Impact of poplar-based phytomanagement on soil properties and microbial communities in a metal-contaminated site.
Identifieur interne : 001816 ( Main/Exploration ); précédent : 001815; suivant : 001817Impact of poplar-based phytomanagement on soil properties and microbial communities in a metal-contaminated site.
Auteurs : Julie Foulon [France] ; Cyril Zappelini [France] ; Alexis Durand [France] ; Benoit Valot [France] ; Damien Blaudez [France] ; Michel Chalot [France]Source :
- FEMS microbiology ecology [ 1574-6941 ] ; 2016.
Descripteurs français
- KwdFr :
- Consortiums microbiens (MeSH), Dépollution biologique de l'environnement (MeSH), Environnement (MeSH), Microbiologie du sol (MeSH), Mycorhizes (MeSH), Métaux (analyse), Métaux (métabolisme), Polluants du sol (analyse), Polluants du sol (métabolisme), Populus (MeSH), Racines de plante (microbiologie), Sol (composition chimique), Séquençage nucléotidique à haut débit (MeSH), Écosystème (MeSH).
- MESH :
- analyse : Métaux, Polluants du sol.
- composition chimique : Sol.
- microbiologie : Racines de plante.
- métabolisme : Métaux, Polluants du sol.
- Consortiums microbiens, Dépollution biologique de l'environnement, Environnement, Microbiologie du sol, Mycorhizes, Populus, Séquençage nucléotidique à haut débit, Écosystème.
English descriptors
- KwdEn :
- Biodegradation, Environmental (MeSH), Ecosystem (MeSH), Environment (MeSH), High-Throughput Nucleotide Sequencing (MeSH), Metals (analysis), Metals (metabolism), Microbial Consortia (MeSH), Mycorrhizae (MeSH), Plant Roots (microbiology), Populus (MeSH), Soil (chemistry), Soil Microbiology (MeSH), Soil Pollutants (analysis), Soil Pollutants (metabolism).
- MESH :
- chemical , analysis : Metals, Soil Pollutants.
- chemical , chemistry : Soil.
- chemical , metabolism : Metals, Soil Pollutants.
- microbiology : Plant Roots.
- Biodegradation, Environmental, Ecosystem, Environment, High-Throughput Nucleotide Sequencing, Microbial Consortia, Mycorrhizae, Populus, Soil Microbiology.
Abstract
Despite a long history of use in phytomanagement strategies, the impacts of poplar trees on the structure and function of microbial communities that live in the soil remain largely unknown. The current study combined fungal and bacterial community analyses from different management regimes using Illumina-based sequencing with soil analysis. The poplar phytomanagement regimes led to a significant increase in soil fertility and a decreased bioavailability of Zn and Cd, in concert with changes in the microbial communities. The most notable changes in the relative abundance of taxa and operational taxonomic units unsurprisingly indicated that root and soil constitute distinct ecological microbial habitats, as exemplified by the dominance of Laccaria in root samples. The poplar cultivar was also an important driver, explaining 12% and 6% of the variance in the fungal and bacterial data sets, respectively. The overall dominance of saprophytic fungi, e.g. Penicillium canescens, might be related to the decomposition activities needed at the experimental site. Our data further highlighted that the mycorrhizal colonization of poplar cultivars varies greatly between the species and genotypes, which is exemplified by the dominance of Scleroderma under Vesten samples. Further interactions between fungal and bacterial functional groups stressed the potential of high-throughput sequencing technologies in uncovering the microbial ecology of disturbed environments.
DOI: 10.1093/femsec/fiw163
PubMed: 27481257
Affiliations:
- France
- Bourgogne-Franche-Comté, Franche-Comté, Grand Est, Lorraine (région)
- Montbéliard, Vandœuvre-lès-Nancy
- Université de Lorraine
Links toward previous steps (curation, corpus...)
