Novel approaches and methods for quantifying Phytophthora cinnamomi in avocado tree roots.
Identifieur interne : 000436 ( Main/Exploration ); précédent : 000435; suivant : 000437Novel approaches and methods for quantifying Phytophthora cinnamomi in avocado tree roots.
Auteurs : Siyethemba Masikane [Afrique du Sud] ; Jenna Jolliffe [Afrique du Sud] ; Laurika Swart [Afrique du Sud] ; Adele Mcleod [Afrique du Sud]Source :
- FEMS microbiology letters [ 1574-6968 ] ; 2019.
Descripteurs français
- KwdFr :
- MESH :
- isolement et purification : Phytophthora.
- microbiologie : Maladies des plantes, Persea, Racines de plante.
- méthodes : Réaction de polymérisation en chaine en temps réel, Techniques microbiologiques.
English descriptors
- KwdEn :
- MESH :
- isolation & purification : Phytophthora.
- methods : Microbiological Techniques, Real-Time Polymerase Chain Reaction.
- microbiology : Persea, Plant Diseases, Plant Roots.
Abstract
Phytophthora cinnamomi Rands is a devastating root rot pathogen of avocado. Robust and sensitive root quantification methods are required for determining seasonal P. cinnamomi root colonization patterns and evaluating management strategies. Our study investigated four P. cinnamomi root quantification methods using a newly developed P. cinnamomi-avocado-seedling bioassay system and a P. cinnamomi-specific probe-based qPCR assay. Phytophthora cinnamomi quantification through plating of roots (root plating) or lemon leaf disks obtained from root baitings (root-baiting-plating) onto semi-selective media were the best methods. Root plating consistently yielded significant differences in P. cinnamomi quantities obtained from seedling roots inoculated with five zoospore concentrations (10-1 × 105 zoospores/ml), whereas root-baiting-plating did so less often. The two methods were comparable in yielding root quantities that were significantly correlated with the inoculated zoospore concentrations, rarely yielding false negatives and having the lowest variability between replicates of the same treatment. qPCR quantification from roots was also an effective method; however, treatment replicates were highly variable and false negatives occurred more frequently. The least effective quantification method was qPCR quantification from lemon leaf disks obtained from root baitings.
DOI: 10.1093/femsle/fnz199
PubMed: 31550364
Affiliations:
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Africa.</nlm:affiliation><country xml:lang="fr">Afrique du Sud</country><wicri:regionArea>Department of Plant Pathology, Stellenbosch University, Private Bag X1, Matieland 7600</wicri:regionArea><wicri:noRegion>Matieland 7600</wicri:noRegion></affiliation></author><author><name sortKey="Swart, Laurika" sort="Swart, Laurika" uniqKey="Swart L" first="Laurika" last="Swart">Laurika Swart</name><affiliation wicri:level="1"><nlm:affiliation>Department of Plant Pathology, Stellenbosch University, Private Bag X1, Matieland 7600, South Africa.</nlm:affiliation><country xml:lang="fr">Afrique du Sud</country><wicri:regionArea>Department of Plant Pathology, Stellenbosch University, Private Bag X1, Matieland 7600</wicri:regionArea><wicri:noRegion>Matieland 7600</wicri:noRegion></affiliation></author><author><name sortKey="Mcleod, Adele" sort="Mcleod, Adele" uniqKey="Mcleod A" first="Adele" last="Mcleod">Adele Mcleod</name><affiliation wicri:level="1"><nlm:affiliation>Department of Plant Pathology, 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xml:lang="fr">Afrique du Sud</country><wicri:regionArea>Department of Plant Pathology, Stellenbosch University, Private Bag X1, Matieland 7600</wicri:regionArea><wicri:noRegion>Matieland 7600</wicri:noRegion></affiliation></author></analytic><series><title level="j">FEMS microbiology letters</title><idno type="eISSN">1574-6968</idno><imprint><date when="2019" type="published">2019</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Microbiological Techniques (methods)</term><term>Persea (microbiology)</term><term>Phytophthora (isolation & purification)</term><term>Plant Diseases (microbiology)</term><term>Plant Roots (microbiology)</term><term>Real-Time Polymerase Chain Reaction (methods)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Maladies des plantes (microbiologie)</term><term>Persea (microbiologie)</term><term>Phytophthora (isolement et