دورية أكاديمية
Nanopore-based detection and characterization of yam viruses.
| العنوان: | Nanopore-based detection and characterization of yam viruses. |
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| المؤلفون: | Filloux, Denis, Fernandez, Emmanuel, Loire, Etienne, Claude, Lisa, Galzi, Serge, Candresse, Thierry, T., Winter, Stephan, Jeeva, M L, Makeshkumar, T, Martin, Darren P, Roumagnac, Philippe |
| المساهمون: | Biologie et Génétique des Interactions Plante-Parasite (UMR BGPI), 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), Animal, Santé, Territoires, Risques et Ecosystèmes (UMR ASTRE), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Biologie du fruit et pathologie (BFP), Université Bordeaux Segalen - Bordeaux 2-Institut National de la Recherche Agronomique (INRA)-Université Sciences et Technologies - Bordeaux 1 (UB), DSMZ Plant Virus Department, Partenaires INRAE, ICAR (ICAR), Institute of Infectious Diseases and Molecular Medicine (IDM), University of Cape Town |
| المصدر: | ISSN: 2045-2322. |
| بيانات النشر: | HAL CCSD Nature Publishing Group |
| سنة النشر: | 2018 |
| مصطلحات موضوعية: | [SDV.BV.PEP]Life Sciences [q-bio]/Vegetal Biology/Phytopathology and phytopharmacy, [SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology |
| الوصف: | UMR BFP - Equipe Virologie ; International audience ; We here assessed the capability of the MinION sequencing approach to detect and characterize viruses infecting a water yam plant. This sequencing platform consistently revealed the presence of several plant virus species, including Dioscorea bacilliform virus, Yam mild mosaic virus and Yam chlorotic necrosis virus. A potentially novel ampelovirus was also detected by a complimentary Illumina sequencing approach. The full-length genome sequence of yam chlorotic necrosis virus was determined using Sanger sequencing, which enabled determination of the coverage and sequencing accuracy of the MinION technology. Whereas the total mean sequencing error rate of yam chlorotic necrosis virus-related MinION reads was 11.25%, we show that the consensus sequence obtained either by de novo assembly or after mapping the MinION reads on the virus genomic sequence was >99.8% identical with the Sanger-derived reference sequence. From the perspective of potential plant disease diagnostic applications of MinION sequencing, these degrees of sequencing accuracy demonstrate that the MinION approach can be used to both reliably detect and accurately sequence nearly full-length positive-sense single-strand polyadenylated RNA plant virus genomes. |
| نوع الوثيقة: | article in journal/newspaper |
| اللغة: | English |
| ردمك: | 978-0-00-453224-0 0-00-453224-4 |
| العلاقة: | info:eu-repo/semantics/altIdentifier/pmid/30552347; hal-02626561; https://hal.inrae.fr/hal-02626561Test; https://hal.inrae.fr/hal-02626561/documentTest; https://hal.inrae.fr/hal-02626561/file/Filloux-ScientificReports-2018_1.pdfTest; PRODINRA: 455986; PUBMED: 30552347; WOS: 000453224400040 |
| DOI: | 10.1038/s41598-018-36042-7 |
| الإتاحة: | https://doi.org/10.1038/s41598-018-36042-7Test https://hal.inrae.fr/hal-02626561Test https://hal.inrae.fr/hal-02626561/documentTest https://hal.inrae.fr/hal-02626561/file/Filloux-ScientificReports-2018_1.pdfTest |
| حقوق: | http://creativecommons.org/licenses/byTest/ ; info:eu-repo/semantics/OpenAccess |
| رقم الانضمام: | edsbas.7B7343A1 |
| قاعدة البيانات: | BASE |
| ردمك: | 9780004532240 0004532244 |
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| DOI: | 10.1038/s41598-018-36042-7 |