Surprising low diversity of the plant pathogen Phytophthora in Amazonian forests.
Identifieur interne : 000044 ( Main/Exploration ); précédent : 000043; suivant : 000045Surprising low diversity of the plant pathogen Phytophthora in Amazonian forests.
Auteurs : Jean Legeay [France] ; Claude Husson [France] ; Benjamin Boudier [France] ; Eliane Louisanna [France] ; Christopher Baraloto [France, États-Unis] ; Heidy Schimann [France] ; Benoît Marcais [France] ; Marc Buée [France]Source :
- Environmental microbiology [ 1462-2920 ] ; 2020.
Abstract
The genus Phytophthora represents a group of plant pathogens with broad global distribution. The majority of them cause the collar and root-rot of diverse plant species. Little is known about Phytophthora communities in forest ecosystems, especially in the Neotropical forests where natural enemies could maintain the huge plant diversity via negative density dependence. We characterized the diversity of soil-borne Phytophthora communities in the North French Guiana rainforest and investigated how they are structured by host identity and environmental factors. In this little-explored habitat, 250 soil cores were sampled from 10 plots hosting 10 different plant families across three forest environments (Terra Firme, Seasonally Flooded and White Sand). Phytophthora diversity was studied using a baiting approach and metabarcoding (High-Throughput Sequencing) on environmental DNA extracted from both soil samples and baiting-leaves. These three approaches revealed very similar communities, characterized by an unexpected low diversity of Phytophthora species, with the dominance of two cryptic species close to Phytophthora heveae. As expected, the Phytophthora community composition of the French Guiana rainforest was significantly impacted by the host plant family and environment. However, these plant pathogen communities are very small and are dominated by generalist species, questioning their potential roles as drivers of plant diversity in these Amazonian forests.
DOI: 10.1111/1462-2920.15099
PubMed: 32452108
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Interactions Arbres-Microorganismes, Nancy, F-54000, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>Université de Lorraine, INRAE, UMR IAM - Interactions Arbres-Microorganismes, Nancy, F-54000</wicri:regionArea><placeName><region type="region" nuts="2">Grand Est</region><region type="old region" nuts="2">Lorraine (région)</region></placeName><orgName type="university">Université de Lorraine</orgName></affiliation></author><author><name sortKey="Husson, Claude" sort="Husson, Claude" uniqKey="Husson C" first="Claude" last="Husson">Claude Husson</name><affiliation wicri:level="4"><nlm:affiliation>Université de Lorraine, INRAE, UMR IAM - Interactions Arbres-Microorganismes, Nancy, F-54000, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>Université de Lorraine, INRAE, UMR IAM - Interactions Arbres-Microorganismes, Nancy, F-54000</wicri:regionArea><placeName><region type="region" nuts="2">Grand Est</region><region type="old region" nuts="2">Lorraine (région)</region></placeName><orgName type="university">Université de Lorraine</orgName></affiliation><affiliation wicri:level="3"><nlm:affiliation>Département de la santé des forêts, Ministère de l'agriculture et de l'alimentation, DGAL, SDQPV, Paris, 75015, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>Département de la santé des forêts, Ministère de l'agriculture et de l'alimentation, DGAL, SDQPV, Paris, 75015</wicri:regionArea><placeName><region type="region" nuts="2">Île-de-France</region></placeName></affiliation></author><author><name sortKey="Boudier, Benjamin" sort="Boudier, Benjamin" uniqKey="Boudier B" first="Benjamin" last="Boudier">Benjamin Boudier</name><affiliation wicri:level="4"><nlm:affiliation>Université de Lorraine, INRAE, UMR IAM - Interactions Arbres-Microorganismes, Nancy, F-54000, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>Université de Lorraine, INRAE, UMR IAM - Interactions Arbres-Microorganismes, Nancy, F-54000</wicri:regionArea><placeName><region type="region" nuts="2">Grand Est</region><region type="old region" nuts="2">Lorraine (région)</region></placeName><orgName type="university">Université de Lorraine</orgName></affiliation></author><author><name sortKey="Louisanna, Eliane" sort="Louisanna, Eliane" uniqKey="Louisanna E" first="Eliane" last="Louisanna">Eliane Louisanna</name><affiliation wicri:level="3"><nlm:affiliation>INRAE, UMR EcoFoG - Ecology of Guiana Forests - (AgroParisTech, CNRS, CIRAD, Université des Antilles, Université de Guyane), Kourou, 97310, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>INRAE, UMR EcoFoG - Ecology of Guiana Forests - (AgroParisTech, CNRS, CIRAD, Université des Antilles, Université de Guyane), Kourou, 97310</wicri:regionArea><placeName><region type="region" nuts="2">Guyane</region></placeName></affiliation></author><author><name sortKey="Baraloto, Christopher" sort="Baraloto, Christopher" uniqKey="Baraloto C" first="Christopher" last="Baraloto">Christopher Baraloto</name><affiliation wicri:level="3"><nlm:affiliation>INRAE, UMR EcoFoG - Ecology of Guiana Forests - (AgroParisTech, CNRS, CIRAD, Université des Antilles, Université de Guyane), Kourou, 97310, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>INRAE, UMR EcoFoG - Ecology