and Functional Genomics, College of Life Sciences, Nanjing Normal University, Nanjing, Jiangsu, 210023, China
| | - Guan-Zhu Han
- Jiangsu Key Laboratory for Microbes and Functional Genomics, College of Life Sciences, Nanjing Normal University, Nanjing, Jiangsu, 210023, China.
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17
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Cambier S, Ginis O, Moreau SJM, Gayral P, Hearn J, Stone GN, Giron D, Huguet E, Drezen JM. Gall Wasp Transcriptomes Unravel Potential Effectors Involved in Molecular Dialogues With Oak and Rose. Front Physiol 2019; 10:926. [PMID: 31396099 PMCID: PMC6667641 DOI: 10.3389/fphys.2019.00926] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2019] [Accepted: 07/09/2019] [Indexed: 01/29/2023] Open
Abstract
To gain insight into wasp factors that might be involved in the initial induction of galls on woody plants, we performed high throughput (454) transcriptome analysis of ovaries and venom glands of two cynipid gall wasps, Biorhiza pallida and Diplolepis rosae, inducing galls on oak and rose, respectively. De novo assembled and annotated contigs were compared to sequences from phylogenetically related parasitoid wasps. The relative expression levels of contigs were estimated to identify the most expressed gene sequences in each tissue. We identify for the first time a set of maternally expressed gall wasp proteins potentially involved in the interaction with the plant. Some genes highly expressed in venom glands and ovaries may act to suppress early plant defense signaling. We also identify gall wasp cellulases that could be involved in observed local lysis of plant tissue following oviposition, and which may have been acquired from bacteria by horizontal gene transfer. We find no evidence of virus-related gene expression, in contrast to many non-cynipid parasitoid wasps. By exploring gall wasp effectors, this study is a first step toward understanding the molecular mechanisms underlying cynipid gall induction in woody plants, and the recent sequencing of oak and rose genomes will enable study of plant responses to these factors.
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Affiliation(s)
- Sébastien Cambier
- UMR 7261 CNRS, Institut de Recherche sur la Biologie de l’Insecte, Faculté des Sciences et Techniques, Université de Tours, Tours, France
| | - Olivia Ginis
- UMR 7261 CNRS, Institut de Recherche sur la Biologie de l’Insecte, Faculté des Sciences et Techniques, Université de Tours, Tours, France
| | - Sébastien J. M. Moreau
- UMR 7261 CNRS, Institut de Recherche sur la Biologie de l’Insecte, Faculté des Sciences et Techniques, Université de Tours, Tours, France
| | - Philippe Gayral
- UMR 7261 CNRS, Institut de Recherche sur la Biologie de l’Insecte, Faculté des Sciences et Techniques, Université de Tours, Tours, France
| | - Jack Hearn
- Institute of Evolutionary Biology, The University of Edinburgh, Edinburgh, United Kingdom
| | - Graham N. Stone
- Institute of Evolutionary Biology, The University of Edinburgh, Edinburgh, United Kingdom
| | - David Giron
- UMR 7261 CNRS, Institut de Recherche sur la Biologie de l’Insecte, Faculté des Sciences et Techniques, Université de Tours, Tours, France
| | - Elisabeth Huguet
- UMR 7261 CNRS, Institut de Recherche sur la Biologie de l’Insecte, Faculté des Sciences et Techniques, Université de Tours, Tours, France
| | - Jean-Michel Drezen
- UMR 7261 CNRS, Institut de Recherche sur la Biologie de l’Insecte, Faculté des Sciences et Techniques, Université de Tours, Tours, France
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18
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Burke GR. Common themes in three independently derived endogenous nudivirus elements in parasitoid wasps. CURRENT OPINION IN INSECT SCIENCE 2019; 32:28-35. [PMID: 31113628 DOI: 10.1016/j.cois.2018.10.005] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/01/2018] [Revised: 10/12/2018] [Accepted: 10/15/2018] [Indexed: 06/09/2023]
Abstract
Endogenous Viral Elements (EVEs) are remnants of viral genomes that are permanently integrated into the genome of another organism. Parasitoid wasps have independently acquired nudivirus-derived EVEs in three lineages. Each parasitoid produces virions or virus-like particles (VLPs) that are injected into hosts during parasitism to function in subversion of host defenses. Comparing the inventory of nudivirus-like genes in different lineages of parasitoids can provide insights into the importance of each encoded function in virus or VLP production and parasitism success. Comparisons revealed the following conserved features: first, retention of genes encoding a viral RNA polymerase and infectivity factors; second, loss of the ancestral DNA polymerase gene; and third, signatures of viral ancestry in patterns of gene retention.
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Affiliation(s)
- Gaelen R Burke
- Department of Entomology, University of Georgia, Athens, GA, United States.
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19
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Burke GR, Simmonds TJ, Sharanowski BJ, Geib SM. Rapid Viral Symbiogenesis via Changes in Parasitoid Wasp Genome Architecture. Mol Biol Evol 2018; 35:2463-2474. [DOI: 10.1093/molbev/msy148] [Citation(s) in RCA: 26] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open
Affiliation(s)
- Gaelen R Burke
- Department of Entomology, University of Georgia, Athens, GA
| | | | | | - Scott M Geib
- Tropical Crop and Commodity Protection Research Unit, USDA-ARS Daniel K Inouye U.S. Pacific Basin Agricultural Research Center, USDA-ARS, Hilo, HI
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