purification)</term><term>Racines de plante (microbiologie)</term><term>Réaction de polymérisation en chaine en temps réel (méthodes)</term><term>Techniques microbiologiques (méthodes)</term></keywords><keywords scheme="MESH" qualifier="isolation & purification" xml:lang="en"><term>Phytophthora</term></keywords><keywords scheme="MESH" qualifier="isolement et purification" xml:lang="fr"><term>Phytophthora</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Microbiological Techniques</term><term>Real-Time Polymerase Chain Reaction</term></keywords><keywords scheme="MESH" qualifier="microbiologie" xml:lang="fr"><term>Maladies des plantes</term><term>Persea</term><term>Racines de plante</term></keywords><keywords scheme="MESH" qualifier="microbiology" xml:lang="en"><term>Persea</term><term>Plant Diseases</term><term>Plant Roots</term></keywords><keywords scheme="MESH" qualifier="méthodes" xml:lang="fr"><term>Réaction de polymérisation en chaine en temps réel</term><term>Techniques microbiologiques</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Phytophthora cinnamomi Rands is a devastating root rot pathogen of avocado. Robust and sensitive root quantification methods are required for determining seasonal P. cinnamomi root colonization patterns and evaluating management strategies. Our study investigated four P. cinnamomi root quantification methods using a newly developed P. cinnamomi-avocado-seedling bioassay system and a P. cinnamomi-specific probe-based qPCR assay. Phytophthora cinnamomi quantification through plating of roots (root plating) or lemon leaf disks obtained from root baitings (root-baiting-plating) onto semi-selective media were the best methods. Root plating consistently yielded significant differences in P. cinnamomi quantities obtained from seedling roots inoculated with five zoospore concentrations (10-1 × 105 zoospores/ml), whereas root-baiting-plating did so less often. The two methods were comparable in yielding root quantities that were significantly correlated with the inoculated zoospore concentrations, rarely yielding false negatives and having the lowest variability between replicates of the same treatment. qPCR quantification from roots was also an effective method; however, treatment replicates were highly variable and false negatives occurred more frequently. The least effective quantification method was qPCR quantification from lemon leaf disks obtained from root baitings.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">31550364</PMID><DateCompleted><Year>2020</Year><Month>07</Month><Day>07</Day></DateCompleted><DateRevised><Year>2020</Year><Month>07</Month><Day>07</Day></DateRevised><Article PubModel="Print"><Journal><ISSN IssnType="Electronic">1574-6968</ISSN><JournalIssue CitedMedium="Internet"><Volume>366</Volume><Issue>16</Issue><PubDate><Year>2019</Year><Month>08</Month><Day>01</Day></PubDate></JournalIssue><Title>FEMS microbiology letters</Title><ISOAbbreviation>FEMS Microbiol Lett</ISOAbbreviation></Journal><ArticleTitle>Novel approaches and methods for quantifying Phytophthora cinnamomi in avocado tree roots.</ArticleTitle><ELocationID EIdType="pii" ValidYN="Y">fnz199</ELocationID><ELocationID EIdType="doi" ValidYN="Y">10.1093/femsle/fnz199</ELocationID><Abstract><AbstractText>Phytophthora cinnamomi Rands is a devastating root rot pathogen of avocado. Robust and sensitive root quantification methods are required for determining seasonal P. cinnamomi root colonization patterns and evaluating management strategies. Our study investigated four P. cinnamomi root quantification methods using a newly developed P. cinnamomi-avocado-seedling bioassay system and a P. cinnamomi-specific probe-based qPCR assay. Phytophthora cinnamomi quantification through plating of roots (root plating) or lemon leaf disks obtained from root baitings (root-baiting-plating) onto semi-selective media were the best methods. Root plating consistently yielded significant differences in P. cinnamomi quantities obtained from seedling roots inoculated with five zoospore concentrations (10-1 × 105 zoospores/ml), whereas root-baiting-plating did so less often. The two methods were comparable in yielding root quantities that were significantly correlated with the inoculated zoospore concentrations, rarely yielding false negatives and having the lowest variability between replicates of the same treatment. qPCR quantification from roots was also an effective method; however, treatment replicates were highly variable and false negatives occurred more frequently. The least effective quantification method was qPCR quantification from lemon leaf disks obtained from root baitings.