of Guiana Forests - (AgroParisTech, CNRS, CIRAD, Université des Antilles, Université de Guyane), Kourou, 97310</wicri:regionArea><placeName><region type="region" nuts="2">Guyane</region></placeName></affiliation><affiliation wicri:level="1"><nlm:affiliation>International Center for Tropical Botany, Department of Biological Sciences, Florida International University, Miami, FL, 33199, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>International Center for Tropical Botany, Department of Biological Sciences, Florida International University, Miami, FL, 33199</wicri:regionArea><wicri:noRegion>33199</wicri:noRegion></affiliation></author><author><name sortKey="Schimann, Heidy" sort="Schimann, Heidy" uniqKey="Schimann H" first="Heidy" last="Schimann">Heidy Schimann</name><affiliation wicri:level="3"><nlm:affiliation>INRAE, UMR EcoFoG - Ecology of Guiana Forests - (AgroParisTech, CNRS, CIRAD, Université des Antilles, Université de Guyane), Kourou, 97310, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>INRAE, UMR EcoFoG - Ecology of Guiana Forests - (AgroParisTech, CNRS, CIRAD, Université des Antilles, Université de Guyane), Kourou, 97310</wicri:regionArea><placeName><region type="region" nuts="2">Guyane</region></placeName></affiliation></author><author><name sortKey="Marcais, Benoit" sort="Marcais, Benoit" uniqKey="Marcais B" first="Benoît" last="Marcais">Benoît Marcais</name><affiliation wicri:level="4"><nlm:affiliation>Université de Lorraine, INRAE, UMR IAM - Interactions Arbres-Microorganismes, Nancy, F-54000, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>Université de Lorraine, INRAE, UMR IAM - Interactions Arbres-Microorganismes, Nancy, F-54000</wicri:regionArea><placeName><region type="region" nuts="2">Grand Est</region><region type="old region" nuts="2">Lorraine (région)</region></placeName><orgName type="university">Université de Lorraine</orgName></affiliation></author><author><name sortKey="Buee, Marc" sort="Buee, Marc" uniqKey="Buee M" first="Marc" last="Buée">Marc Buée</name><affiliation wicri:level="4"><nlm:affiliation>Université de Lorraine, INRAE, UMR IAM - Interactions Arbres-Microorganismes, Nancy, F-54000, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>Université de Lorraine, INRAE, UMR IAM - Interactions Arbres-Microorganismes, Nancy, F-54000</wicri:regionArea><placeName><region type="region" nuts="2">Grand Est</region><region type="old region" nuts="2">Lorraine (région)</region></placeName><orgName type="university">Université de Lorraine</orgName></affiliation></author></analytic><series><title level="j">Environmental microbiology</title><idno type="eISSN">1462-2920</idno><imprint><date when="2020" type="published">2020</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">The genus Phytophthora represents a group of plant pathogens with broad global distribution. The majority of them cause the collar and root-rot of diverse plant species. Little is known about Phytophthora communities in forest ecosystems, especially in the Neotropical forests where natural enemies could maintain the huge plant diversity via negative density dependence. We characterized the diversity of soil-borne Phytophthora communities in the North French Guiana rainforest and investigated how they are structured by host identity and environmental factors. In this little-explored habitat, 250 soil cores were sampled from 10 plots hosting 10 different plant families across three forest environments (Terra Firme, Seasonally Flooded and White Sand). Phytophthora diversity was studied using a baiting approach and metabarcoding (High-Throughput Sequencing) on environmental DNA extracted from both soil samples and baiting-leaves. These three approaches revealed very similar communities, characterized by an unexpected low diversity of Phytophthora species, with the dominance of two cryptic species close to Phytophthora heveae. As expected, the Phytophthora community composition of the French Guiana rainforest was significantly impacted by the host plant family and environment. However, these plant pathogen communities are very small and are dominated by generalist species, questioning their potential roles as drivers of plant diversity in these Amazonian forests.</div></front></TEI><pubmed><MedlineCitation Status="Publisher" Owner="NLM"><PMID Version="1">32452108</PMID><DateRevised><Year>2020</Year><Month>07</Month><Day>13</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1462-2920</ISSN><JournalIssue CitedMedium="Internet"><PubDate><Year>2020</Year><Month>May</Month><Day>25</Day></PubDate></JournalIssue><Title>Environmental microbiology</Title><ISOAbbreviation>Environ Microbiol</ISOAbbreviation></Journal><ArticleTitle>Surprising low diversity of the plant pathogen Phytophthora in Amazonian forests.