Le document en format XML
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France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>CNRS, LIEC UMR7360, Faculté des Sciences et Technologies, BP70239, 54506 Vandoeuvre-lès-Nancy, France Université de Lorraine, LIEC UMR7360, Faculté des Sciences et Technologies, BP 70239, 54506 Vandoeuvre-lès-Nancy</wicri:regionArea><placeName><region type="region" nuts="2">Grand Est</region><region type="old region" nuts="2">Lorraine (région)</region><settlement type="city">Vandœuvre-lès-Nancy</settlement></placeName><orgName type="university">Université de Lorraine</orgName></affiliation></author><author><name sortKey="Chalot, Michel" sort="Chalot, Michel" uniqKey="Chalot M" first="Michel" last="Chalot">Michel Chalot</name><affiliation wicri:level="3"><nlm:affiliation>Laboratoire Chrono-Environnement, UMR 6249, Université de Bourgogne Franche-Comté, Pôle Universitaire du Pays de Montbéliard, 4 place Tharradin, BP 71427, 25211 Montbéliard, France Université de Lorraine, Faculté des Sciences et 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Tharradin, BP 71427, 25211 Montbéliard</wicri:regionArea><placeName><region type="region" nuts="2">Bourgogne-Franche-Comté</region><region type="old region" nuts="2">Franche-Comté</region><settlement type="city">Montbéliard</settlement></placeName></affiliation></author><author><name sortKey="Zappelini, Cyril" sort="Zappelini, Cyril" uniqKey="Zappelini C" first="Cyril" last="Zappelini">Cyril Zappelini</name><affiliation wicri:level="3"><nlm:affiliation>Laboratoire Chrono-Environnement, UMR 6249, Université de Bourgogne Franche-Comté, Pôle Universitaire du Pays de Montbéliard, 4 place Tharradin, BP 71427, 25211 Montbéliard, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>Laboratoire Chrono-Environnement, UMR 6249, Université de Bourgogne Franche-Comté, Pôle Universitaire du Pays de Montbéliard, 4 place Tharradin, BP 71427, 25211 Montbéliard</wicri:regionArea><placeName><region type="region" nuts="2">Bourgogne-Franche-Comté</region><region type="old 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sort="Valot, Benoit" uniqKey="Valot B" first="Benoit" last="Valot">Benoit Valot</name><affiliation wicri:level="3"><nlm:affiliation>Laboratoire Chrono-Environnement, UMR 6249, Université de Bourgogne Franche-Comté, Pôle Universitaire du Pays de Montbéliard, 4 place Tharradin, BP 71427, 25211 Montbéliard, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>Laboratoire Chrono-Environnement, UMR 6249, Université de Bourgogne Franche-Comté, Pôle Universitaire du Pays de Montbéliard, 4 place Tharradin, BP 71427, 25211 Montbéliard</wicri:regionArea><placeName><region type="region" nuts="2">Bourgogne-Franche-Comté</region><region type="old region" nuts="2">Franche-Comté</region><settlement type="city">Montbéliard</settlement></placeName></affiliation></author><author><name sortKey="Blaudez, Damien" sort="Blaudez, Damien" uniqKey="Blaudez D" first="Damien" last="Blaudez">Damien Blaudez</name><affiliation wicri:level="4"><nlm:affiliation>CNRS, LIEC UMR7360, Faculté des Sciences et Technologies, BP70239, 54506 Vandoeuvre-lès-Nancy, France Université de Lorraine, LIEC UMR7360, Faculté des Sciences et Technologies, BP 70239, 54506 Vandoeuvre-lès-Nancy, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>CNRS, LIEC UMR7360, Faculté des Sciences et Technologies, BP70239, 54506 Vandoeuvre-lès-Nancy, France Université de Lorraine, LIEC UMR7360, Faculté des Sciences et Technologies, BP 70239, 54506 Vandoeuvre-lès-Nancy</wicri:regionArea><placeName><region type="region" nuts="2">Grand Est</region><region type="old region" nuts="2">Lorraine (région)</region><settlement type="city">Vandœuvre-lès-Nancy</settlement></placeName><orgName type="university">Université de Lorraine</orgName></affiliation></author><author><name sortKey="Chalot, Michel" sort="Chalot, Michel" uniqKey="Chalot M" first="Michel" last="Chalot">Michel Chalot</name><affiliation wicri:level="3"><nlm:affiliation>Laboratoire Chrono-Environnement, UMR 6249, Université de Bourgogne Franche-Comté, Pôle Universitaire du Pays de Montbéliard, 4 place Tharradin, BP 71427, 25211 Montbéliard, France Université de Lorraine, Faculté des Sciences et Technologies, BP 70239, 54506 Vandoeuvre-les-Nancy, France michel.chalot@univ-fcomte.fr.