</AbstractText><CopyrightInformation>© FEMS 2019.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Masikane</LastName><ForeName>Siyethemba</ForeName><Initials>S</Initials><AffiliationInfo><Affiliation>Department of Plant Pathology, Stellenbosch University, Private Bag X1, Matieland 7600, South Africa.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Jolliffe</LastName><ForeName>Jenna</ForeName><Initials>J</Initials><AffiliationInfo><Affiliation>Department of Plant Pathology, Stellenbosch University, Private Bag X1, Matieland 7600, South Africa.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Swart</LastName><ForeName>Laurika</ForeName><Initials>L</Initials><AffiliationInfo><Affiliation>Department of Plant Pathology, Stellenbosch University, Private Bag X1, Matieland 7600, South Africa.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>McLeod</LastName><ForeName>Adele</ForeName><Initials>A</Initials><AffiliationInfo><Affiliation>Department of Plant Pathology, Stellenbosch University, Private Bag X1, Matieland 7600, South Africa.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D003160">Comparative Study</PublicationType><PublicationType UI="D023362">Evaluation Study</PublicationType><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>FEMS Microbiol Lett</MedlineTA><NlmUniqueID>7705721</NlmUniqueID><ISSNLinking>0378-1097</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D008828" MajorTopicYN="N">Microbiological Techniques</DescriptorName><QualifierName UI="Q000379" MajorTopicYN="Y">methods</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D027421" MajorTopicYN="N">Persea</DescriptorName><QualifierName UI="Q000382" MajorTopicYN="Y">microbiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D010838" MajorTopicYN="N">Phytophthora</DescriptorName><QualifierName UI="Q000302" MajorTopicYN="Y">isolation & purification</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D010935" MajorTopicYN="N">Plant Diseases</DescriptorName><QualifierName UI="Q000382" MajorTopicYN="N">microbiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D018517" MajorTopicYN="N">Plant Roots</DescriptorName><QualifierName UI="Q000382" MajorTopicYN="Y">microbiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D060888" MajorTopicYN="N">Real-Time Polymerase Chain Reaction</DescriptorName><QualifierName UI="Q000379" MajorTopicYN="N">methods</QualifierName></MeshHeading></MeshHeadingList><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="Y">Phytophthora cinnamomi
</Keyword><Keyword MajorTopicYN="Y">baiting</Keyword><Keyword MajorTopicYN="Y">qPCR</Keyword><Keyword MajorTopicYN="Y">quantification methods</Keyword><Keyword MajorTopicYN="Y">zoospores</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2019</Year><Month>05</Month><Day>25</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2019</Year><Month>09</Month><Day>21</Day></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2019</Year><Month>9</Month><Day>25</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2020</Year><Month>7</Month><Day>8</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2019</Year><Month>9</Month><Day>25</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">31550364</ArticleId><ArticleId IdType="pii">5573270</ArticleId><ArticleId IdType="doi">10.1093/femsle/fnz199</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>Afrique du Sud</li></country></list><tree><country name="Afrique du Sud"><noRegion><name sortKey="Masikane, Siyethemba" sort="Masikane, Siyethemba" uniqKey="Masikane S" first="Siyethemba" last="Masikane">Siyethemba Masikane</name></noRegion><name sortKey="Jolliffe, Jenna" sort="Jolliffe, Jenna" uniqKey="Jolliffe J" first="Jenna" last="Jolliffe">Jenna Jolliffe</name><name sortKey="Mcleod, Adele" sort="Mcleod, Adele" uniqKey="Mcleod A" first="Adele" last="Mcleod">Adele Mcleod</name><name sortKey="Swart, Laurika" sort="Swart, Laurika" uniqKey="Swart L" first="Laurika" last="Swart">Laurika Swart</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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