Evaluation of High-Resolution Melting for Rapid Differentiation of Phytophthora Hybrids and Their Parental Species.
Identifieur interne : 000518 ( Main/Exploration ); précédent : 000517; suivant : 000519Evaluation of High-Resolution Melting for Rapid Differentiation of Phytophthora Hybrids and Their Parental Species.
Auteurs : Maria F. Ratti [États-Unis, Équateur] ; Rhys A. Farrer [Royaume-Uni] ; Liliana M. Cano [Royaume-Uni] ; Roberto Faedda [Italie] ; Erica M. Goss [États-Unis]Source :
- Plant disease [ 0191-2917 ] ; 2019.
Descripteurs français
- KwdFr :
- MESH :
- génétique : Hybridation génétique, Phytophthora.
- méthodes : Typage moléculaire.
- normes : Typage moléculaire.
- parasitologie : Solanaceae.
- Amorces ADN, Phytophthora, Température de transition.
English descriptors
- KwdEn :
- MESH :
- chemical : DNA Primers.
- classification : Phytophthora.
- genetics : Hybridization, Genetic, Phytophthora.
- methods : Molecular Typing.
- parasitology : Solanaceae.
- standards : Molecular Typing.
- Transition Temperature.
Abstract
Phytophthora species hybrids have been repeatedly reported as causing damaging diseases to cultivated and wild plants. Two known hybrids, P. andina and P. × pelgrandis, are pathogens of Solanaceae and ornamentals, respectively, although the extent of their host ranges are unknown. P. andina emerged from hybridization of P. infestans and an unidentified related species, whereas P. × pelgrandis emerged from P. nicotianae and P. cactorum. Considering that hybrids and parental species can coexist in the same regions and to distinguish them usually requires cloning or whole genome sequencing, we aimed to develop a rapid tool to distinguish them. Specifically, we used high-resolution melting (HRM) assays to differentiate genotypes based on their amplicon melting profiles. We designed primers for P. × pelgrandis and parental species based on available sequences of P. nicotianae and P. cactorum nuclear genes containing polymorphisms between species. For P. andina, heterozygous sites from Illumina short reads were used for the same purpose. We identified multiple amplicons exhibiting differences in melting curves between parental species and hybrids. We propose HRM as a rapid method for differentiation of P. andina and P. × pelgrandis hybrids from parental species that could be employed to advance research on these pathogens.
DOI: 10.1094/PDIS-12-18-2291-RE
PubMed: 31355734
Affiliations:
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Ratti</name><affiliation wicri:level="2"><nlm:affiliation>Department of Plant Pathology and Emerging Pathogens Institute, University of Florida, Gainesville, FL 32611 U.S.A.</nlm:affiliation><country xml:lang="fr">États-Unis</country><placeName><region type="state">Floride</region></placeName><wicri:cityArea>Department of Plant Pathology and Emerging Pathogens Institute, University of Florida, Gainesville</wicri:cityArea></affiliation><affiliation wicri:level="1"><nlm:affiliation>Facultad de Ciencias de la Vida, Escuela Superior Politécnica del Litoral, Campus Gustavo Galindo, Km 30.5 Vía Perimetral. P.O. Box 09-01-5863, Guayaquil, Ecuador.</nlm:affiliation><country xml:lang="fr">Équateur</country><wicri:regionArea>Facultad de Ciencias de la Vida, Escuela Superior Politécnica del Litoral, Campus Gustavo Galindo, Km 30.5 Vía Perimetral. P.O. Box 09-01-5863, Guayaquil</wicri:regionArea><wicri:noRegion>Guayaquil</wicri:noRegion></affiliation></author><author><name sortKey="Farrer, Rhys A" sort="Farrer, Rhys A" uniqKey="Farrer R" first="Rhys A" last="Farrer">Rhys A. Farrer</name><affiliation wicri:level="1"><nlm:affiliation>The Sainsbury Laboratory, Norwich Research Park, Norwich NR4 7UH, United Kingdom.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>The Sainsbury Laboratory, Norwich Research Park, Norwich NR4 7UH</wicri:regionArea><wicri:noRegion>Norwich NR4 7UH</wicri:noRegion></affiliation></author><author><name sortKey="Cano, Liliana M" sort="Cano, Liliana M" uniqKey="Cano L" first="Liliana M" last="Cano">Liliana M. Cano</name><affiliation wicri:level="1"><nlm:affiliation>The Sainsbury Laboratory, Norwich Research Park, Norwich NR4 7UH, United Kingdom.