CAULIFINDER: a pipeline for the automated detection and annotation of caulimovirid endogenous viral elements in plant genomes

Autor: Héléna Vassilieff, Sana Haddad, Véronique Jamilloux, Nathalie Choisne, Vikas Sharma, Delphine Giraud, Mariène Wan, Saad Serfraz, Andrew D. W. Geering, Pierre-Yves Teycheney, Florian Maumus

Publikováno v: Mobile DNA, Vol 13, Iss 1, Pp 1-12 (2022)

Abstract Plant, animal and protist genomes often contain endogenous viral elements (EVEs), which correspond to partial and sometimes entire viral genomes that have been captured in the genome of their host organism through a variety of integration me

Externí odkaz: https://doaj.org/article/7d097e0eba2b4ef99e70393cf6425ba4

RepetDB: a unified resource for transposable element references

Autor: Joëlle Amselem, Guillaume Cornut, Nathalie Choisne, Michael Alaux, Françoise Alfama-Depauw, Véronique Jamilloux, Florian Maumus, Thomas Letellier, Isabelle Luyten, Cyril Pommier, Anne-Françoise Adam-Blondon, Hadi Quesneville

Publikováno v: Mobile DNA, Vol 10, Iss 1, Pp 1-8 (2019)

Abstract Background Thanks to their ability to move around and replicate within genomes, transposable elements (TEs) are perhaps the most important contributors to genome plasticity and evolution. Their detection and annotation are considered essenti

Externí odkaz: https://doaj.org/article/03fb5e7e72d64675bcf7d606dd0037f6

Transposable Elements in the Genome of the Lichen-Forming Fungus Umbilicaria pustulata and Their Distribution in Different Climate Zones along Elevation

Autor: Francesco Dal Grande, Véronique Jamilloux, Nathalie Choisne, Anjuli Calchera, Gregor Rolshausen, Malte Petersen, Meike Schulz, Maria A. Nilsson, Imke Schmitt

Publikováno v: Biology, Vol 11, Iss 24, p 24 (2022)
Biology
Biology; Volume 11; Issue 1; Pages: 24

Transposable elements (TEs) are an important source of genome plasticity across the tree of life. Drift and natural selection are important forces shaping TE distribution and accumulation. Fungi, with their multifaceted phenotypic diversity and relat

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::7bf019e4f06188bfd8ccc95a507fd1d9
https://www.mdpi.com/2079-7737/11/1/24

The Rosa genome provides new insights into the domestication of modern roses

Autor: Sylvie Baudino, Caroline Pont, Arnaud Lemainque, Michiel Vandenbussche, Jean-Claude Caissard, Teva Vernoux, Patrick Wincker, Florence Piola, Chang Liu, Hélène Badouin, Adnane Boualem, Mohammed-Amin Madoui, Moussa Benhamed, Jean-Marc Aury, Jérôme Salse, Abdelhafid Bendahmane, Manuel Le Bris, Benjamin Govetto, Hadi Quesneville, Olivier Raymond, Jérôme Gouzy, Mohammed Bendahmane, Sandrine Moja, Annick Dubois, Judit Szécsi, Priscilla Villand, Claudia Bardoux, Shu-Hua Yang, Céline Lopez-Roques, Ludovic Cottret, Pascal Heitzler, Antoine Larrieu, Véronique Boltz, Nathalie Choisne, Yoan Labrousse, Léa François, David Latrasse, Marion Verdenaud, Lauriane Perrier, Philippe Vergne, Sébastien Carrère, Magali Perez, Karine Labadie, Arnaud Couloux, Xiaopeng Fu, Jérémy Just

Publikováno v: Nature Genetics
Nature Genetics, Nature Publishing Group, 2018, 50, pp.772-777. ⟨10.1038/s41588-018-0110-3⟩
Nature Genetics, Nature Publishing Group, 2018, 50 (6), pp.772-777. ⟨10.1038/s41588-018-0110-3⟩
Nature Genetics, 2018, 50 (6), pp.772-777. ⟨10.1038/s41588-018-0110-3⟩
Nature genetics
Nature Genetics 6 (50), 772–777. (2018)

Epub ahead of print; International audience; Roses have high cultural and economic importance as ornamental plants and in the perfume industry. We report the rose whole-genome sequencing and assembly and resequencing of major genotypes that contribut

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::3ea282eaad0ed5d9e1b02fa4ccc45baa
https://hal-amu.archives-ouvertes.fr/hal-01798003

A new version of the grapevine reference genome assembly (12X.v2) and of its annotation (VCost.v3)

Autor: I. Le Clainche, Rémi Bounon, Simone Scalabrin, Stephane Rombauts, Michele Morgante, Jérôme Grimplet, Aurélie Canaguier, Dominique Brunel, M-C Le Paslier, A-F Adam-Blondon, Nathalie Choisne, Eric Duchêne, Aurélie Bérard, A. Chauveau, Nacer Mohellibi, G. Di Gaspero, C Rustenholz, Cécile Guichard

Publikováno v: GENOMICS DATA
Genomics Data
Genomics Data, Elsevier, 2017, 14, pp.56-62. ⟨10.1016/j.gdata.2017.09.002⟩
Genomics Data, 2017, 14, pp.56-62. ⟨10.1016/j.gdata.2017.09.002⟩
Digital.CSIC. Repositorio Institucional del CSIC
instname
Genomics Data (14), 56-62. (2017)
Genomics Data, Vol 14, Iss C, Pp 56-62 (2017)

The grapevine reference genome was published by Jaillon et al. [1]. The sequence for the first version of the genome, called the 8X version, was obtained using a whole genome shotgun strategy and the Sanger sequencing technology and was assembled fro

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::fe3248e6cd9853e0ab7bfc026a037893
http://hdl.handle.net/11390/1127758