Impact of soil pedogenesis on the diversity and composition of fungal communities across the California soil chronosequence of Mendocino.
Identifieur interne : 000925 ( Main/Exploration ); précédent : 000924; suivant : 000926Impact of soil pedogenesis on the diversity and composition of fungal communities across the California soil chronosequence of Mendocino.
Auteurs : P E Courty [France] ; M. Buée [France] ; J J T. Tech [États-Unis] ; D. Brulé [France] ; Y. Colin [France] ; J H J. Leveau [États-Unis] ; S. Uroz [France]Source :
- Mycorrhiza [ 1432-1890 ] ; 2018.
Descripteurs français
- KwdFr :
- MESH :
- analyse : ADN fongique.
- isolement et purification : Mycorhizes.
- classification : Analyse de séquence d'ADN, Californie, Champignons, Microbiologie du sol, Microbiote, Mycorhizes, Sol.
English descriptors
- KwdEn :
- MESH :
- chemical , analysis : DNA, Fungal.
- classification : Fungi, Mycorrhizae, Soil.
- isolation & purification : Mycorrhizae.
- California, Microbiota, Sequence Analysis, DNA, Soil Microbiology.
Abstract
Understanding how soil pedogenesis affects microbial communities and their in situ activities according to ecosystem functioning is a central issue in soil microbial ecology, as soils represent essential nutrient reservoirs and habitats for the biosphere. To address this question, soil chronosequences developed from a single, shared mineralogical parent material and having the same climate conditions are particularly useful, as they isolate the factor of time from other factors controlling the character of soils. In our study, we considered a natural succession of uplifted marine terraces in Mendocino, CA, ranging from highly fertile in the younger terrace (about 100,000 years old) to infertile in the older terraces (about 300,000 years old). Using ITS amplicon pyrosequencing, we analysed and compared the diversity and composition of the soil fungal communities across the first terraces (T1 to T3), with a specific focus in the forested terraces (T2 and T3) on soil samples collected below trees of the same species (Pinus muricata) and of the same age. While diversity and richness indices were highest in the grassland (youngest) terrace (T1), they were higher in the older forested terrace (T3) compared to the younger forested terrace (T2). Interestingly, the most abundant ectomycorrhizal (ECM) taxa that we found within these fungal communities showed high homology with ITS Sanger sequences obtained previously directly from ECM root tips from trees in the same study site, revealing a relative conservation of ECM diversity over time. Altogether, our results provide new information about the diversity and composition of the fungal communities as well as on the dominant ECM species in the soil chronosequence of Mendocino in relation to soil age and ecosystem development.
DOI: 10.1007/s00572-018-0829-9
PubMed: 29574496
Affiliations:
- France, États-Unis
- Bourgogne, Bourgogne-Franche-Comté, Grand Est, Lorraine (région)
- Champenoux, Dijon
Links toward previous steps (curation, corpus...)
Le document en format XML
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Bourgogne Franche-Comté, 21000, Dijon, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>Agroécologie, AgroSup Dijon, CNRS, INRA, Univ. Bourgogne Franche-Comté, 21000, Dijon</wicri:regionArea><placeName><region type="region" nuts="2">Bourgogne-Franche-Comté</region><region type="old region" nuts="2">Bourgogne</region><settlement type="city">Dijon</settlement></placeName></affiliation></author><author><name sortKey="Buee, M" sort="Buee, M" uniqKey="Buee M" first="M" last="Buée">M. 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Tech</name><affiliation wicri:level="1"><nlm:affiliation>Department of Plant Pathology, University of California, One Shields Avenue, Davis, CA, 95616, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Plant Pathology, University of California, One Shields Avenue, Davis, CA, 95616</wicri:regionArea><wicri:noRegion>95616</wicri:noRegion></affiliation></author><author><name sortKey="Brule, D" sort="Brule, D" uniqKey="Brule D" first="D" last="Brulé">D. Brulé</name><affiliation wicri:level="3"><nlm:affiliation>Agroécologie, AgroSup Dijon, CNRS, INRA, Univ. Bourgogne Franche-Comté, 21000, Dijon, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>Agroécologie, AgroSup Dijon, CNRS, INRA, Univ. Bourgogne Franche-Comté, 21000, Dijon</wicri:regionArea><placeName><region type="region" nuts="2">Bourgogne-Franche-Comté</region><region type="old region" nuts="2">Bourgogne</region><settlement type="city">Dijon</settlement></placeName></affiliation></author><author><name sortKey="Colin, Y" sort="Colin, Y" uniqKey="Colin Y" first="Y" last="Colin">Y. Colin</name><affiliation wicri:level="3"><nlm:affiliation>INRA, UMR 1136 INRA, Université de Lorraine "Interactions Arbres Micro-organismes", Centre INRA de Nancy, 54280, Champenoux, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>INRA, UMR 1136 