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>The Sainsbury Laboratory, Norwich Research Park, Norwich NR4 7UH</wicri:regionArea><wicri:noRegion>Norwich NR4 7UH</wicri:noRegion></affiliation></author><author><name sortKey="Faedda, Roberto" sort="Faedda, Roberto" uniqKey="Faedda R" first="Roberto" last="Faedda">Roberto Faedda</name><affiliation wicri:level="1"><nlm:affiliation>Department of Agriculture, Food and Environment, University of Catania, Catania, Italy.</nlm:affiliation><country xml:lang="fr">Italie</country><wicri:regionArea>Department of Agriculture, Food and Environment, University of Catania, Catania</wicri:regionArea><wicri:noRegion>Catania</wicri:noRegion></affiliation></author><author><name sortKey="Goss, Erica M" sort="Goss, Erica M" uniqKey="Goss E" first="Erica M" last="Goss">Erica M. Goss</name><affiliation wicri:level="2"><nlm:affiliation>Department of Plant Pathology and Emerging Pathogens Institute, University of Florida, Gainesville, FL 32611 U.S.A.</nlm:affiliation><country xml:lang="fr">États-Unis</country><placeName><region type="state">Floride</region></placeName><wicri:cityArea>Department of Plant Pathology and Emerging Pathogens Institute, University of Florida, Gainesville</wicri:cityArea></affiliation></author></analytic><series><title level="j">Plant disease</title><idno type="ISSN">0191-2917</idno><imprint><date when="2019" type="published">2019</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>DNA Primers (MeSH)</term><term>Hybridization, Genetic (genetics)</term><term>Molecular Typing (methods)</term><term>Molecular Typing (standards)</term><term>Phytophthora (classification)</term><term>Phytophthora (genetics)</term><term>Solanaceae (parasitology)</term><term>Transition Temperature (MeSH)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Amorces ADN (MeSH)</term><term>Hybridation génétique (génétique)</term><term>Phytophthora (classification)</term><term>Phytophthora (génétique)</term><term>Solanaceae (parasitologie)</term><term>Température de transition (MeSH)</term><term>Typage moléculaire (méthodes)</term><term>Typage moléculaire (normes)</term></keywords><keywords scheme="MESH" type="chemical" xml:lang="en"><term>DNA Primers</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Phytophthora</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Hybridization, Genetic</term><term>Phytophthora</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Hybridation génétique</term><term>Phytophthora</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Molecular Typing</term></keywords><keywords scheme="MESH" qualifier="méthodes" xml:lang="fr"><term>Typage moléculaire</term></keywords><keywords scheme="MESH" qualifier="normes" xml:lang="fr"><term>Typage moléculaire</term></keywords><keywords scheme="MESH" qualifier="parasitologie" xml:lang="fr"><term>Solanaceae</term></keywords><keywords scheme="MESH" qualifier="parasitology" xml:lang="en"><term>Solanaceae</term></keywords><keywords scheme="MESH" qualifier="standards" xml:lang="en"><term>Molecular Typing</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Transition Temperature</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Amorces ADN</term><term>Phytophthora</term><term>Température de transition</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><i>Phytophthora</i> species hybrids have been repeatedly reported as causing damaging diseases to cultivated and wild plants. Two known hybrids, <i>P. andina</i> and <i>P.</i> × <i>pelgrandis</i>, are pathogens of Solanaceae and ornamentals, respectively, although the extent of their host ranges are unknown. <i>P. andina</i> emerged from hybridization of <i>P. infestans</i> and an unidentified related species, whereas <i>P.