Development and application of a loop-mediated isothermal amplification assay for rapid detection of Pythium helicoides.
Identifieur interne : 001124 ( Main/Exploration ); précédent : 001123; suivant : 001125Development and application of a loop-mediated isothermal amplification assay for rapid detection of Pythium helicoides.
Auteurs : Reiko Takahashi [Japon] ; Shiro Fukuta ; Satoru Kuroyanagi ; Noriyuki Miyake ; Hirofumi Nagai ; Koji Kageyama ; Yasushi IshiguroSource :
- FEMS microbiology letters [ 1574-6968 ] ; 2014.
Descripteurs français
- KwdFr :
- Amorces ADN (génétique), Espaceur de l'ADN ribosomique (génétique), Euphorbia (microbiologie), Maladies des plantes (microbiologie), Oomycetes (génétique), Oomycetes (isolement et purification), Racines de plante (microbiologie), Sensibilité et spécificité (MeSH), Techniques d'amplification d'acides nucléiques (méthodes).
- MESH :
- génétique : Amorces ADN, Espaceur de l'ADN ribosomique, Oomycetes.
- isolement et purification : Oomycetes.
- microbiologie : Euphorbia, Maladies des plantes, Racines de plante.
- méthodes : Techniques d'amplification d'acides nucléiques.
- Sensibilité et spécificité.
English descriptors
- KwdEn :
- MESH :
- chemical , genetics : DNA Primers, DNA, Ribosomal Spacer.
- genetics : Oomycetes.
- isolation & purification : Oomycetes.
- methods : Nucleic Acid Amplification Techniques.
- microbiology : Euphorbia, Plant Diseases, Plant Roots.
- Sensitivity and Specificity.
Abstract
Root rot of poinsettia, caused by Pythium helicoides at high temperatures in hydroponic cultures, has become a serious problem in many parts of the world. We have developed a species-specific, loop-mediated isothermal amplification (LAMP) assay for the rapid diagnosis of this pathogen. The primers were designed using the ribosomal DNA internal transcribed spacer sequence. Primer specificity was established using 40 Pythium species including P. helicoides, 11 Phytophthora species, and eight other soil-borne pathogens. A sensitivity test was carried out using genomic DNA extracted from P. helicoides, and the detection limit was c. 100 fg which is comparable to that of the polymerase chain reaction (PCR). In addition, we tested the ease of pathogen detection in poinsettia roots. The LAMP results were consistent with those from the conventional plating method and showed more sensitivity than the PCR results. Consequently, the LAMP method developed in this study is effective for the rapid and easy detection of P. helicoides.
DOI: 10.1111/1574-6968.12453
PubMed: 24797345
Affiliations:
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Kuroyanagi</name></author><author><name sortKey="Miyake, Noriyuki" sort="Miyake, Noriyuki" uniqKey="Miyake N" first="Noriyuki" last="Miyake">Noriyuki Miyake</name></author><author><name sortKey="Nagai, Hirofumi" sort="Nagai, Hirofumi" uniqKey="Nagai H" first="Hirofumi" last="Nagai">Hirofumi Nagai</name></author><author><name sortKey="Kageyama, Koji" sort="Kageyama, Koji" uniqKey="Kageyama K" first="Koji" last="Kageyama">Koji Kageyama</name></author><author><name sortKey="Ishiguro, Yasushi" sort="Ishiguro, Yasushi" uniqKey="Ishiguro Y" first="Yasushi" last="Ishiguro">Yasushi Ishiguro</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2014">2014</date><idno type="RBID">pubmed:24797345</idno><idno type="pmid">24797345</idno><idno type="doi">10.1111/1574-6968.12453</idno><idno type="wicri:Area/Main/Corpus">001071</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">001071</idno><idno 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last="Fukuta">Shiro Fukuta</name></author><author><name sortKey="Kuroyanagi, Satoru" sort="Kuroyanagi, Satoru" uniqKey="Kuroyanagi S" first="Satoru" last="Kuroyanagi">Satoru Kuroyanagi</name></author><author><name sortKey="Miyake, Noriyuki" sort="Miyake, Noriyuki" uniqKey="Miyake N" first="Noriyuki" last="Miyake">Noriyuki Miyake</name></author><author><name sortKey="Nagai, Hirofumi" sort="Nagai, Hirofumi" uniqKey="Nagai H" first="Hirofumi" last="Nagai">Hirofumi Nagai</name></author><author><name sortKey="Kageyama, Koji" sort="Kageyama, Koji" uniqKey="Kageyama K" first="Koji" last="Kageyama">Koji Kageyama</name></author><author><name