PCR-mediated sugarcane bacilliform virus detection for quarantine purpose. [P.39]
Sugarcane bacilliform virus (SCBV), family Caulimoviridae, genus Badnavirus, is a virus harbouring a large genetic diversity and is usually asymptomatic on sugarcane commercial hybrids. While SCBV was one of the most prevalent viruses detected by High-Throughput Sequencing (HTS) at the Cirad quarantine, a new protocol for SCBV detection was established and applied. Primers amplifying a 579-bp fragment of the RT/RNase H viral region were designed based on SCBV sequences publicly available within the NCBI databases and SCBV sequences obtained from our HTS databases. The PCR protocol was setup and adapted to maximize SCBV detection using a large panel of sugarcane varieties and origins to detect SCBV isolates. Amplicons were Sanger sequenced and compared to known SCBV RT/RNase H partial sequences. This new protocol was successful for identifying SCBV isolates belonging to Badnavirus subgroups 1a and 1c (or clades 1 and 3), unique Badnavirus groups known to contain SCBV isolates so far. This novel broad spectrum SCBV detection protocol is now routinely used at the Cirad sugarcane quarantine, which made it an important tool for developing new cleaning processes against SCBV even if today only few countries consider SCBV as quarantine organism.
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dig-cirad-fr-5910062019-02-01T15:38:11Z http://agritrop.cirad.fr/591006/ http://agritrop.cirad.fr/591006/ PCR-mediated sugarcane bacilliform virus detection for quarantine purpose. [P.39]. Daugrois Jean-Heinrich, Fernandez Emmanuel, Filloux Denis. 2019. In : Livre des résumés des 17 ème Rencontres de virologie végétale. INRA, CIRAD, CNRS, SFP, SFV. Aussois : INRA, Résumé, 98. Rencontres de Virologie Végétale (RVV 2019). 17, Aussois, France, 27 Janvier 2019/31 Janvier 2019. Researchers PCR-mediated sugarcane bacilliform virus detection for quarantine purpose. [P.39] Daugrois, Jean-Heinrich Fernandez, Emmanuel Filloux, Denis eng 2019 INRA Livre des résumés des 17 ème Rencontres de virologie végétale Sugarcane bacilliform virus (SCBV), family Caulimoviridae, genus Badnavirus, is a virus harbouring a large genetic diversity and is usually asymptomatic on sugarcane commercial hybrids. While SCBV was one of the most prevalent viruses detected by High-Throughput Sequencing (HTS) at the Cirad quarantine, a new protocol for SCBV detection was established and applied. Primers amplifying a 579-bp fragment of the RT/RNase H viral region were designed based on SCBV sequences publicly available within the NCBI databases and SCBV sequences obtained from our HTS databases. The PCR protocol was setup and adapted to maximize SCBV detection using a large panel of sugarcane varieties and origins to detect SCBV isolates. Amplicons were Sanger sequenced and compared to known SCBV RT/RNase H partial sequences. This new protocol was successful for identifying SCBV isolates belonging to Badnavirus subgroups 1a and 1c (or clades 1 and 3), unique Badnavirus groups known to contain SCBV isolates so far. This novel broad spectrum SCBV detection protocol is now routinely used at the Cirad sugarcane quarantine, which made it an important tool for developing new cleaning processes against SCBV even if today only few countries consider SCBV as quarantine organism. conference_item info:eu-repo/semantics/conferenceObject Conference info:eu-repo/semantics/publishedVersion http://agritrop.cirad.fr/591006/1/ID591006.pdf text Cirad license info:eu-repo/semantics/restrictedAccess https://agritrop.cirad.fr/mention_legale.html |
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Sugarcane bacilliform virus (SCBV), family Caulimoviridae, genus Badnavirus, is a virus harbouring a large genetic diversity and is usually asymptomatic on sugarcane commercial hybrids. While SCBV was one of the most prevalent viruses detected by High-Throughput Sequencing (HTS) at the Cirad quarantine, a new protocol for SCBV detection was established and applied. Primers amplifying a 579-bp fragment of the RT/RNase H viral region were designed based on SCBV sequences publicly available within the NCBI databases and SCBV sequences obtained from our HTS databases. The PCR protocol was setup and adapted to maximize SCBV detection using a large panel of sugarcane varieties and origins to detect SCBV isolates. Amplicons were Sanger sequenced and compared to known SCBV RT/RNase H partial sequences. This new protocol was successful for identifying SCBV isolates belonging to Badnavirus subgroups 1a and 1c (or clades 1 and 3), unique Badnavirus groups known to contain SCBV isolates so far. This novel broad spectrum SCBV detection protocol is now routinely used at the Cirad sugarcane quarantine, which made it an important tool for developing new cleaning processes against SCBV even if today only few countries consider SCBV as quarantine organism. |
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Daugrois, Jean-Heinrich Fernandez, Emmanuel Filloux, Denis |
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Daugrois, Jean-Heinrich Fernandez, Emmanuel Filloux, Denis PCR-mediated sugarcane bacilliform virus detection for quarantine purpose. [P.39] |
author_facet |
Daugrois, Jean-Heinrich Fernandez, Emmanuel Filloux, Denis |
author_sort |
Daugrois, Jean-Heinrich |
title |
PCR-mediated sugarcane bacilliform virus detection for quarantine purpose. [P.39] |
title_short |
PCR-mediated sugarcane bacilliform virus detection for quarantine purpose. [P.39] |
title_full |
PCR-mediated sugarcane bacilliform virus detection for quarantine purpose. [P.39] |
title_fullStr |
PCR-mediated sugarcane bacilliform virus detection for quarantine purpose. [P.39] |
title_full_unstemmed |
PCR-mediated sugarcane bacilliform virus detection for quarantine purpose. [P.39] |
title_sort |
pcr-mediated sugarcane bacilliform virus detection for quarantine purpose. [p.39] |
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INRA |
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http://agritrop.cirad.fr/591006/ http://agritrop.cirad.fr/591006/1/ID591006.pdf |
work_keys_str_mv |
AT daugroisjeanheinrich pcrmediatedsugarcanebacilliformvirusdetectionforquarantinepurposep39 AT fernandezemmanuel pcrmediatedsugarcanebacilliformvirusdetectionforquarantinepurposep39 AT fillouxdenis pcrmediatedsugarcanebacilliformvirusdetectionforquarantinepurposep39 |
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1758026058375888896 |