</i> × <i>pelgrandis</i> emerged from <i>P. nicotianae</i> and <i>P. cactorum</i>. Considering that hybrids and parental species can coexist in the same regions and to distinguish them usually requires cloning or whole genome sequencing, we aimed to develop a rapid tool to distinguish them. Specifically, we used high-resolution melting (HRM) assays to differentiate genotypes based on their amplicon melting profiles. We designed primers for <i>P.</i> × <i>pelgrandis</i> and parental species based on available sequences of <i>P. nicotianae</i> and <i>P. cactorum</i> nuclear genes containing polymorphisms between species. For <i>P. andina</i>, heterozygous sites from Illumina short reads were used for the same purpose. We identified multiple amplicons exhibiting differences in melting curves between parental species and hybrids. We propose HRM as a rapid method for differentiation of <i>P. andina</i> and <i>P.</i> × <i>pelgrandis</i> hybrids from parental species that could be employed to advance research on these pathogens.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" IndexingMethod="Curated" Owner="NLM"><PMID Version="1">31355734</PMID><DateCompleted><Year>2019</Year><Month>09</Month><Day>24</Day></DateCompleted><DateRevised><Year>2020</Year><Month>03</Month><Day>11</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Print">0191-2917</ISSN><JournalIssue CitedMedium="Print"><Volume>103</Volume><Issue>9</Issue><PubDate><Year>2019</Year><Month>Sep</Month></PubDate></JournalIssue><Title>Plant disease</Title><ISOAbbreviation>Plant Dis</ISOAbbreviation></Journal><ArticleTitle>Evaluation of High-Resolution Melting for Rapid Differentiation of <i>Phytophthora</i> Hybrids and Their Parental Species.</ArticleTitle><Pagination><MedlinePgn>2295-2304</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1094/PDIS-12-18-2291-RE</ELocationID><Abstract><AbstractText><i>Phytophthora</i> species hybrids have been repeatedly reported as causing damaging diseases to cultivated and wild plants. Two known hybrids, <i>P. andina</i> and <i>P.</i> × <i>pelgrandis</i>, are pathogens of Solanaceae and ornamentals, respectively, although the extent of their host ranges are unknown. <i>P. andina</i> emerged from hybridization of <i>P. infestans</i> and an unidentified related species, whereas <i>P.</i> × <i>pelgrandis</i> emerged from <i>P. nicotianae</i> and <i>P. cactorum</i>. Considering that hybrids and parental species can coexist in the same regions and to distinguish them usually requires cloning or whole genome sequencing, we aimed to develop a rapid tool to distinguish them. Specifically, we used high-resolution melting (HRM) assays to differentiate genotypes based on their amplicon melting profiles. We designed primers for <i>P.</i> × <i>pelgrandis</i> and parental species based on available sequences of <i>P. nicotianae</i> and <i>P. cactorum</i> nuclear genes containing polymorphisms between species. For <i>P. andina</i>, heterozygous sites from Illumina short reads were used for the same purpose. We identified multiple amplicons exhibiting differences in melting curves between parental species and hybrids. We propose HRM as a rapid method for differentiation of <i>P. andina</i> and <i>P.</i> × <i>pelgrandis</i> hybrids from parental species that could be employed to advance research on these pathogens.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Ratti</LastName><ForeName>Maria F</ForeName><Initials>MF</Initials><Identifier Source="ORCID">http://orcid.org/0000-0003-3725-8921</Identifier><AffiliationInfo><Affiliation>Department of Plant Pathology and Emerging Pathogens Institute, University of Florida, Gainesville, FL 32611 U.S.A.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Facultad de Ciencias de la Vida, Escuela Superior Politécnica del Litoral, Campus Gustavo Galindo, Km 30.5 Vía Perimetral. P.O. Box 09-01-5863, Guayaquil, Ecuador.