sortKey="Ishiguro, Yasushi" sort="Ishiguro, Yasushi" uniqKey="Ishiguro Y" first="Yasushi" last="Ishiguro">Yasushi Ishiguro</name></author></analytic><series><title level="j">FEMS microbiology letters</title><idno type="eISSN">1574-6968</idno><imprint><date when="2014" 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(méthodes)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>DNA Primers</term><term>DNA, Ribosomal Spacer</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Oomycetes</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Amorces ADN</term><term>Espaceur de l'ADN ribosomique</term><term>Oomycetes</term></keywords><keywords scheme="MESH" qualifier="isolation & purification" xml:lang="en"><term>Oomycetes</term></keywords><keywords scheme="MESH" qualifier="isolement et purification" xml:lang="fr"><term>Oomycetes</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>Euphorbia</term><term>Maladies des plantes</term><term>Racines de plante</term></keywords><keywords scheme="MESH" qualifier="microbiology" xml:lang="en"><term>Euphorbia</term><term>Plant Diseases</term><term>Plant Roots</term></keywords><keywords scheme="MESH" qualifier="méthodes" xml:lang="fr"><term>Techniques d'amplification d'acides nucléiques</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Sensitivity and Specificity</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Sensibilité et spécificité</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Root rot of poinsettia, caused by Pythium helicoides at high temperatures in hydroponic cultures, has become a serious problem in many parts of the world. We have developed a species-specific, loop-mediated isothermal amplification (LAMP) assay for the rapid diagnosis of this pathogen. The primers were designed using the ribosomal DNA internal transcribed spacer sequence. Primer specificity was established using 40 Pythium species including P. helicoides, 11 Phytophthora species, and eight other soil-borne pathogens. A sensitivity test was carried out using genomic DNA extracted from P. helicoides, and the detection limit was c. 100 fg which is comparable to that of the polymerase chain reaction (PCR). In addition, we tested the ease of pathogen detection in poinsettia roots. The LAMP results were consistent with those from the conventional plating method and showed more sensitivity than the PCR results. Consequently, the LAMP method developed in this study is effective for the rapid and easy detection of P. helicoides. </div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">24797345</PMID><DateCompleted><Year>2015</Year><Month>01</Month><Day>16</Day></DateCompleted><DateRevised><Year>2019</Year><Month>12</Month><Day>10</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1574-6968</ISSN><JournalIssue CitedMedium="Internet"><Volume>355</Volume><Issue>1</Issue><PubDate><Year>2014</Year><Month>Jun</Month></PubDate></JournalIssue><Title>FEMS microbiology letters</Title><ISOAbbreviation>FEMS Microbiol Lett</ISOAbbreviation></Journal><ArticleTitle>Development and application of a loop-mediated isothermal amplification assay for rapid detection of Pythium helicoides.</ArticleTitle><Pagination><MedlinePgn>28-35</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1111/1574-6968.12453</ELocationID><Abstract><AbstractText>Root rot of poinsettia, caused by Pythium helicoides at high temperatures in hydroponic cultures, has become a serious problem in many parts of the world. We have developed a species-specific, loop-mediated isothermal amplification (LAMP) assay for the rapid diagnosis of this pathogen. The primers were designed using the ribosomal DNA internal transcribed spacer sequence. Primer specificity was established using 40 Pythium species including P. helicoides, 11 Phytophthora species, and eight other soil-borne pathogens. A sensitivity test was carried out using genomic DNA extracted from P. helicoides, and the detection limit was c. 100 fg which is comparable to that of the polymerase chain reaction (PCR). In addition, we tested the ease of pathogen detection in poinsettia roots. The LAMP results were consistent with those from the conventional plating method and showed more sensitivity than the PCR results. Consequently, the LAMP method developed in this study is effective for the rapid and easy detection of P. helicoides. </AbstractText><CopyrightInformation>© 2014 Federation of European Microbiological Societies. Published by John Wiley & Sons Ltd. All rights reserved.