Loop-mediated isothermal amplification for detection of the tomato and potato late blight pathogen, Phytophthora infestans.
Identifieur interne : 000B89 ( Main/Exploration ); précédent : 000B88; suivant : 000B90Loop-mediated isothermal amplification for detection of the tomato and potato late blight pathogen, Phytophthora infestans.
Auteurs : Z R Hansen [États-Unis] ; B J Knaus [États-Unis] ; J F Tabima [États-Unis] ; C M Press [États-Unis] ; H S Judelson [États-Unis] ; N J Grünwald [États-Unis] ; C D Smart [États-Unis]Source :
- Journal of applied microbiology [ 1365-2672 ] ; 2016.
Descripteurs français
- KwdFr :
- Amorces ADN (MeSH), Feuilles de plante (microbiologie), Lycopersicon esculentum (microbiologie), Maladies des plantes (microbiologie), Phytophthora infestans (génétique), Phytophthora infestans (isolement et purification), Solanum tuberosum (microbiologie), Techniques d'amplification d'acides nucléiques (méthodes).
- MESH :
- génétique : Phytophthora infestans.
- isolement et purification : Phytophthora infestans.
- microbiologie : Feuilles de plante, Lycopersicon esculentum, Maladies des plantes, Solanum tuberosum.
- méthodes : Techniques d'amplification d'acides nucléiques.
- Amorces ADN.
English descriptors
- KwdEn :
- MESH :
- chemical : DNA Primers.
- genetics : Phytophthora infestans.
- isolation & purification : Phytophthora infestans.
- methods : Nucleic Acid Amplification Techniques.
- microbiology : Lycopersicon esculentum, Plant Diseases, Plant Leaves, Solanum tuberosum.
Abstract
AIMS
To design and validate a colorimetric loop-mediated isothermal amplification assay for rapid detection of Phytophthora infestans DNA.
METHODS AND RESULTS
Two sets of loop-mediated isothermal amplification (LAMP) primers were designed and evaluated for their sensitivity and specificity for P. infestans. ITSII primers targeted a portion of the internal transcribed spacer region of ribosomal DNA. These primers had a limit of detection of 2 pg P. infestans DNA and cross-reacted with the closely related species Phytophthora nicotianae. Rgn86_2 primers, designed to improve assay specificity, targeted a portion of a conserved hypothetical protein. These primers had a limit of detection of 200 pg P. infestans DNA and did not cross-react with P. nicotianae. The specificity of the Rgn86_2 assay was tested further using the closely related species P. andina, P. ipomoeae, P. mirabilis and P. phaseoli. Cross-reactions occurred with P. andina and P. mirabilis, but neither species occurs on tomato or potato. Both primer sets were able to detect P. infestans DNA extracted from tomato late blight leaf lesions.
CONCLUSIONS
Two colorimetric LAMP assays detected P. infestans DNA from pure cultures as well as infected leaf tissue. The ITSII primers had higher sensitivity, and the Rgn86_2 primers had higher specificity.
SIGNIFICANCE AND IMPACT OF THE STUDY
This is the first report of a LAMP assay for the detection of P. infestans, the causal organism of potato and tomato late blight. These assays have potential for immediate utility in plant disease research and diagnostic laboratories.
