Endogenous Dionyvirus sequences are widespread in plant genomes
Endogenous sequences from members of the Caulimoviridae and Geminiviridae families have been identified in the genome of several plant species. They are thought to result from illegitimate recombination events and are generally replication-defective. However, some caulimovirid sequences of tobacco,...
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ftcirad:oai:agritrop.cirad.fr:561239 2023-05-15T15:12:53+02:00 Endogenous Dionyvirus sequences are widespread in plant genomes Geering, Andrew D. Choisne, Nathalie Scalabrin, Simone Zytnicki, Matthias Vezzulli, Silvia Velasco, Riccardo Quesneville, Hadi Teycheney, Pierre-Yves 2011 application/pdf http://agritrop.cirad.fr/561239/ http://agritrop.cirad.fr/561239/1/document_561239.pdf eng eng s.n. http://agritrop.cirad.fr/561239/ Endogenous Dionyvirus sequences are widespread in plant genomes. Geering Andrew D., Choisne Nathalie, Scalabrin Simone, Zytnicki Matthias, Vezzulli Silvia, Velasco Riccardo, Quesneville Hadi, Teycheney Pierre-Yves. 2011. In : 15th International Congress of Virology, 11-16 September 2011, Sapporo, Japon : International Union of Microbiological Societies 2011 Congress (IUMS 2011), 6-16 September, Sapporo, Japon. s.l. : s.n., Résumé, 1 p. International Congress of Virology. 15, Sapporo, Japon, 11 Septembre 2011/16 Septembre 2011. http://agritrop.cirad.fr/561239/1/document_561239.pdf Cirad license info:eu-repo/semantics/openAccess https://agritrop.cirad.fr/mention_legale.html 15th International Congress of Virology, 11-16 September 2011, Sapporo, Japon : International Union of Microbiological Societies 2011 Congress (IUMS 2011), 6-16 September, Sapporo, Japon H20 - Maladies des plantes F30 - Génétique et amélioration des plantes conference_item info:eu-repo/semantics/conferenceObject Conference info:eu-repo/semantics/publishedVersion 2011 ftcirad 2019-06-26T14:50:47Z Endogenous sequences from members of the Caulimoviridae and Geminiviridae families have been identified in the genome of several plant species. They are thought to result from illegitimate recombination events and are generally replication-defective. However, some caulimovirid sequences of tobacco, petunia and banana are capable of causing infection. We performed in silico analyses on nucleotide sequences from plant genome databases and reconstituted 12 full length and potentially infectious viral genomes from endogenous viral sequences embedded in the genomes of monocotyledonous and dicotyledonous plant species. Sequence comparisons show that the corresponding viruses belong to a new genus in the family Caulimoviridae, tentatively named Dionyvirus. Mapping of endogenous Dionyvirus sequences was achieved in the fully sequenced genomes of grape, poplar, peach and rice, allowing for the first time the study of the distribution pattern of endogenous viral sequences at the host plant genome scale. Using the TEannot pipeline from the REPET package, we sensitively detected virus fragments and were able to join them to recover fragmented virus sequences. Full length and partial virus sequences were found in all four genomes, evenly distributed along chromosomes; they appear to be repeated throughout the whole genome. Dionyvirus-specific primers were designed and used for a PCR-based large scale screening of plant germplasm. It showed that endogenous Dionyvirus sequences belonging to distinct viral species are widespread among plants of temperate, tropical and arctic origins, and that endogenization of viral sequences is therefore a common phenomenon in plants. siRNAs homologous to endogenous Dionyvirus species were identified in host plants and mapped along reconstituted viral genomes, providing evidence that the expression of such endogenous sequences is tightly regulated and/or might trigger RNAi-based antiviral defence. (Texte intégral) Conference Object Arctic CIRAD: Agritrop (Centre de coopération internationale en recherche agronomique pour le développement) Arctic |
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CIRAD: Agritrop (Centre de coopération internationale en recherche agronomique pour le développement) |
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ftcirad |
language |
English |
topic |
H20 - Maladies des plantes F30 - Génétique et amélioration des plantes |