</nlm:affiliation><country wicri:rule="url">France</country><wicri:regionArea>Laboratoire Chrono-Environnement, UMR 6249, Université de Bourgogne Franche-Comté, Pôle Universitaire du Pays de Montbéliard, 4 place Tharradin, BP 71427, 25211 Montbéliard, France Université de Lorraine, Faculté des Sciences et Technologies, BP 70239, 54506 Vandoeuvre-les-Nancy</wicri:regionArea><placeName><region type="region" nuts="2">Grand Est</region><region type="old region" nuts="2">Lorraine (région)</region><settlement type="city">Vandœuvre-lès-Nancy</settlement></placeName></affiliation></author></analytic><series><title level="j">FEMS microbiology ecology</title><idno type="eISSN">1574-6941</idno><imprint><date when="2016" type="published">2016</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Biodegradation, Environmental (MeSH)</term><term>Ecosystem (MeSH)</term><term>Environment (MeSH)</term><term>High-Throughput Nucleotide Sequencing (MeSH)</term><term>Metals (analysis)</term><term>Metals (metabolism)</term><term>Microbial Consortia (MeSH)</term><term>Mycorrhizae (MeSH)</term><term>Plant Roots (microbiology)</term><term>Populus (MeSH)</term><term>Soil (chemistry)</term><term>Soil Microbiology (MeSH)</term><term>Soil Pollutants (analysis)</term><term>Soil Pollutants (metabolism)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Consortiums microbiens (MeSH)</term><term>Dépollution biologique de l'environnement (MeSH)</term><term>Environnement (MeSH)</term><term>Microbiologie du sol (MeSH)</term><term>Mycorhizes (MeSH)</term><term>Métaux (analyse)</term><term>Métaux (métabolisme)</term><term>Polluants du sol (analyse)</term><term>Polluants du sol (métabolisme)</term><term>Populus (MeSH)</term><term>Racines de plante (microbiologie)</term><term>Sol (composition chimique)</term><term>Séquençage nucléotidique à haut débit (MeSH)</term><term>Écosystème (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="analysis" xml:lang="en"><term>Metals</term><term>Soil Pollutants</term></keywords><keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>Soil</term></keywords><keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>Metals</term><term>Soil Pollutants</term></keywords><keywords scheme="MESH" qualifier="analyse" xml:lang="fr"><term>Métaux</term><term>Polluants du sol</term></keywords><keywords scheme="MESH" qualifier="composition chimique" xml:lang="fr"><term>Sol</term></keywords><keywords scheme="MESH" qualifier="microbiologie" xml:lang="fr"><term>Racines de plante</term></keywords><keywords scheme="MESH" qualifier="microbiology" xml:lang="en"><term>Plant Roots</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Métaux</term><term>Polluants du sol</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Biodegradation, Environmental</term><term>Ecosystem</term><term>Environment</term><term>High-Throughput Nucleotide Sequencing</term><term>Microbial Consortia</term><term>Mycorrhizae</term><term>Populus</term><term>Soil Microbiology</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Consortiums microbiens</term><term>Dépollution biologique de l'environnement</term><term>Environnement</term><term>Microbiologie du sol</term><term>Mycorhizes</term><term>Populus</term><term>Séquençage nucléotidique à haut débit</term><term>Écosystème</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Despite a long history of use in phytomanagement strategies, the impacts of poplar trees on the structure and function of microbial communities that live in the soil remain largely unknown. The current study combined fungal and bacterial community analyses from different management regimes using Illumina-based sequencing with soil analysis. The poplar phytomanagement regimes led to a significant increase in soil fertility and a decreased bioavailability of Zn and Cd, in concert with changes in the microbial communities. The most notable changes in the relative abundance of taxa and operational taxonomic units unsurprisingly indicated that root and soil constitute distinct ecological microbial habitats, as exemplified by the dominance of Laccaria in root samples. The poplar cultivar was also an important driver, explaining 12% and 6% of the variance in the fungal and bacterial data sets, respectively. The overall dominance of saprophytic fungi, e.g. Penicillium canescens, might be related to the decomposition activities needed at the experimental site. Our data further highlighted that the mycorrhizal colonization of poplar cultivars varies greatly between the species and genotypes, which is exemplified by the dominance of Scleroderma under Vesten samples. Further interactions between fungal and bacterial functional groups stressed the potential of high-throughput sequencing technologies in uncovering the microbial ecology of disturbed environments.