Distribution of Divo in Coffea genomes, a poorly described family of angiosperm LTR-Retrotransposons

Autor: Alexandre de Kochko, Mathilde Dupeyron, Rogério Fernandes de Souza, Douglas Silva Domingues, Dominique Crouzillat, Emmanuel Couturon, Romain Guyot, Perla Hamon
Přispěvatelé: IRD UMR DIADE, IPME, Universidade Estadual de Londrina (UEL), Nestlé R&D Tours, Universidade Estadual Paulista (Unesp), Diversité, adaptation, développement des plantes (UMR DIADE), Institut de Recherche pour le Développement (IRD [France-Sud])-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), UMR - Interactions Plantes Microorganismes Environnement (UMR IPME), Institut de Recherche pour le Développement (IRD [France-Sud])-Université de Montpellier (UM)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), State University of Londrina = Universidade Estadual de Londrina, Universidade Estadual Paulista Júlio de Mesquita Filho = São Paulo State University (UNESP), R.G. was supported by a Special Visiting Scientist grant from the Ciência sem Fronteiras program under the reference ID 84/2013 (Cnpq/CAPES).
Jazyk: angličtina
Rok vydání: 2017
Předmět:
Zdroj: Scopus
Repositório Institucional da UNESP
Universidade Estadual Paulista (UNESP)
instacron:UNESP
Molecular Genetics and Genomics
Molecular Genetics and Genomics, Springer Verlag, 2017, 292 (4), pp.741-754. ⟨10.1007/s00438-017-1308-2⟩
ISSN: 1617-4615
1617-4623
DOI: 10.1007/s00438-017-1308-2⟩
Popis: Made available in DSpace on 2018-12-11T16:46:26Z (GMT). No. of bitstreams: 0 Previous issue date: 2017-08-01 Coffea arabica (the Arabica coffee) is an allotetraploid species originating from a recent hybridization between two diploid species: C. canephora and C. eugenioides. Transposable elements can drive structural and functional variation during the process of hybridization and allopolyploid formation in plants. To learn more about the evolution of the C. arabica genome, we characterized and studied a new Copia LTR-Retrotransposon (LTR-RT) family in diploid and allotetraploid Coffea genomes called Divo. It is a complete and relatively compact LTR-RT element (~5 kb), carrying typical Gag and Pol Copia type domains. Reverse Trancriptase (RT) domain-based phylogeny demonstrated that Divo is a new and well-supported family in the Bianca lineage, but strictly restricted to dicotyledonous species. In C. canephora, Divo is expressed and showed a genomic distribution along gene rich and gene poor regions. The copy number, the molecular estimation of insertion time and the analysis at orthologous locations of insertions in diploid and allotetraploid coffee genomes suggest that Divo underwent a different and recent transposition activity in C. arabica and C. canephora when compared to C. eugenioides. The analysis of this novel LTR-RT family represents an important step toward uncovering the genome structure and evolution of C. arabica allotetraploid genome. IRD UMR DIADE, EvoGec, BP 64501 IRD CIRAD Univ. Montpellier IPME, BP 64501 Departamento de Biologia Geral CCB Universidade Estadual de Londrina,UEL Nestlé R&D Tours, Notre-Dame d’Oé Department of Botany Instituto de Biociências Universidade Estadual Paulista UNESP Department of Botany Instituto de Biociências Universidade Estadual Paulista UNESP
Databáze: OpenAIRE
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