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Farrer</LastName><ForeName>Rhys A</ForeName><Initials>RA</Initials><AffiliationInfo><Affiliation>The Sainsbury Laboratory, Norwich Research Park, Norwich NR4 7UH, United Kingdom.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Cano</LastName><ForeName>Liliana M</ForeName><Initials>LM</Initials><AffiliationInfo><Affiliation>The Sainsbury Laboratory, Norwich Research Park, Norwich NR4 7UH, United Kingdom.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Faedda</LastName><ForeName>Roberto</ForeName><Initials>R</Initials><AffiliationInfo><Affiliation>Department of Agriculture, Food and Environment, University of Catania, Catania, Italy.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Goss</LastName><ForeName>Erica M</ForeName><Initials>EM</Initials><AffiliationInfo><Affiliation>Department of Plant Pathology and Emerging Pathogens Institute, University of Florida, Gainesville, FL 32611 U.S.A.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><GrantList CompleteYN="Y"><Grant><GrantID>MR/N006364/1</GrantID><Acronym>MRC_</Acronym><Agency>Medical Research Council</Agency><Country>United Kingdom</Country></Grant></GrantList><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2019</Year><Month>07</Month><Day>29</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="D017931">DNA Primers</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D017931" MajorTopicYN="N">DNA Primers</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D006824" MajorTopicYN="Y">Hybridization, Genetic</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D058889" MajorTopicYN="Y">Molecular Typing</DescriptorName><QualifierName UI="Q000379" MajorTopicYN="N">methods</QualifierName><QualifierName UI="Q000592" MajorTopicYN="N">standards</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D010838" MajorTopicYN="Y">Phytophthora</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D019657" MajorTopicYN="N">Solanaceae</DescriptorName><QualifierName UI="Q000469" MajorTopicYN="N">parasitology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D044366" MajorTopicYN="N">Transition Temperature</DescriptorName></MeshHeading></MeshHeadingList><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N"></Keyword><Keyword MajorTopicYN="N">HRM analysis</Keyword><Keyword MajorTopicYN="N">heterozygosity</Keyword><Keyword MajorTopicYN="N">× </Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="pubmed"><Year>2019</Year><Month>7</Month><Day>30</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2019</Year><Month>9</Month><Day>26</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2019</Year><Month>7</Month><Day>30</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">31355734</ArticleId><ArticleId IdType="doi">10.1094/PDIS-12-18-2291-RE</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>Italie</li><li>Royaume-Uni</li><li>Équateur</li><li>États-Unis</li></country><region><li>Floride</li></region></list><tree><country name="États-Unis"><region name="Floride"><name sortKey="Ratti, Maria F" sort="Ratti, Maria F" uniqKey="Ratti M" first="Maria F" last="Ratti">Maria F. Ratti</name></region><name sortKey="Goss, Erica M" sort="Goss, Erica M" uniqKey="Goss E" first="Erica M" last="Goss">Erica M. Goss</name></country><country name="Équateur"><noRegion><name sortKey="Ratti, Maria F" sort="Ratti, Maria F" uniqKey="Ratti M" first="Maria F" last="Ratti">Maria F. Ratti</name></noRegion></country><country name="Royaume-Uni"><noRegion><name sortKey="Farrer, Rhys A" sort="Farrer, Rhys A" uniqKey="Farrer R" first="Rhys A" last="Farrer">Rhys A. Farrer</name></noRegion><name sortKey="Cano, Liliana M" sort="Cano, Liliana M" uniqKey="Cano L" first="Liliana M" last="Cano">Liliana M. Cano</name></country><country name="Italie"><noRegion><name sortKey="Faedda, Roberto" sort="Faedda, Roberto" uniqKey="Faedda R" first="Roberto" last="Faedda">Roberto Faedda</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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