Droplet Digital PCR Technology for Detection of Ilyonectria liriodendri from Grapevine Environmental Samples.
Identifieur interne : 000077 ( Main/Exploration ); précédent : 000076; suivant : 000078Droplet Digital PCR Technology for Detection of Ilyonectria liriodendri from Grapevine Environmental Samples.
Auteurs : María Del Pilar Martínez-Diz [Espagne] ; Marcos Andrés-Sodupe [Espagne] ; M Nica Berbegal [Espagne] ; Rebeca Bujanda [Espagne] ; Emilia Díaz-Losada [Espagne] ; David Gramaje [Espagne]Source :
- Plant disease [ 0191-2917 ] ; 2020.
Descripteurs français
- KwdFr :
- MESH :
English descriptors
- KwdEn :
- MESH :
- chemical : Soil.
- Hypocreales, Plant Diseases, Plant Roots, Rhizosphere.
Abstract
Black-foot disease is one of the most important soilborne diseases affecting planting material in grapevine nurseries and young vineyards. Accurate, early, and specific detection and quantification of black-foot disease causing fungi are essential to alert growers and nurseries to the presence of the pathogens in soil, and to prevent the spread of these pathogens through grapevines using certified pathogen-free planting material and development of resistance. We comparatively assessed the accuracy, efficiency, and specificity of droplet digital PCR (ddPCR) and real-time PCR (qPCR) techniques for the detection and quantification of Ilyonectria liriodendri in bulk and rhizosphere soils, as well as grapevine endorhizosphere. Fungal abundance was not affected by soil-plant fractions. Both techniques showed a high degree of correlation across the samples assessed (R2 = 0.95) with ddPCR being more sensitive to lower target concentrations. Roots of asymptomatic vines were found to be a microbial niche that is inhabited by black-foot disease fungi.
DOI: 10.1094/PDIS-03-19-0529-RE
PubMed: 32053059
Affiliations:
Links toward previous steps (curation, corpus...)
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Universidad de la Rioja - Gobierno de La Rioja, Ctra. de Burgos Km. 6, 26007 Logroño, Spain.</nlm:affiliation><country xml:lang="fr">Espagne</country><wicri:regionArea>Instituto de Ciencias de la Vid y del Vino (ICVV), Consejo Superior de Investigaciones Científicas - Universidad de la Rioja - Gobierno de La Rioja, Ctra. de Burgos Km. 6, 26007 Logroño</wicri:regionArea><placeName><region nuts="2" type="communauté">La Rioja</region></placeName></affiliation></author><author><name sortKey="Berbegal, M Nica" sort="Berbegal, M Nica" uniqKey="Berbegal M" first="M Nica" last="Berbegal">M Nica Berbegal</name><affiliation wicri:level="2"><nlm:affiliation>Instituto Agroforestal Mediterráneo, Universitat Politècnica de València, Camino de Vera s/n, 46022 Valencia, Spain.</nlm:affiliation><country xml:lang="fr">Espagne</country><wicri:regionArea>Instituto Agroforestal Mediterráneo, Universitat Politècnica de València, Camino de Vera s/n, 46022 Valencia</wicri:regionArea><placeName><region nuts="2" type="communauté">Communauté valencienne</region></placeName></affiliation></author><author><name sortKey="Bujanda, Rebeca" sort="Bujanda, Rebeca" uniqKey="Bujanda R" first="Rebeca" last="Bujanda">Rebeca Bujanda</name><affiliation wicri:level="2"><nlm:affiliation>Instituto de Ciencias de la Vid y del Vino (ICVV), Consejo Superior de Investigaciones Científicas - Universidad de la Rioja - Gobierno de La Rioja, Ctra. de Burgos Km. 6, 26007 Logroño, Spain.</nlm:affiliation><country xml:lang="fr">Espagne</country><wicri:regionArea>Instituto de Ciencias de la Vid y del Vino (ICVV), Consejo Superior de Investigaciones Científicas - Universidad de la Rioja - Gobierno de La Rioja, Ctra. de Burgos Km. 6, 26007 Logroño</wicri:regionArea><placeName><region nuts="2" type="communauté">La Rioja</region></placeName></affiliation></author><author><name sortKey="Diaz Losada, Emilia" sort="Diaz Losada, Emilia" uniqKey="Diaz Losada E" first="Emilia" last="Díaz-Losada">Emilia Díaz-Losada</name><affiliation wicri:level="2"><nlm:affiliation>Estación de Viticultura y Enología de Galicia (AGACAL-EVEGA), Ponte San Clodio s/n 32428-Leiro-Ourense, Spain.</nlm:affiliation><country xml:lang="fr">Espagne</country><wicri:regionArea>Estación de Viticultura y Enología de Galicia (AGACAL-EVEGA), Ponte San Clodio s/n 32428-Leiro-Ourense</wicri:regionArea><placeName><region nuts="2" type="communauté">Galice</region></placeName></affiliation></author><author><name sortKey="Gramaje, David" sort="Gramaje, David" uniqKey="Gramaje D" first="David" last="Gramaje">David Gramaje</name><affiliation wicri:level="2"><nlm:affiliation>Instituto de Ciencias de la Vid y del Vino (ICVV), Consejo Superior de Investigaciones Científicas - Universidad de la Rioja - Gobierno de La Rioja, Ctra. de Burgos Km. 6, 26007 Logroño, Spain.