U6 snRNA Pseudogenes: Markers of Retrotransposition Dynamics in Mammals

Autor: Aurélien J. Doucet, Oliver Siol, Nicolas Gilbert, Jérôme Audoux, Gaëtan Droc
Přispěvatelé: Institut de génétique humaine (IGH), Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS), Institute for Research on Cancer and Aging, Nice (IRCAN), INSERM, U1081, CNRS UMR 7284, Nice, Amélioration génétique et adaptation des plantes méditerranéennes et tropicales (UMR AGAP), Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro)-Institut National de la Recherche Agronomique (INRA)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro), Cellules Souches, Plasticité Cellulaire, Médecine Régénératrice et Immunothérapies (IRMB), Centre Hospitalier Régional Universitaire [Montpellier] (CHRU Montpellier)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Université de Montpellier (UM), Université de Montpellier (UM)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre Hospitalier Régional Universitaire [Montpellier] (CHRU Montpellier), The authors thank Lise Corriger, Marjorie Côte, SandrineEnjalbert, and Oussama Meziane for their help in the initialscreening of snRNA sequences, Ned Lamb and NicolasPhilippe for helpful discussion, Guillaume Gielly, JacquesFaure and Alfred Vriese, members of the computing facilityat the Institute of Human Genetics, for their help with com-puters and servers. A.J.D. was the recipient of fellowshipsfrom the French government (Ministe`re de l’EnseignementSuperieur et de la Recherche), from Association pour laRecherche contre le Cancer (ARC), and from Fondationpour la Recherche Medicale(FRM).O.S.wastherecipientof a fellowship from the Deutsche Forschungsgemeinschaft(DFG). J.A. was the recipient of a fellowship from FRM. Workin the laboratory of N.G. is supported by the Institut Nationalde la SanteEtdelaRechercheMedicale (INSERM), theCentre National de Recherche Scientifique (CNRS), and theAgence Nationale de la Recherche (ANR-12-BSV6-0003,RETROGENO)., ANR-12-BSV6-0003,RETROGENO,Complexes de rétrotransposition du LINE-1 humain et instabilité génomique(2012), Larose, Catherine, BLANC - Complexes de rétrotransposition du LINE-1 humain et instabilité génomique - - RETROGENO2012 - ANR-12-BSV6-0003 - BLANC - VALID
Jazyk: angličtina
Rok vydání: 2015
Předmět:
Zdroj: Molecular Biology and Evolution
Molecular Biology and Evolution, Oxford University Press (OUP), 2015, 32 (7), pp.1815-1832
Molecular Biology and Evolution, Oxford University Press (OUP), 2015, 32 (7), pp.1815-1832. ⟨10.1093/molbev/msv062⟩
Molecular Biology and Evolution, 2015, 32 (7), pp.1815-1832. ⟨10.1093/molbev/msv062⟩
ISSN: 0737-4038
1537-1719
DOI: 10.1093/molbev/msv062⟩
Popis: Supplementary Material : Supplementary tables S1–S3andfigure S1areavailableatMolecular Biology and Evolutiononline (http://www.mbe.oxfordjournals.org/).; International audience; Transposable elements comprise more than 45% of the human genome and long interspersed nuclear element 1 (LINE-1 or L1) is the only autonomous mobile element remaining active. Since its identification, it has been proposed that L1 contributes to the mobilization and amplification of other cellular RNAs and more recently, experimental demonstrations of this function has been described for many transcripts such as Alu, a nonautonomous mobile element, cellular mRNAs, or small noncoding RNAs. Detailed examination of the mobilization of various cellular RNAs revealed distinct pathways by which they could be recruited during retrotransposition; template choice or template switching. Here, by analyzing genomic structures and retrotransposition signatures associated with small nuclear RNA (snRNA) sequences, we identified distinct recruiting steps during the L1 retrotransposition cycle for the formation of snRNA-processed pseudogenes. Interestingly, some of the identified recruiting steps take place in the nucleus. Moreover, after comparison to other vertebrate genomes, we established that snRNA amplification by template switching is common to many LINE families from several LINE clades. Finally, we suggest that U6 snRNA copies can serve as markers of L1 retrotransposition dynamics in mammalian genomes.
Databáze: OpenAIRE
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