DOI: 10.1111/jam.13079
PubMed: 26820117
Affiliations:
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York)</settlement></placeName><orgName type="university">Université Cornell</orgName></affiliation></author><author><name sortKey="Knaus, B J" sort="Knaus, B J" uniqKey="Knaus B" first="B J" last="Knaus">B J Knaus</name><affiliation wicri:level="2"><nlm:affiliation>Horticultural Crops Research Laboratory, USDA Agricultural Research Service, Corvallis, OR, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Horticultural Crops Research Laboratory, USDA Agricultural Research Service, Corvallis, OR</wicri:regionArea><placeName><region type="state">Oregon</region></placeName></affiliation></author><author><name sortKey="Tabima, J F" sort="Tabima, J F" uniqKey="Tabima J" first="J F" last="Tabima">J F Tabima</name><affiliation wicri:level="2"><nlm:affiliation>Botany and Plant Pathology, Oregon State University, Corvallis, OR, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Botany and Plant Pathology, Oregon State University, 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Plant Pathology and Microbiology, University of California, Riverside, CA</wicri:regionArea><placeName><region type="state">Californie</region></placeName></affiliation></author><author><name sortKey="Grunwald, N J" sort="Grunwald, N J" uniqKey="Grunwald N" first="N J" last="Grünwald">N J Grünwald</name><affiliation wicri:level="2"><nlm:affiliation>Horticultural Crops Research Laboratory, USDA Agricultural Research Service, Corvallis, OR, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Horticultural Crops Research Laboratory, USDA Agricultural Research Service, Corvallis, OR</wicri:regionArea><placeName><region type="state">Oregon</region></placeName></affiliation><affiliation wicri:level="2"><nlm:affiliation>Botany and Plant Pathology, Oregon State University, Corvallis, OR, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Botany and Plant Pathology, Oregon State University, Corvallis, OR</wicri:regionArea><placeName><region type="state">Oregon</region></placeName></affiliation></author><author><name sortKey="Smart, C D" sort="Smart, C D" uniqKey="Smart C" first="C D" last="Smart">C D Smart</name><affiliation wicri:level="4"><nlm:affiliation>Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, Geneva, NY, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, Geneva, NY</wicri:regionArea><placeName><region type="state">État de New York</region><settlement type="city">Ithaca (New York)</settlement></placeName><orgName type="university">Université Cornell</orgName></affiliation></author></analytic><series><title level="j">Journal of applied microbiology</title><idno type="eISSN">1365-2672</idno><imprint><date when="2016" type="published">2016</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>DNA Primers (MeSH)</term><term>Lycopersicon esculentum (microbiology)</term><term>Nucleic Acid Amplification Techniques (methods)</term><term>Phytophthora infestans (genetics)</term><term>Phytophthora infestans (isolation & purification)</term><term>Plant Diseases (microbiology)</term><term>Plant Leaves (microbiology)</term><term>Solanum tuberosum (microbiology)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Amorces ADN (MeSH)</term><term>Feuilles de plante (microbiologie)</term><term>Lycopersicon esculentum (microbiologie)</term><term>Maladies des plantes (microbiologie)</term><term>Phytophthora infestans (génétique)</term><term>Phytophthora infestans (isolement et purification)</term><term>Solanum tuberosum (microbiologie)</term><term>Techniques d'amplification d'acides nucléiques (méthodes)</term></keywords><keywords scheme="MESH" type="chemical" xml:lang="en"><term>DNA Primers</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Phytophthora infestans</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Phytophthora infestans</term></keywords><keywords scheme="MESH" qualifier="isolation & purification" xml:lang="en"><term>Phytophthora infestans</term></keywords><keywords scheme="MESH" qualifier="isolement et purification" xml:lang="fr"><term>Phytophthora infestans</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Nucleic Acid Amplification Techniques</term></keywords><keywords scheme="MESH" qualifier="microbiologie" xml:lang="fr"><term>Feuilles de plante</term><term>Lycopersicon esculentum</term><term>Maladies des plantes</term><term>Solanum tuberosum</term></keywords><keywords scheme="MESH" qualifier="microbiology" xml:lang="en"><term>Lycopersicon esculentum</term><term>Plant Diseases</term><term>Plant Leaves</term><term>Solanum tuberosum</term></keywords><keywords scheme="MESH" qualifier="méthodes" xml:lang="fr"><term>Techniques d'amplification d'acides nucléiques</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Amorces ADN</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p><b>AIMS</b></p><p>To design and validate a colorimetric loop-mediated isothermal amplification assay for rapid detection of Phytophthora infestans DNA.