The Worldwide Invasion of Drosophila suzukii Is Accompanied by a Large Increase of Transposable Element Load and a Small Number of Putatively Adaptive Insertions
| العنوان: | The Worldwide Invasion of Drosophila suzukii Is Accompanied by a Large Increase of Transposable Element Load and a Small Number of Putatively Adaptive Insertions |
|---|---|
| المؤلفون: | Cristina Vieira, Arnaud Estoup, Mathieu Gautier, V. Merel, V. Rodriguez Rada, Marie Fablet, Matthieu Boulesteix, I. Buch, Patricia Gibert |
| المساهمون: | Laboratoire de Biométrie et Biologie Evolutive - UMR 5558 (LBBE), Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS), Centre de Biologie pour la Gestion des Populations (UMR CBGP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Université de Montpellier (UM)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro - Montpellier SupAgro, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Equipe de recherche européenne en algorithmique et biologie formelle et expérimentale (ERABLE), Inria Grenoble - Rhône-Alpes, Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria), This work was supported by the French National Research Agency (ANR-16-CE02-0015, SWING) and performed using the computing facilities of the CC LBBE/PRABI., ANR-16-CE02-0015,SWING,Invasion mondiale de la drosophile à aile tachetée: Génétique, plasticité et potentiel évolutif(2016), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Université de Montpellier (UM)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Génétique et évolution des interactions hôtes-parasites, Département génétique, interactions et évolution des génomes [LBBE] (GINSENG), Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Laboratoire de Biométrie et Biologie Evolutive - UMR 5558 (LBBE), Eléments transposables, évolution, populations, This work was supported by the French National Research Agency (ANR-16-CE02-0015 SWING) and performed using the computing facilities of the CC LBBE/PRABI., This work was supported by the French National Research Agency (ANR-16-CE02-0015-01 SWING). |
| المصدر: | Molecular Biology and Evolution Molecular Biology and Evolution, 2021, 38 (10), pp.4252-4267. ⟨10.1093/molbev/msab155⟩ Molecular Biology and Evolution, Oxford University Press (OUP), 2021, 38 (10), pp.4252-4267. ⟨10.1093/molbev/msab155⟩ Molecular Biology and Evolution, Oxford University Press (OUP), In press, ⟨10.1093/molbev/msab155⟩ Molecular Biology and Evolution, Oxford University Press (OUP), 2021, ⟨10.1093/molbev/msab155⟩ |
| بيانات النشر: | HAL CCSD, 2021. |
| سنة النشر: | 2021 |
| مصطلحات موضوعية: | 0106 biological sciences, Transposable element, [SDV]Life Sciences [q-bio], [SDE.MCG]Environmental Sciences/Global Changes, Piwi-interacting RNA, Sequence assembly, Context (language use), biological invasion, adaptation, Biology, AcademicSubjects/SCI01180, 010603 evolutionary biology, 01 natural sciences, Genome, Evolution, Molecular, 03 medical and health sciences, Effective population size, Drosophila suzukii, Genetics, Animals, RNA, Small Interfering, Molecular Biology, Gene, Discoveries, Ecology, Evolution, Behavior and Systematics, 030304 developmental biology, 0303 health sciences, Genetic diversity, [SDV.GEN.GPO]Life Sciences [q-bio]/Genetics/Populations and Evolution [q-bio.PE], [SDV.BID.EVO]Life Sciences [q-bio]/Biodiversity/Populations and Evolution [q-bio.PE], AcademicSubjects/SCI01130, PoolSeq, biology.organism_classification, populations, [SDV.GEN.GA]Life Sciences [q-bio]/Genetics/Animal genetics, Evolutionary biology, DNA Transposable Elements, Drosophila, Adaptation, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, transposable elements, Genome-Wide Association Study, [SDV.EE.IEO]Life Sciences [q-bio]/Ecology, environment/Symbiosis |
| الوصف: | The reference assembly used in this article is available on NCBI website (https://www.ncbi.nlm.nih.gov/genome/18317?genome_assembly_id=910956) (Paris et al. 2020). Population sequencing data are available online (SRA repository under the BioProject accession number PRJNA576997) (Olazcuaga et al. 2020). The generated TE database and scripts are available in a github (https://github.com/vmerel/Dsu-TE).; International audience; Transposable elements (TEs) are ubiquitous and mobile repeated sequences. They are major determinants of host fitness. Here, we characterized the TE content of the spotted wing fly Drosophila suzukii. Using a recently improved genome assembly, we reconstructed TE sequences de novo and found that TEs occupy 47% of the genome and are mostly located in gene-poor regions. The majority of TE insertions segregate at low frequencies, indicating a recent and probably ongoing TE activity. To explore TE dynamics in the context of biological invasions, we studied the variation of TE abundance in genomic data from 16 invasive and six native populations of D. suzukii. We found a large increase of the TE load in invasive populations correlated with a reduced Watterson estimate of genetic diversity θw^ a proxy of effective population size. We did not find any correlation between TE contents and bioclimatic variables, indicating a minor effect of environmentally induced TE activity. A genome-wide association study revealed that ca. 2,000 genomic regions are associated with TE abundance. We did not find, however, any evidence in such regions of an enrichment for genes known to interact with TE activity (e.g., transcription factor encoding genes or genes of the piRNA pathway). Finally, the study of TE insertion frequencies revealed 15 putatively adaptive TE insertions, six of them being likely associated with the recent invasion history of the species. |
| اللغة: | English |
| تدمد: | 0737-4038 1537-1719 |
| URL الوصول: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::79e8d38e5774a2fd7ce3393502974a96 https://cnrs.hal.science/hal-03417234 |
| حقوق: | OPEN |
| رقم الأكسشن: | edsair.doi.dedup.....79e8d38e5774a2fd7ce3393502974a96 |
| قاعدة البيانات: | OpenAIRE |
| تدمد: | 07374038 15371719 |
|---|