</nlm:affiliation><country xml:lang="fr">Espagne</country><wicri:regionArea>Instituto de Ciencias de la Vid y del Vino (ICVV), Consejo Superior de Investigaciones Científicas - Universidad de la Rioja - Gobierno de La Rioja, Ctra. de Burgos Km. 6, 26007 Logroño</wicri:regionArea><placeName><region nuts="2" type="communauté">La Rioja</region></placeName></affiliation></author></analytic><series><title level="j">Plant disease</title><idno type="ISSN">0191-2917</idno><imprint><date when="2020" type="published">2020</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Hypocreales (MeSH)</term><term>Plant Diseases (MeSH)</term><term>Plant Roots (MeSH)</term><term>Rhizosphere (MeSH)</term><term>Soil (MeSH)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Hypocreales (MeSH)</term><term>Maladies des plantes (MeSH)</term><term>Racines de plante (MeSH)</term><term>Rhizosphère (MeSH)</term><term>Sol (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" xml:lang="en"><term>Soil</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Hypocreales</term><term>Plant Diseases</term><term>Plant Roots</term><term>Rhizosphere</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Hypocreales</term><term>Maladies des plantes</term><term>Racines de plante</term><term>Rhizosphère</term><term>Sol</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Black-foot disease is one of the most important soilborne diseases affecting planting material in grapevine nurseries and young vineyards. Accurate, early, and specific detection and quantification of black-foot disease causing fungi are essential to alert growers and nurseries to the presence of the pathogens in soil, and to prevent the spread of these pathogens through grapevines using certified pathogen-free planting material and development of resistance. We comparatively assessed the accuracy, efficiency, and specificity of droplet digital PCR (ddPCR) and real-time PCR (qPCR) techniques for the detection and quantification of <i>Ilyonectria liriodendri</i> in bulk and rhizosphere soils, as well as grapevine endorhizosphere. Fungal abundance was not affected by soil-plant fractions. Both techniques showed a high degree of correlation across the samples assessed (<i>R</i><sup>2</sup> = 0.95) with ddPCR being more sensitive to lower target concentrations. Roots of asymptomatic vines were found to be a microbial niche that is inhabited by black-foot disease fungi.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" IndexingMethod="Automated" Owner="NLM"><PMID Version="1">32053059</PMID><DateCompleted><Year>2020</Year><Month>04</Month><Day>07</Day></DateCompleted><DateRevised><Year>2020</Year><Month>04</Month><Day>08</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Print">0191-2917</ISSN><JournalIssue CitedMedium="Print"><Volume>104</Volume><Issue>4</Issue><PubDate><Year>2020</Year><Month>Apr</Month></PubDate></JournalIssue><Title>Plant disease</Title><ISOAbbreviation>Plant Dis</ISOAbbreviation></Journal><ArticleTitle>Droplet Digital PCR Technology for Detection of <i>Ilyonectria liriodendri</i> from Grapevine Environmental Samples.</ArticleTitle><Pagination><MedlinePgn>1144-1150</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1094/PDIS-03-19-0529-RE</ELocationID><Abstract><AbstractText>Black-foot disease is one of the most important soilborne diseases affecting planting material in grapevine nurseries and young vineyards. Accurate, early, and specific detection and quantification of black-foot disease causing fungi are essential to alert growers and nurseries to the presence of the pathogens in soil, and to prevent the spread of these pathogens through grapevines using certified pathogen-free planting material and development of resistance. We comparatively assessed the accuracy, efficiency, and specificity of droplet digital PCR (ddPCR) and real-time PCR (qPCR) techniques for the detection and quantification of <i>Ilyonectria liriodendri</i> in bulk and rhizosphere soils, as well as grapevine endorhizosphere. Fungal abundance was not affected by soil-plant fractions. Both techniques showed a high degree of correlation across the samples assessed (<i>R</i><sup>2</sup> = 0.95) with ddPCR being more sensitive to lower target concentrations. Roots of asymptomatic vines were found to be a microbial niche that is inhabited by black-foot disease fungi.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Del Pilar Martínez-Diz</LastName><ForeName>María</ForeName><Initials>M</Initials><Identifier Source="ORCID">http://orcid.org/0000-0003-0831-0524</Identifier><AffiliationInfo><Affiliation>Estación de Viticultura y Enología de Galicia (AGACAL-EVEGA), Ponte San Clodio s/n 32428-Leiro-Ourense, Spain.