دورية أكاديمية
The evolutionary fate of the chloroplast and nuclear rps16 genes as revealed through the sequencing and comparative analyses of four novel legume chloroplast genomes from Lupinus
| العنوان: | The evolutionary fate of the chloroplast and nuclear rps16 genes as revealed through the sequencing and comparative analyses of four novel legume chloroplast genomes from Lupinus |
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| المؤلفون: | Keller, Jean, Rousseau-Gueutin, Mathieu, Martin, Guillaume E., Morice, Jérôme, Boutte, Julien, Coissac, E., Ourari, Malika, Ainouche, Malika L., Salmon, Armel, Cabello-Hurtado, Francisco, Aïnouche, Abdelkader |
| المساهمون: | Ecosystèmes, biodiversité, évolution Rennes (ECOBIO), Université de Rennes (UR)-Institut Ecologie et Environnement - CNRS Ecologie et Environnement (INEE-CNRS), Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Observatoire des Sciences de l'Univers de Rennes (OSUR), Université de Rennes (UR)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Rennes 2 (UR2)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Rennes 2 (UR2)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Centre National de la Recherche Scientifique (CNRS), Institut de Génétique, Environnement et Protection des Plantes (IGEPP), Institut National de la Recherche Agronomique (INRA)-Université de Rennes (UR)-AGROCAMPUS OUEST, Amélioration génétique et adaptation des plantes méditerranéennes et tropicales (UMR AGAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Laboratoire d'Ecologie Alpine (LECA ), Université Savoie Mont Blanc (USMB Université de Savoie Université de Chambéry )-Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes 2016-2019 (UGA 2016-2019 ), Université Abderrahmane Mira Université de Béjaïa = University Abderrahmane Mira University of Béjaïa (UB), Jean Keller was supported by a doctoral research grant from the University of Rennes 1 - French Ministry of Higher Education and Research. Mathieu Rousseau-Gueutin was supported by the European Union Seventh Framework Programme (FP7-CIG-2013-2017, Grant no. 333709). This work benefited from the International Associated Laboratory “Ecological Genomics of Polyploidy” supported by CNRS (INEE, UMR CNRS 6553 Ecobio), University of Rennes 1, Iowa State University (Ames, USA)., European Project: 333709,EC:FP7:PEOPLE,FP7-PEOPLE-2012-CIG,GENOMERGE(2013) |
| المصدر: | ISSN: 1340-2838 ; DNA Research ; https://univ-rennes.hal.science/hal-01612869Test ; DNA Research, 2017, 24 (4), pp.343-358. ⟨10.1093/dnares/dsx006⟩. |
| بيانات النشر: | HAL CCSD Oxford University Press (OUP) |
| سنة النشر: | 2017 |
| المجموعة: | Université Savoie Mont Blanc: HAL |
| مصطلحات موضوعية: | functional gene relocation, Lupinus, phylogeny, chloroplast genomes, repeated sequences, [SDV.GEN.GPL]Life Sciences [q-bio]/Genetics/Plants genetics, [SDE.BE]Environmental Sciences/Biodiversity and Ecology |
| الوصف: | International audience ; The Fabaceae family is considered as a model system for understanding chloroplast genome evolution due to the presence of extensive structural rearrangements, gene losses and localized hypermutable regions. Here, we provide sequences of four chloroplast genomes from the Lupinus genus, belonging to the underinvestigated Genistoid clade. Notably, we found in Lupinus species the functional loss of the essential rps16 gene, which was most likely replaced by the nuclear rps16 gene that encodes chloroplast and mitochondrion targeted RPS16 proteins. To study the evolutionary fate of the rps16 gene, we explored all available plant chloroplast, mitochondrial and nuclear genomes. Whereas no plant mitochondrial genomes carry an rps16 gene, many plants still have a functional nuclear and chloroplast rps16 gene. Ka/Ks ratios revealed that both chloroplast and nuclear rps16 copies were under purifying selection. However, due to the dual targeting of the nuclear rps16 gene product and the absence of a mitochondrial copy, the chloroplast gene may be lost. We also performed comparative analyses of lupine plastomes (SNPs, indels and repeat elements), identified the most variable regions and examined their phylogenetic utility. The markers identified here will help to reveal the evolutionary history of lupines, Genistoids and closely related clades. |
| نوع الوثيقة: | article in journal/newspaper |
| اللغة: | English |
| العلاقة: | info:eu-repo/semantics/altIdentifier/pmid/28338826; info:eu-repo/grantAgreement/EC/FP7/333709/EU/Role of genome merger and redundancy in plant evolution and adaptation/GENOMERGE; hal-01612869; https://univ-rennes.hal.science/hal-01612869Test; https://univ-rennes.hal.science/hal-01612869/documentTest; https://univ-rennes.hal.science/hal-01612869/file/Keller_The%20evolutionary%20fate.pdfTest; PRODINRA: 408797; PUBMED: 28338826; WOS: 000407965100002 |
| DOI: | 10.1093/dnares/dsx006 |
| الإتاحة: | https://doi.org/10.1093/dnares/dsx006Test https://univ-rennes.hal.science/hal-01612869Test https://univ-rennes.hal.science/hal-01612869/documentTest https://univ-rennes.hal.science/hal-01612869/file/Keller_The%20evolutionary%20fate.pdfTest |
| حقوق: | http://creativecommons.org/licenses/by-ncTest/ ; info:eu-repo/semantics/OpenAccess |
| رقم الانضمام: | edsbas.C4969BD6 |
| قاعدة البيانات: | BASE |
| DOI: | 10.1093/dnares/dsx006 |
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