INRA, Université de Lorraine "Interactions Arbres Micro-organismes", Centre INRA de Nancy, 54280, Champenoux</wicri:regionArea><placeName><region type="region" nuts="2">Grand Est</region><region type="old region" nuts="2">Lorraine (région)</region><settlement type="city">Champenoux</settlement></placeName></affiliation><affiliation wicri:level="3"><nlm:affiliation>INRA UR 1138 "Biogéochimie des Ecosystèmes Forestiers", Centre INRA de Nancy, 54280, Champenoux, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>INRA UR 1138 "Biogéochimie des Ecosystèmes Forestiers", Centre INRA de Nancy, 54280, Champenoux</wicri:regionArea><placeName><region type="region" nuts="2">Grand Est</region><region type="old region" nuts="2">Lorraine (région)</region><settlement type="city">Champenoux</settlement></placeName></affiliation></author><author><name sortKey="Leveau, J H J" sort="Leveau, J H J" uniqKey="Leveau J" first="J H J" last="Leveau">J H J. Leveau</name><affiliation wicri:level="1"><nlm:affiliation>Department of Plant Pathology, University of California, One Shields Avenue, Davis, CA, 95616, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Plant Pathology, University of California, One Shields Avenue, Davis, CA, 95616</wicri:regionArea><wicri:noRegion>95616</wicri:noRegion></affiliation></author><author><name sortKey="Uroz, S" sort="Uroz, S" uniqKey="Uroz S" first="S" last="Uroz">S. Uroz</name><affiliation wicri:level="3"><nlm:affiliation>INRA, UMR 1136 INRA, Université de Lorraine "Interactions Arbres Micro-organismes", Centre INRA de Nancy, 54280, Champenoux, France. stephane.uroz@inra.fr.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>INRA, UMR 1136 INRA, Université de Lorraine "Interactions Arbres Micro-organismes", Centre INRA de Nancy, 54280, Champenoux</wicri:regionArea><placeName><region type="region" nuts="2">Grand Est</region><region type="old region" nuts="2">Lorraine (région)</region><settlement type="city">Champenoux</settlement></placeName></affiliation><affiliation wicri:level="3"><nlm:affiliation>INRA UR 1138 "Biogéochimie des Ecosystèmes Forestiers", Centre INRA de Nancy, 54280, Champenoux, France. stephane.uroz@inra.fr.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>INRA UR 1138 "Biogéochimie des Ecosystèmes Forestiers", Centre INRA de Nancy, 54280, Champenoux</wicri:regionArea><placeName><region type="region" nuts="2">Grand Est</region><region type="old region" nuts="2">Lorraine (région)</region><settlement type="city">Champenoux</settlement></placeName></affiliation></author></analytic><series><title level="j">Mycorrhiza</title><idno type="eISSN">1432-1890</idno><imprint><date when="2018" type="published">2018</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>California (MeSH)</term><term>DNA, Fungal (analysis)</term><term>Fungi (classification)</term><term>Microbiota (MeSH)</term><term>Mycorrhizae (classification)</term><term>Mycorrhizae (isolation & purification)</term><term>Sequence Analysis, DNA (MeSH)</term><term>Soil (classification)</term><term>Soil Microbiology (MeSH)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ADN fongique (analyse)</term><term>Analyse de séquence d'ADN (MeSH)</term><term>Californie (MeSH)</term><term>Champignons (classification)</term><term>Microbiologie du sol (MeSH)</term><term>Microbiote (MeSH)</term><term>Mycorhizes (classification)</term><term>Mycorhizes (isolement et purification)</term><term>Sol (classification)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="analysis" xml:lang="en"><term>DNA, Fungal</term></keywords><keywords scheme="MESH" qualifier="analyse" xml:lang="fr"><term>ADN fongique</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Fungi</term><term>Mycorrhizae</term><term>Soil</term></keywords><keywords scheme="MESH" qualifier="isolation & purification" xml:lang="en"><term>Mycorrhizae</term></keywords><keywords scheme="MESH" qualifier="isolement et purification" xml:lang="fr"><term>Mycorhizes</term></keywords><keywords scheme="MESH" xml:lang="en"><term>California</term><term>Microbiota</term><term>Sequence Analysis, DNA</term><term>Soil Microbiology</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="fr"><term>Analyse de séquence d'ADN</term><term>Californie</term><term>Champignons</term><term>Microbiologie du sol</term><term>Microbiote</term><term>Mycorhizes</term><term>Sol</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Understanding how soil pedogenesis affects microbial communities and their in situ activities according to ecosystem functioning is a central issue in soil microbial ecology, as soils represent essential nutrient reservoirs and habitats for the biosphere. To address this question, soil chronosequences developed from a single, shared mineralogical parent material and having the same climate conditions are particularly useful, as they isolate the factor of time from other factors controlling the character of soils. In our study, we considered a natural succession of uplifted