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Takahashi</LastName><ForeName>Reiko</ForeName><Initials>R</Initials><AffiliationInfo><Affiliation>Agri-environmental Division, Aichi Agricultural Research Center, Nagakute, Aichi, Japan.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Fukuta</LastName><ForeName>Shiro</ForeName><Initials>S</Initials></Author><Author ValidYN="Y"><LastName>Kuroyanagi</LastName><ForeName>Satoru</ForeName><Initials>S</Initials></Author><Author ValidYN="Y"><LastName>Miyake</LastName><ForeName>Noriyuki</ForeName><Initials>N</Initials></Author><Author ValidYN="Y"><LastName>Nagai</LastName><ForeName>Hirofumi</ForeName><Initials>H</Initials></Author><Author ValidYN="Y"><LastName>Kageyama</LastName><ForeName>Koji</ForeName><Initials>K</Initials></Author><Author ValidYN="Y"><LastName>Ishiguro</LastName><ForeName>Yasushi</ForeName><Initials>Y</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D023362">Evaluation Study</PublicationType><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2014</Year><Month>05</Month><Day>22</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>FEMS Microbiol Lett</MedlineTA><NlmUniqueID>7705721</NlmUniqueID><ISSNLinking>0378-1097</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D017931">DNA Primers</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D021903">DNA, Ribosomal Spacer</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D017931" MajorTopicYN="N">DNA Primers</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D021903" MajorTopicYN="N">DNA, Ribosomal Spacer</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D028481" MajorTopicYN="N">Euphorbia</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="D009868" MajorTopicYN="N">Oomycetes</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><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="N">microbiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D012680" MajorTopicYN="N">Sensitivity and Specificity</DescriptorName></MeshHeading></MeshHeadingList><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Pythium helicoides</Keyword><Keyword MajorTopicYN="N">hydroponic culture</Keyword><Keyword MajorTopicYN="N">loop-mediated isothermal amplification</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2014</Year><Month>01</Month><Day>13</Day></PubMedPubDate><PubMedPubDate PubStatus="revised"><Year>2014</Year><Month>03</Month><Day>11</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2014</Year><Month>04</Month><Day>29</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2014</Year><Month>5</Month><Day>7</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2014</Year><Month>5</Month><Day>7</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2015</Year><Month>1</Month><Day>17</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">24797345</ArticleId><ArticleId IdType="doi">10.1111/1574-6968.12453</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>Japon</li></country></list><tree><noCountry><name sortKey="Fukuta, Shiro" sort="Fukuta, Shiro" uniqKey="Fukuta S" first="Shiro" last="Fukuta">Shiro Fukuta</name><name sortKey="Ishiguro, Yasushi" sort="Ishiguro, Yasushi" uniqKey="Ishiguro Y" first="Yasushi" last="Ishiguro">Yasushi Ishiguro</name><name sortKey="Kageyama, Koji" sort="Kageyama, Koji" uniqKey="Kageyama K" first="Koji" last="Kageyama">Koji Kageyama</name><name sortKey="Kuroyanagi, Satoru" sort="Kuroyanagi, Satoru" uniqKey="Kuroyanagi S" first="Satoru" last="Kuroyanagi">Satoru Kuroyanagi</name><name sortKey="Miyake, Noriyuki" sort="Miyake, Noriyuki" uniqKey="Miyake N" first="Noriyuki" last="Miyake">Noriyuki Miyake</name><name sortKey="Nagai, Hirofumi" sort="Nagai, Hirofumi" uniqKey="Nagai H" first="Hirofumi" last="Nagai">Hirofumi Nagai</name></noCountry><country name="Japon"><noRegion><name sortKey="Takahashi, Reiko" sort="Takahashi, Reiko" uniqKey="Takahashi R" first="Reiko" last="Takahashi">Reiko Takahashi</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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