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Universidade da Coruña, Facultade de Ciencias, Zapateira, 15071 A Coruña, Spain.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Andrés-Sodupe</LastName><ForeName>Marcos</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>Instituto de Ciencias de la Vid y del Vino (ICVV), Consejo Superior de Investigaciones Científicas - Universidad de la Rioja - Gobierno de La Rioja, Ctra. de Burgos Km. 6, 26007 Logroño, Spain.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Berbegal</LastName><ForeName>Mónica</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>Instituto Agroforestal Mediterráneo, Universitat Politècnica de València, Camino de Vera s/n, 46022 Valencia, Spain.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Bujanda</LastName><ForeName>Rebeca</ForeName><Initials>R</Initials><AffiliationInfo><Affiliation>Instituto de Ciencias de la Vid y del Vino (ICVV), Consejo Superior de Investigaciones Científicas - Universidad de la Rioja - Gobierno de La Rioja, Ctra. de Burgos Km. 6, 26007 Logroño, Spain.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Díaz-Losada</LastName><ForeName>Emilia</ForeName><Initials>E</Initials><AffiliationInfo><Affiliation>Estación de Viticultura y Enología de Galicia (AGACAL-EVEGA), Ponte San Clodio s/n 32428-Leiro-Ourense, Spain.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Gramaje</LastName><ForeName>David</ForeName><Initials>D</Initials><Identifier Source="ORCID">http://orcid.org/0000-0003-1755-3413</Identifier><AffiliationInfo><Affiliation>Instituto de Ciencias de la Vid y del Vino (ICVV), Consejo Superior de Investigaciones Científicas - Universidad de la Rioja - Gobierno de La Rioja, Ctra. de Burgos Km. 6, 26007 Logroño, Spain.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2020</Year><Month>02</Month><Day>13</Day></ArticleDate></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>Plant Dis</MedlineTA><NlmUniqueID>9882809</NlmUniqueID><ISSNLinking>0191-2917</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D012987">Soil</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D006999" MajorTopicYN="Y">Hypocreales</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010935" MajorTopicYN="Y">Plant Diseases</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018517" MajorTopicYN="N">Plant Roots</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D058441" MajorTopicYN="N">Rhizosphere</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D012987" MajorTopicYN="N">Soil</DescriptorName></MeshHeading></MeshHeadingList><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">fruit</Keyword><Keyword MajorTopicYN="N">fungi</Keyword><Keyword MajorTopicYN="N">pathogen detection</Keyword><Keyword MajorTopicYN="N">tree fruits</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="pubmed"><Year>2020</Year><Month>2</Month><Day>14</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2020</Year><Month>4</Month><Day>9</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2020</Year><Month>2</Month><Day>14</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">32053059</ArticleId><ArticleId IdType="doi">10.1094/PDIS-03-19-0529-RE</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>Espagne</li></country><region><li>Communauté valencienne</li><li>Galice</li><li>La Rioja</li></region></list><tree><country name="Espagne"><region name="Galice"><name sortKey="Del Pilar Martinez Diz, Maria" sort="Del Pilar Martinez Diz, Maria" uniqKey="Del Pilar Martinez Diz M" first="María" last="Del Pilar Martínez-Diz">María Del Pilar Martínez-Diz</name></region><name sortKey="Andres Sodupe, Marcos" sort="Andres Sodupe, Marcos" uniqKey="Andres Sodupe M" first="Marcos" last="Andrés-Sodupe">Marcos Andrés-Sodupe</name><name sortKey="Berbegal, M Nica" sort="Berbegal, M Nica" uniqKey="Berbegal M" first="M Nica" last="Berbegal">M Nica Berbegal</name><name sortKey="Bujanda, Rebeca" sort="Bujanda, Rebeca" uniqKey="Bujanda R" first="Rebeca" last="Bujanda">Rebeca Bujanda</name><name sortKey="Del Pilar Martinez Diz, Maria" sort="Del Pilar Martinez Diz, Maria" uniqKey="Del Pilar Martinez Diz M" first="María" last="Del Pilar Martínez-Diz">María Del Pilar Martínez-Diz</name><name sortKey="Diaz Losada, Emilia" sort="Diaz Losada, Emilia" uniqKey="Diaz Losada E" first="Emilia" last="Díaz-Losada">Emilia Díaz-Losada</name><name sortKey="Gramaje, David" sort="Gramaje, David" uniqKey="Gramaje D" first="David" last="Gramaje">David Gramaje</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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