Functional insights from the GC-poor genomes of two aphid parasitoids, Aphidius ervi and Lysiphlebus fabarum
Abstract Background Parasitoid wasps have fascinating life cycles and play an important role in trophic networks, yet little is known about their genome content and function. Parasitoids that infect aphids are an important group with the potential for biological control. Their success depends on ada...
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2020-05-01
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Series: | BMC Genomics |
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Online Access: | http://link.springer.com/article/10.1186/s12864-020-6764-0 |
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Article |
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DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Alice B. Dennis Gabriel I. Ballesteros Stéphanie Robin Lukas Schrader Jens Bast Jan Berghöfer Leo W. Beukeboom Maya Belghazi Anthony Bretaudeau Jan Buellesbach Elizabeth Cash Dominique Colinet Zoé Dumas Mohammed Errbii Patrizia Falabella Jean-Luc Gatti Elzemiek Geuverink Joshua D. Gibson Corinne Hertaeg Stefanie Hartmann Emmanuelle Jacquin-Joly Mark Lammers Blas I. Lavandero Ina Lindenbaum Lauriane Massardier-Galata Camille Meslin Nicolas Montagné Nina Pak Marylène Poirié Rosanna Salvia Chris R. Smith Denis Tagu Sophie Tares Heiko Vogel Tanja Schwander Jean-Christophe Simon Christian C. Figueroa Christoph Vorburger Fabrice Legeai Jürgen Gadau |
spellingShingle |
Alice B. Dennis Gabriel I. Ballesteros Stéphanie Robin Lukas Schrader Jens Bast Jan Berghöfer Leo W. Beukeboom Maya Belghazi Anthony Bretaudeau Jan Buellesbach Elizabeth Cash Dominique Colinet Zoé Dumas Mohammed Errbii Patrizia Falabella Jean-Luc Gatti Elzemiek Geuverink Joshua D. Gibson Corinne Hertaeg Stefanie Hartmann Emmanuelle Jacquin-Joly Mark Lammers Blas I. Lavandero Ina Lindenbaum Lauriane Massardier-Galata Camille Meslin Nicolas Montagné Nina Pak Marylène Poirié Rosanna Salvia Chris R. Smith Denis Tagu Sophie Tares Heiko Vogel Tanja Schwander Jean-Christophe Simon Christian C. Figueroa Christoph Vorburger Fabrice Legeai Jürgen Gadau Functional insights from the GC-poor genomes of two aphid parasitoids, Aphidius ervi and Lysiphlebus fabarum BMC Genomics Parasitoid wasp Aphid host Aphidius ervi Lysiphlebus fabarum GC content de novo genome assembly |
author_facet |
Alice B. Dennis Gabriel I. Ballesteros Stéphanie Robin Lukas Schrader Jens Bast Jan Berghöfer Leo W. Beukeboom Maya Belghazi Anthony Bretaudeau Jan Buellesbach Elizabeth Cash Dominique Colinet Zoé Dumas Mohammed Errbii Patrizia Falabella Jean-Luc Gatti Elzemiek Geuverink Joshua D. Gibson Corinne Hertaeg Stefanie Hartmann Emmanuelle Jacquin-Joly Mark Lammers Blas I. Lavandero Ina Lindenbaum Lauriane Massardier-Galata Camille Meslin Nicolas Montagné Nina Pak Marylène Poirié Rosanna Salvia Chris R. Smith Denis Tagu Sophie Tares Heiko Vogel Tanja Schwander Jean-Christophe Simon Christian C. Figueroa Christoph Vorburger Fabrice Legeai Jürgen Gadau |
author_sort |
Alice B. Dennis |
title |
Functional insights from the GC-poor genomes of two aphid parasitoids, Aphidius ervi and Lysiphlebus fabarum |
title_short |
Functional insights from the GC-poor genomes of two aphid parasitoids, Aphidius ervi and Lysiphlebus fabarum |
title_full |
Functional insights from the GC-poor genomes of two aphid parasitoids, Aphidius ervi and Lysiphlebus fabarum |
title_fullStr |
Functional insights from the GC-poor genomes of two aphid parasitoids, Aphidius ervi and Lysiphlebus fabarum |
title_full_unstemmed |