</ArticleTitle><ELocationID EIdType="doi" ValidYN="Y">10.1111/1462-2920.15099</ELocationID><Abstract><AbstractText>The genus Phytophthora represents a group of plant pathogens with broad global distribution. The majority of them cause the collar and root-rot of diverse plant species. Little is known about Phytophthora communities in forest ecosystems, especially in the Neotropical forests where natural enemies could maintain the huge plant diversity via negative density dependence. We characterized the diversity of soil-borne Phytophthora communities in the North French Guiana rainforest and investigated how they are structured by host identity and environmental factors. In this little-explored habitat, 250 soil cores were sampled from 10 plots hosting 10 different plant families across three forest environments (Terra Firme, Seasonally Flooded and White Sand). Phytophthora diversity was studied using a baiting approach and metabarcoding (High-Throughput Sequencing) on environmental DNA extracted from both soil samples and baiting-leaves. These three approaches revealed very similar communities, characterized by an unexpected low diversity of Phytophthora species, with the dominance of two cryptic species close to Phytophthora heveae. As expected, the Phytophthora community composition of the French Guiana rainforest was significantly impacted by the host plant family and environment. However, these plant pathogen communities are very small and are dominated by generalist species, questioning their potential roles as drivers of plant diversity in these Amazonian forests.</AbstractText><CopyrightInformation>© 2020 Society for Applied Microbiology and John Wiley & Sons Ltd.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Legeay</LastName><ForeName>Jean</ForeName><Initials>J</Initials><AffiliationInfo><Affiliation>Université de Lorraine, INRAE, UMR IAM - Interactions Arbres-Microorganismes, Nancy, F-54000, France.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Husson</LastName><ForeName>Claude</ForeName><Initials>C</Initials><AffiliationInfo><Affiliation>Université de Lorraine, INRAE, UMR IAM - Interactions Arbres-Microorganismes, Nancy, F-54000, France.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Département de la santé des forêts, Ministère de l'agriculture et de l'alimentation, DGAL, SDQPV, Paris, 75015, France.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Boudier</LastName><ForeName>Benjamin</ForeName><Initials>B</Initials><AffiliationInfo><Affiliation>Université de Lorraine, INRAE, UMR IAM - Interactions Arbres-Microorganismes, Nancy, F-54000, France.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Louisanna</LastName><ForeName>Eliane</ForeName><Initials>E</Initials><AffiliationInfo><Affiliation>INRAE, UMR EcoFoG - Ecology of Guiana Forests - (AgroParisTech, CNRS, CIRAD, Université des Antilles, Université de Guyane), Kourou, 97310, France.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Baraloto</LastName><ForeName>Christopher</ForeName><Initials>C</Initials><AffiliationInfo><Affiliation>INRAE, UMR EcoFoG - Ecology of Guiana Forests - (AgroParisTech, CNRS, CIRAD, Université des Antilles, Université de Guyane), Kourou, 97310, France.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>International Center for Tropical Botany, Department of Biological Sciences, Florida International University, Miami, FL, 33199, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Schimann</LastName><ForeName>Heidy</ForeName><Initials>H</Initials><AffiliationInfo><Affiliation>INRAE, UMR EcoFoG - Ecology of Guiana Forests - (AgroParisTech, CNRS, CIRAD, Université des Antilles, Université de Guyane), Kourou, 97310, France.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Marcais</LastName><ForeName>Benoît</ForeName><Initials>B</Initials><AffiliationInfo><Affiliation>Université de Lorraine, INRAE, UMR IAM - Interactions Arbres-Microorganismes, Nancy, F-54000, France.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Buée</LastName><ForeName>Marc</ForeName><Initials>M</Initials><Identifier Source="ORCID">https://orcid.org/0000-0001-8614-3886</Identifier><AffiliationInfo><Affiliation>Université de Lorraine, INRAE, UMR IAM - Interactions Arbres-Microorganismes, Nancy, F-54000, France.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><GrantList CompleteYN="Y"><Grant><GrantID>ANR-10-LABX-25-01</GrantID><Agency>Investissements d'Avenir</Agency><Country></Country></Grant><Grant><GrantID>ANR-11-LABX-0002-01</GrantID><Agency>Investissements d'Avenir</Agency><Country></Country></Grant><Grant><Agency>French National Research Agency</Agency><Country></Country></Grant><Grant><Agency>Institut National de la Recherche Agronomique</Agency><Country></Country></Grant><Grant><GrantID>ANR-13-BSV7-0009</GrantID><Agency>Agence Nationale de la Recherche</Agency><Country></Country></Grant></GrantList><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2020</Year><Month>05</Month><Day>25</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Environ Microbiol</MedlineTA><NlmUniqueID>100883692</NlmUniqueID><ISSNLinking>1462-2912</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2020</Year><Month>01</Month><Day>27</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2020</Year><Month>05</Month><Day>23</Day></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2020</Year><Month>5</Month><Day>27</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2020</Year><Month>5</Month><Day>27</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2020</Year><Month>5</Month><Day>27</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>aheadofprint</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">32452108</ArticleId><ArticleId IdType="doi">10.1111/1462-2920.15099</ArticleId></ArticleIdList><ReferenceList><Title>References</Title><Reference><Citation>Alexander, H.M. 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