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H20 - Maladies des plantes F30 - Génétique et amélioration des plantes Geering, Andrew D. Choisne, Nathalie Scalabrin, Simone Zytnicki, Matthias Vezzulli, Silvia Velasco, Riccardo Quesneville, Hadi Teycheney, Pierre-Yves Endogenous Dionyvirus sequences are widespread in plant genomes |
topic_facet |
H20 - Maladies des plantes F30 - Génétique et amélioration des plantes |
description |
Endogenous sequences from members of the Caulimoviridae and Geminiviridae families have been identified in the genome of several plant species. They are thought to result from illegitimate recombination events and are generally replication-defective. However, some caulimovirid sequences of tobacco, petunia and banana are capable of causing infection. We performed in silico analyses on nucleotide sequences from plant genome databases and reconstituted 12 full length and potentially infectious viral genomes from endogenous viral sequences embedded in the genomes of monocotyledonous and dicotyledonous plant species. Sequence comparisons show that the corresponding viruses belong to a new genus in the family Caulimoviridae, tentatively named Dionyvirus. Mapping of endogenous Dionyvirus sequences was achieved in the fully sequenced genomes of grape, poplar, peach and rice, allowing for the first time the study of the distribution pattern of endogenous viral sequences at the host plant genome scale. Using the TEannot pipeline from the REPET package, we sensitively detected virus fragments and were able to join them to recover fragmented virus sequences. Full length and partial virus sequences were found in all four genomes, evenly distributed along chromosomes; they appear to be repeated throughout the whole genome. Dionyvirus-specific primers were designed and used for a PCR-based large scale screening of plant germplasm. It showed that endogenous Dionyvirus sequences belonging to distinct viral species are widespread among plants of temperate, tropical and arctic origins, and that endogenization of viral sequences is therefore a common phenomenon in plants. siRNAs homologous to endogenous Dionyvirus species were identified in host plants and mapped along reconstituted viral genomes, providing evidence that the expression of such endogenous sequences is tightly regulated and/or might trigger RNAi-based antiviral defence. (Texte intégral) |
format |
Conference Object |
author |
Geering, Andrew D. Choisne, Nathalie Scalabrin, Simone Zytnicki, Matthias Vezzulli, Silvia Velasco, Riccardo Quesneville, Hadi Teycheney, Pierre-Yves |
author_facet |
Geering, Andrew D. Choisne, Nathalie Scalabrin, Simone Zytnicki, Matthias Vezzulli, Silvia Velasco, Riccardo Quesneville, Hadi Teycheney, Pierre-Yves |
author_sort |
Geering, Andrew D. |
title |
Endogenous Dionyvirus sequences are widespread in plant genomes |
title_short |
Endogenous Dionyvirus sequences are widespread in plant genomes |
title_full |
Endogenous Dionyvirus sequences are widespread in plant genomes |
title_fullStr |
Endogenous Dionyvirus sequences are widespread in plant genomes |
title_full_unstemmed |
Endogenous Dionyvirus sequences are widespread in plant genomes |
title_sort |
endogenous dionyvirus sequences are widespread in plant genomes |
publisher |
s.n. |
publishDate |
2011 |
url |
http://agritrop.cirad.fr/561239/ http://agritrop.cirad.fr/561239/1/document_561239.pdf |
geographic |
Arctic |
geographic_facet |
Arctic |
genre |
Arctic |
genre_facet |
Arctic |
op_source |
15th International Congress of Virology, 11-16 September 2011, Sapporo, Japon : International Union of Microbiological Societies 2011 Congress (IUMS 2011), 6-16 September, Sapporo, Japon |
op_relation |
http://agritrop.cirad.fr/561239/ Endogenous Dionyvirus sequences are widespread in plant genomes. Geering Andrew D., Choisne Nathalie, Scalabrin Simone, Zytnicki Matthias, Vezzulli Silvia, Velasco Riccardo, Quesneville Hadi, Teycheney Pierre-Yves. 2011. In : 15th International Congress of Virology, 11-16 September 2011, Sapporo, Japon : International Union of Microbiological Societies 2011 Congress (IUMS 2011), 6-16 September, Sapporo, Japon. s.l. : s.n., Résumé, 1 p. International Congress of Virology. 15, Sapporo, Japon, 11 Septembre 2011/16 Septembre 2011. http://agritrop.cirad.fr/561239/1/document_561239.pdf |
op_rights |
Cirad license info:eu-repo/semantics/openAccess https://agritrop.cirad.fr/mention_legale.html |
_version_ |
1766343507906134016 |