Functional insights from the GC-poor genomes of two aphid parasitoids, Aphidius ervi and Lysiphlebus fabarum |
title_sort |
functional insights from the gc-poor genomes of two aphid parasitoids, aphidius ervi and lysiphlebus fabarum |
publisher |
BMC |
series |
BMC Genomics |
issn |
1471-2164 |
publishDate |
2020-05-01 |
description |
Abstract Background Parasitoid wasps have fascinating life cycles and play an important role in trophic networks, yet little is known about their genome content and function. Parasitoids that infect aphids are an important group with the potential for biological control. Their success depends on adapting to develop inside aphids and overcoming both host aphid defenses and their protective endosymbionts. Results We present the de novo genome assemblies, detailed annotation, and comparative analysis of two closely related parasitoid wasps that target pest aphids: Aphidius ervi and Lysiphlebus fabarum (Hymenoptera: Braconidae: Aphidiinae). The genomes are small (139 and 141 Mbp) and the most AT-rich reported thus far for any arthropod (GC content: 25.8 and 23.8%). This nucleotide bias is accompanied by skewed codon usage and is stronger in genes with adult-biased expression. AT-richness may be the consequence of reduced genome size, a near absence of DNA methylation, and energy efficiency. We identify missing desaturase genes, whose absence may underlie mimicry in the cuticular hydrocarbon profile of L. fabarum. We highlight key gene groups including those underlying venom composition, chemosensory perception, and sex determination, as well as potential losses in immune pathway genes. Conclusions These findings are of fundamental interest for insect evolution and biological control applications. They provide a strong foundation for further functional studies into coevolution between parasitoids and their hosts. Both genomes are available at https://bipaa.genouest.org . |
topic |
Parasitoid wasp Aphid host Aphidius ervi Lysiphlebus fabarum GC content de novo genome assembly |
url |
http://link.springer.com/article/10.1186/s12864-020-6764-0 |
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doaj-9aa15e0959b849d98488571e8f04baa72020-11-25T03:46:31ZengBMCBMC Genomics1471-21642020-05-0121112710.1186/s12864-020-6764-0Functional insights from the GC-poor genomes of two aphid parasitoids, Aphidius ervi and Lysiphlebus fabarumAlice B. Dennis0Gabriel I. Ballesteros1Stéphanie Robin2Lukas Schrader3Jens Bast4Jan Berghöfer5Leo W. Beukeboom6Maya Belghazi7Anthony Bretaudeau8Jan Buellesbach9Elizabeth Cash10Dominique Colinet11Zoé Dumas12Mohammed Errbii13Patrizia Falabella14Jean-Luc Gatti15Elzemiek Geuverink16Joshua D. Gibson17Corinne Hertaeg18Stefanie Hartmann19Emmanuelle Jacquin-Joly20Mark Lammers21Blas I. Lavandero22Ina Lindenbaum23Lauriane Massardier-Galata24Camille Meslin25Nicolas Montagné26Nina Pak27Marylène Poirié28Rosanna Salvia29Chris R. Smith30Denis Tagu31Sophie Tares32Heiko Vogel33Tanja Schwander34Jean-Christophe Simon35Christian C. Figueroa36Christoph Vorburger37Fabrice Legeai38Jürgen Gadau39Department of Aquatic Ecology, EawagInstituto de Ciencias Biológicas, Universidad de TalcaIGEPP, Agrocampus Ouest, INRAE, Université de RennesInstitute for Evolution and Biodiversity, Universität MünsterDepartment of Ecology and Evolution, Université de LausanneInstitute for Evolution and Biodiversity, Universität MünsterGroningen Institute for Evolutionary Life Sciences, University of GroningenAix-Marseille Univ, CNRS, INP, Inst Neurophysiopathol, PINT, PFNTIGEPP, Agrocampus Ouest, INRAE, Université de RennesInstitute for Evolution and Biodiversity, Universität MünsterDepartment of Environmental Science, Policy, & Management, University