marine terraces in Mendocino, CA, ranging from highly fertile in the younger terrace (about 100,000 years old) to infertile in the older terraces (about 300,000 years old). Using ITS amplicon pyrosequencing, we analysed and compared the diversity and composition of the soil fungal communities across the first terraces (T1 to T3), with a specific focus in the forested terraces (T2 and T3) on soil samples collected below trees of the same species (Pinus muricata) and of the same age. While diversity and richness indices were highest in the grassland (youngest) terrace (T1), they were higher in the older forested terrace (T3) compared to the younger forested terrace (T2). Interestingly, the most abundant ectomycorrhizal (ECM) taxa that we found within these fungal communities showed high homology with ITS Sanger sequences obtained previously directly from ECM root tips from trees in the same study site, revealing a relative conservation of ECM diversity over time. Altogether, our results provide new information about the diversity and composition of the fungal communities as well as on the dominant ECM species in the soil chronosequence of Mendocino in relation to soil age and ecosystem development.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">29574496</PMID><DateCompleted><Year>2018</Year><Month>09</Month><Day>07</Day></DateCompleted><DateRevised><Year>2018</Year><Month>09</Month><Day>07</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1432-1890</ISSN><JournalIssue CitedMedium="Internet"><Volume>28</Volume><Issue>4</Issue><PubDate><Year>2018</Year><Month>May</Month></PubDate></JournalIssue><Title>Mycorrhiza</Title><ISOAbbreviation>Mycorrhiza</ISOAbbreviation></Journal><ArticleTitle>Impact of soil pedogenesis on the diversity and composition of fungal communities across the California soil chronosequence of Mendocino.</ArticleTitle><Pagination><MedlinePgn>343-356</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1007/s00572-018-0829-9</ELocationID><Abstract><AbstractText>Understanding how soil pedogenesis affects microbial communities and their in situ activities according to ecosystem functioning is a central issue in soil microbial ecology, as soils represent essential nutrient reservoirs and habitats for the biosphere. To address this question, soil chronosequences developed from a single, shared mineralogical parent material and having the same climate conditions are particularly useful, as they isolate the factor of time from other factors controlling the character of soils. In our study, we considered a natural succession of uplifted marine terraces in Mendocino, CA, ranging from highly fertile in the younger terrace (about 100,000 years old) to infertile in the older terraces (about 300,000 years old). Using ITS amplicon pyrosequencing, we analysed and compared the diversity and composition of the soil fungal communities across the first terraces (T1 to T3), with a specific focus in the forested terraces (T2 and T3) on soil samples collected below trees of the same species (Pinus muricata) and of the same age. While diversity and richness indices were highest in the grassland (youngest) terrace (T1), they were higher in the older forested terrace (T3) compared to the younger forested terrace (T2). Interestingly, the most abundant ectomycorrhizal (ECM) taxa that we found within these fungal communities showed high homology with ITS Sanger sequences obtained previously directly from ECM root tips from trees in the same study site, revealing a relative conservation of ECM diversity over time. Altogether, our results provide new information about the diversity and composition of the fungal communities as well as on the dominant ECM species in the soil chronosequence of Mendocino in relation to soil age and ecosystem development.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Courty</LastName><ForeName>P E</ForeName><Initials>PE</Initials><AffiliationInfo><Affiliation>Agroécologie, AgroSup Dijon, CNRS, INRA, Univ. Bourgogne Franche-Comté, 21000, Dijon, France.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Buée</LastName><ForeName>M</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>INRA, UMR 1136 INRA, Université de Lorraine "Interactions Arbres Micro-organismes", Centre INRA de Nancy, 54280, Champenoux, France.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Tech</LastName><ForeName>J J T</ForeName><Initials>JJT</Initials><AffiliationInfo><Affiliation>Department of Plant Pathology, University of California, One Shields Avenue, Davis, CA, 95616, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Brulé</LastName><ForeName>D</ForeName><Initials>D</Initials><AffiliationInfo><Affiliation>Agroécologie, AgroSup Dijon, CNRS, INRA, Univ. Bourgogne Franche-Comté, 21000, Dijon, France.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Colin</LastName><ForeName>Y</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>INRA, UMR 1136 INRA, Université de Lorraine "Interactions Arbres Micro-organismes", Centre INRA de Nancy, 54280, Champenoux, France.