</p></div><div type="abstract" xml:lang="en"><p><b>METHODS AND RESULTS</b></p><p>Two sets of loop-mediated isothermal amplification (LAMP) primers were designed and evaluated for their sensitivity and specificity for P. infestans. ITSII primers targeted a portion of the internal transcribed spacer region of ribosomal DNA. These primers had a limit of detection of 2 pg P. infestans DNA and cross-reacted with the closely related species Phytophthora nicotianae. Rgn86_2 primers, designed to improve assay specificity, targeted a portion of a conserved hypothetical protein. These primers had a limit of detection of 200 pg P. infestans DNA and did not cross-react with P. nicotianae. The specificity of the Rgn86_2 assay was tested further using the closely related species P. andina, P. ipomoeae, P. mirabilis and P. phaseoli. Cross-reactions occurred with P. andina and P. mirabilis, but neither species occurs on tomato or potato. Both primer sets were able to detect P. infestans DNA extracted from tomato late blight leaf lesions.</p></div><div type="abstract" xml:lang="en"><p><b>CONCLUSIONS</b></p><p>Two colorimetric LAMP assays detected P. infestans DNA from pure cultures as well as infected leaf tissue. The ITSII primers had higher sensitivity, and the Rgn86_2 primers had higher specificity.</p></div><div type="abstract" xml:lang="en"><p><b>SIGNIFICANCE AND IMPACT OF THE STUDY</b></p><p>This is the first report of a LAMP assay for the detection of P. infestans, the causal organism of potato and tomato late blight. These assays have potential for immediate utility in plant disease research and diagnostic laboratories.</p></div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" IndexingMethod="Curated" Owner="NLM"><PMID Version="1">26820117</PMID><DateCompleted><Year>2016</Year><Month>12</Month><Day>26</Day></DateCompleted><DateRevised><Year>2018</Year><Month>12</Month><Day>02</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1365-2672</ISSN><JournalIssue CitedMedium="Internet"><Volume>120</Volume><Issue>4</Issue><PubDate><Year>2016</Year><Month>Apr</Month></PubDate></JournalIssue><Title>Journal of applied microbiology</Title><ISOAbbreviation>J Appl Microbiol</ISOAbbreviation></Journal><ArticleTitle>Loop-mediated isothermal amplification for detection of the tomato and potato late blight pathogen, Phytophthora infestans.</ArticleTitle><Pagination><MedlinePgn>1010-20</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1111/jam.13079</ELocationID><Abstract><AbstractText Label="AIMS" NlmCategory="OBJECTIVE">To design and validate a colorimetric loop-mediated isothermal amplification assay for rapid detection of Phytophthora infestans DNA.</AbstractText><AbstractText Label="METHODS AND RESULTS" NlmCategory="RESULTS">Two sets of loop-mediated isothermal amplification (LAMP) primers were designed and evaluated for their sensitivity and specificity for P. infestans. ITSII primers targeted a portion of the internal transcribed spacer region of ribosomal DNA. These primers had a limit of detection of 2 pg P. infestans DNA and cross-reacted with the closely related species Phytophthora nicotianae. Rgn86_2 primers, designed to improve assay specificity, targeted a portion of a conserved hypothetical protein. These primers had a limit of detection of 200 pg P. infestans DNA and did not cross-react with P. nicotianae. The specificity of the Rgn86_2 assay was tested further using the closely related species P. andina, P. ipomoeae, P. mirabilis and P. phaseoli. Cross-reactions occurred with P. andina and P. mirabilis, but neither species occurs on tomato or potato. Both primer sets were able to detect P. infestans DNA extracted from tomato late blight leaf lesions.</AbstractText><AbstractText Label="CONCLUSIONS" NlmCategory="CONCLUSIONS">Two colorimetric LAMP assays detected P. infestans DNA from pure cultures as well as infected leaf tissue. The ITSII primers had higher sensitivity, and the Rgn86_2 primers had higher specificity.</AbstractText><AbstractText Label="SIGNIFICANCE AND IMPACT OF THE STUDY" NlmCategory="CONCLUSIONS">This is the first report of a LAMP assay for the detection of P. infestans, the causal organism of potato and tomato late blight. These assays have potential for immediate utility in plant disease research and diagnostic laboratories.</AbstractText><CopyrightInformation>© 2016 The Society for Applied Microbiology.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Hansen</LastName><ForeName>Z R</ForeName><Initials>ZR</Initials><AffiliationInfo><Affiliation>Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, Geneva, NY, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Knaus</LastName><ForeName>B J</ForeName><Initials>BJ</Initials><AffiliationInfo><Affiliation>Horticultural Crops Research Laboratory, USDA Agricultural Research Service, Corvallis, OR, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Tabima</LastName><ForeName>J F</ForeName><Initials>JF</Initials><AffiliationInfo><Affiliation>Botany and Plant Pathology, Oregon State University, Corvallis, OR, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Press</LastName><ForeName>C M</ForeName><Initials>CM</Initials><AffiliationInfo><Affiliation>Horticultural Crops Research Laboratory, USDA Agricultural Research Service, Corvallis, OR, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Judelson</LastName><ForeName>H S</ForeName><Initials>HS</Initials><AffiliationInfo><Affiliation>Department of Plant Pathology and Microbiology, University of California, Riverside, CA, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Grünwald</LastName><ForeName>N J</ForeName><Initials>NJ</Initials><AffiliationInfo><Affiliation>Horticultural Crops Research Laboratory, USDA Agricultural Research Service, Corvallis, OR, USA.