of California, BerkeleyUniversité Côte d’Azur, INRAE, CNRS, ISADepartment of Ecology and Evolution, Université de LausanneInstitute for Evolution and Biodiversity, Universität MünsterDepartment of Sciences, University of BasilicataUniversité Côte d’Azur, INRAE, CNRS, ISAGroningen Institute for Evolutionary Life Sciences, University of GroningenDepartment of Environmental Science, Policy, & Management, University of California, BerkeleyDepartment of Aquatic Ecology, EawagInstitute of Biochemistry and Biology, University of PotsdamINRAE, Sorbonne Université, CNRS, IRD, UPEC, Université Paris Diderot, Institute of Ecology and Environmental Sciences of Paris, iEES-ParisInstitute for Evolution and Biodiversity, Universität MünsterLaboratorio de Control Biológico, Instituto de Ciencias Biológicas, Universidad de TalcaInstitute for Evolution and Biodiversity, Universität MünsterUniversité Côte d’Azur, INRAE, CNRS, ISAINRAE, Sorbonne Université, CNRS, IRD, UPEC, Université Paris Diderot, Institute of Ecology and Environmental Sciences of Paris, iEES-ParisINRAE, Sorbonne Université, CNRS, IRD, UPEC, Université Paris Diderot, Institute of Ecology and Environmental Sciences of Paris, iEES-ParisDepartment of Environmental Science, Policy, & Management, University of California, BerkeleyUniversité Côte d’Azur, INRAE, CNRS, ISADepartment of Sciences, University of BasilicataDepartment of Biology, Earlham CollegeIGEPP, Agrocampus Ouest, INRAE, Université de RennesUniversité Côte d’Azur, INRAE, CNRS, ISADepartment of Entomology, Max Planck Institute for Chemical EcologyDepartment of Ecology and Evolution, Université de LausanneIGEPP, Agrocampus Ouest, INRAE, Université de RennesInstituto de Ciencias Biológicas, Universidad de TalcaDepartment of Aquatic Ecology, EawagIGEPP, Agrocampus Ouest, INRAE, Université de RennesInstitute for Evolution and Biodiversity, Universität MünsterAbstract Background Parasitoid wasps have fascinating life cycles and play an important role in trophic networks, yet little is known about their genome content and function. Parasitoids that infect aphids are an important group with the potential for biological control. Their success depends on adapting to develop inside aphids and overcoming both host aphid defenses and their protective endosymbionts. Results We present the de novo genome assemblies, detailed annotation, and comparative analysis of two closely related parasitoid wasps that target pest aphids: Aphidius ervi and Lysiphlebus fabarum (Hymenoptera: Braconidae: Aphidiinae). The genomes are small (139 and 141 Mbp) and the most AT-rich reported thus far for any arthropod (GC content: 25.8 and 23.8%). This nucleotide bias is accompanied by skewed codon usage and is stronger in genes with adult-biased expression. AT-richness may be the consequence of reduced genome size, a near absence of DNA methylation, and energy efficiency. We identify missing desaturase genes, whose absence may underlie mimicry in the cuticular hydrocarbon profile of L. fabarum. We highlight key gene groups including those underlying venom composition, chemosensory perception, and sex determination, as well as potential losses in immune pathway genes. Conclusions These findings are of fundamental interest for insect evolution and biological control applications. They provide a strong foundation for further functional studies into coevolution between parasitoids and their hosts. Both genomes are available at https://bipaa.genouest.org .http://link.springer.com/article/10.1186/s12864-020-6764-0Parasitoid waspAphid hostAphidius erviLysiphlebus fabarumGC contentde novo genome assembly |