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>INRA UR 1138 "Biogéochimie des Ecosystèmes Forestiers", Centre INRA de Nancy, 54280, Champenoux, France.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Leveau</LastName><ForeName>J H J</ForeName><Initials>JHJ</Initials><AffiliationInfo><Affiliation>Department of Plant Pathology, University of California, One Shields Avenue, Davis, CA, 95616, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Uroz</LastName><ForeName>S</ForeName><Initials>S</Initials><Identifier Source="ORCID">http://orcid.org/0000-0001-9412-7210</Identifier><AffiliationInfo><Affiliation>INRA, UMR 1136 INRA, Université de Lorraine "Interactions Arbres Micro-organismes", Centre INRA de Nancy, 54280, Champenoux, France. stephane.uroz@inra.fr.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>INRA UR 1138 "Biogéochimie des Ecosystèmes Forestiers", Centre INRA de Nancy, 54280, Champenoux, France. stephane.uroz@inra.fr.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2018</Year><Month>03</Month><Day>25</Day></ArticleDate></Article><MedlineJournalInfo><Country>Germany</Country><MedlineTA>Mycorrhiza</MedlineTA><NlmUniqueID>100955036</NlmUniqueID><ISSNLinking>0940-6360</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D004271">DNA, Fungal</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D012987">Soil</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D002140" MajorTopicYN="N">California</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D004271" MajorTopicYN="N">DNA, Fungal</DescriptorName><QualifierName UI="Q000032" MajorTopicYN="N">analysis</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D005658" MajorTopicYN="N">Fungi</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="Y">classification</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D064307" MajorTopicYN="Y">Microbiota</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D038821" MajorTopicYN="N">Mycorrhizae</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName><QualifierName UI="Q000302" MajorTopicYN="N">isolation & purification</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D017422" MajorTopicYN="N">Sequence Analysis, DNA</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D012987" MajorTopicYN="N">Soil</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="Y">classification</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D012988" MajorTopicYN="Y">Soil Microbiology</DescriptorName></MeshHeading></MeshHeadingList><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Ectomycorrhizal fungi</Keyword><Keyword MajorTopicYN="N">Fungi</Keyword><Keyword MajorTopicYN="N">ITS-based pyrosequencing</Keyword><Keyword MajorTopicYN="N">Soil chronosequence</Keyword><Keyword MajorTopicYN="N">Soil horizons</Keyword><Keyword MajorTopicYN="N">Soil nutrients</Keyword><Keyword MajorTopicYN="N">pH</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2017</Year><Month>11</Month><Day>06</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2018</Year><Month>02</Month><Day>27</Day></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2018</Year><Month>3</Month><Day>27</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2018</Year><Month>9</Month><Day>8</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2018</Year><Month>3</Month><Day>26</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">29574496</ArticleId><ArticleId IdType="doi">10.1007/s00572-018-0829-9</ArticleId><ArticleId IdType="pii">10.1007/s00572-018-0829-9</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>France</li><li>États-Unis</li></country><region><li>Bourgogne</li><li>Bourgogne-Franche-Comté</li><li>Grand Est</li><li>Lorraine (région)</li></region><settlement><li>Champenoux</li><li>Dijon</li></settlement></list><tree><country name="France"><region name="Bourgogne-Franche-Comté"><name sortKey="Courty, P E" sort="Courty, P E" uniqKey="Courty P" first="P E" last="Courty">P E Courty</name></region><name sortKey="Brule, D" sort="Brule, D" uniqKey="Brule D" first="D" last="Brulé">D. Brulé</name><name sortKey="Buee, M" sort="Buee, M" uniqKey="Buee M" first="M" last="Buée">M. Buée</name><name sortKey="Colin, Y" sort="Colin, Y" uniqKey="Colin Y" first="Y" last="Colin">Y. Colin</name><name sortKey="Colin, Y" sort="Colin, Y" uniqKey="Colin Y" first="Y" last="Colin">Y. Colin</name><name sortKey="Uroz, S" sort="Uroz, S" uniqKey="Uroz S" first="S" last="Uroz">S. Uroz</name><name sortKey="Uroz, S" sort="Uroz, S" uniqKey="Uroz S" first="S" last="Uroz">S. Uroz</name></country><country name="États-Unis"><noRegion><name sortKey="Tech, J J T" sort="Tech, J J T" uniqKey="Tech J" first="J J T" last="Tech">J J T. Tech</name></noRegion><name sortKey="Leveau, J H J" sort="Leveau, J H J" uniqKey="Leveau J" first="J H J" last="Leveau">J H J. Leveau</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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