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Botany and Plant Pathology, Oregon State University, Corvallis, OR, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Smart</LastName><ForeName>C D</ForeName><Initials>CD</Initials><AffiliationInfo><Affiliation>Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, Geneva, NY, USA.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><DataBankList CompleteYN="Y"><DataBank><DataBankName>GENBANK</DataBankName><AccessionNumberList><AccessionNumber>XM_002901331</AccessionNumber></AccessionNumberList></DataBank></DataBankList><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013486">Research Support, U.S. Gov't, Non-P.H.S.</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2016</Year><Month>03</Month><Day>07</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>J Appl Microbiol</MedlineTA><NlmUniqueID>9706280</NlmUniqueID><ISSNLinking>1364-5072</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D017931">DNA Primers</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D017931" MajorTopicYN="N">DNA Primers</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018551" MajorTopicYN="N">Lycopersicon esculentum</DescriptorName><QualifierName UI="Q000382" MajorTopicYN="N">microbiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D021141" MajorTopicYN="N">Nucleic Acid Amplification Techniques</DescriptorName><QualifierName UI="Q000379" MajorTopicYN="Y">methods</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D055750" MajorTopicYN="N">Phytophthora infestans</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000302" MajorTopicYN="N">isolation & purification</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D010935" MajorTopicYN="N">Plant Diseases</DescriptorName><QualifierName UI="Q000382" MajorTopicYN="Y">microbiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D018515" MajorTopicYN="N">Plant Leaves</DescriptorName><QualifierName UI="Q000382" MajorTopicYN="N">microbiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D011198" MajorTopicYN="N">Solanum tuberosum</DescriptorName><QualifierName UI="Q000382" MajorTopicYN="N">microbiology</QualifierName></MeshHeading></MeshHeadingList><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Phytophthora infestans</Keyword><Keyword MajorTopicYN="N">agriculture</Keyword><Keyword MajorTopicYN="N">diagnostics</Keyword><Keyword MajorTopicYN="N">late blight</Keyword><Keyword MajorTopicYN="N">loop-mediated isothermal amplification</Keyword><Keyword MajorTopicYN="N">plant pathology</Keyword><Keyword MajorTopicYN="N">potato</Keyword><Keyword MajorTopicYN="N">tomato</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2015</Year><Month>09</Month><Day>28</Day></PubMedPubDate><PubMedPubDate PubStatus="revised"><Year>2016</Year><Month>01</Month><Day>20</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2016</Year><Month>01</Month><Day>21</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2016</Year><Month>1</Month><Day>29</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2016</Year><Month>1</Month><Day>29</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2016</Year><Month>12</Month><Day>27</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">26820117</ArticleId><ArticleId IdType="doi">10.1111/jam.13079</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>États-Unis</li></country><region><li>Californie</li><li>Oregon</li><li>État de New York</li></region><settlement><li>Ithaca (New York)</li></settlement><orgName><li>Université Cornell</li></orgName></list><tree><country name="États-Unis"><region name="État de New York"><name sortKey="Hansen, Z R" sort="Hansen, Z R" uniqKey="Hansen Z" first="Z R" last="Hansen">Z R Hansen</name></region><name sortKey="Grunwald, N J" sort="Grunwald, N J" uniqKey="Grunwald N" first="N J" last="Grünwald">N J Grünwald</name><name sortKey="Grunwald, N J" sort="Grunwald, N J" uniqKey="Grunwald N" first="N J" last="Grünwald">N J Grünwald</name><name sortKey="Judelson, H S" sort="Judelson, H S" uniqKey="Judelson H" first="H S" last="Judelson">H S Judelson</name><name sortKey="Knaus, B J" sort="Knaus, B J" uniqKey="Knaus B" first="B J" last="Knaus">B J Knaus</name><name sortKey="Press, C M" sort="Press, C M" uniqKey="Press C" first="C M" last="Press">C M Press</name><name sortKey="Smart, C D" sort="Smart, C D" uniqKey="Smart C" first="C D" last="Smart">C D Smart</name><name sortKey="Tabima, J F" sort="Tabima, J F" uniqKey="Tabima J" first="J F" last="Tabima">J F Tabima</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Exploration/RBID.i -Sk "pubmed:26820117" \
| HfdSelect -Kh $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd \
| NlmPubMed2Wicri -a PhytophthoraV1
| This area was generated with Dilib version V0.6.38. |  |