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" IndexingMethod="Curated" Owner="NLM"><PMID Version="1">27481257</PMID><DateCompleted><Year>2017</Year><Month>06</Month><Day>15</Day></DateCompleted><DateRevised><Year>2018</Year><Month>12</Month><Day>02</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1574-6941</ISSN><JournalIssue CitedMedium="Internet"><Volume>92</Volume><Issue>10</Issue><PubDate><Year>2016</Year><Month>10</Month></PubDate></JournalIssue><Title>FEMS microbiology ecology</Title><ISOAbbreviation>FEMS Microbiol Ecol</ISOAbbreviation></Journal><ArticleTitle>Impact of poplar-based phytomanagement on soil properties and microbial communities in a metal-contaminated site.</ArticleTitle><ELocationID EIdType="doi" ValidYN="Y">10.1093/femsec/fiw163</ELocationID><ELocationID EIdType="pii" ValidYN="Y">fiw163</ELocationID><Abstract><AbstractText>Despite a long history of use in phytomanagement strategies, the impacts of poplar trees on the structure and function of microbial communities that live in the soil remain largely unknown. The current study combined fungal and bacterial community analyses from different management regimes using Illumina-based sequencing with soil analysis. The poplar phytomanagement regimes led to a significant increase in soil fertility and a decreased bioavailability of Zn and Cd, in concert with changes in the microbial communities. The most notable changes in the relative abundance of taxa and operational taxonomic units unsurprisingly indicated that root and soil constitute distinct ecological microbial habitats, as exemplified by the dominance of Laccaria in root samples. The poplar cultivar was also an important driver, explaining 12% and 6% of the variance in the fungal and bacterial data sets, respectively. The overall dominance of saprophytic fungi, e.g. Penicillium canescens, might be related to the decomposition activities needed at the experimental site. Our data further highlighted that the mycorrhizal colonization of poplar cultivars varies greatly between the species and genotypes, which is exemplified by the dominance of Scleroderma under Vesten samples. Further interactions between fungal and bacterial functional groups stressed the potential of high-throughput sequencing technologies in uncovering the microbial ecology of disturbed environments.</AbstractText><CopyrightInformation>© FEMS 2016. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Foulon</LastName><ForeName>Julie</ForeName><Initials>J</Initials><AffiliationInfo><Affiliation>Laboratoire Chrono-Environnement, UMR 6249, Université de Bourgogne Franche-Comté, Pôle Universitaire du Pays de Montbéliard, 4 place Tharradin, BP 71427, 25211 Montbéliard, France.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zappelini</LastName><ForeName>Cyril</ForeName><Initials>C</Initials><AffiliationInfo><Affiliation>Laboratoire Chrono-Environnement, UMR 6249, Université de Bourgogne Franche-Comté, Pôle Universitaire du Pays de Montbéliard, 4 place Tharradin, BP 71427, 25211 Montbéliard, France.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Durand</LastName><ForeName>Alexis</ForeName><Initials>A</Initials><AffiliationInfo><Affiliation>Laboratoire Chrono-Environnement, UMR 6249, Université de Bourgogne Franche-Comté, Pôle Universitaire du Pays de Montbéliard, 4 place Tharradin, BP 71427, 25211 Montbéliard, France.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Valot</LastName><ForeName>Benoit</ForeName><Initials>B</Initials><AffiliationInfo><Affiliation>Laboratoire Chrono-Environnement, UMR 6249, Université de Bourgogne Franche-Comté, Pôle Universitaire du Pays de Montbéliard, 4 place Tharradin, BP 71427, 25211 Montbéliard, France.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Blaudez</LastName><ForeName>Damien</ForeName><Initials>D</Initials><AffiliationInfo><Affiliation>CNRS, LIEC UMR7360, Faculté des Sciences et Technologies, BP70239, 54506 Vandoeuvre-lès-Nancy, France Université de Lorraine, LIEC UMR7360, Faculté des Sciences et Technologies, BP 70239, 54506 Vandoeuvre-lès-Nancy, France.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Chalot</LastName><ForeName>Michel</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>Laboratoire Chrono-Environnement, UMR 6249, Université de Bourgogne Franche-Comté, Pôle Universitaire du Pays de Montbéliard, 4 place Tharradin, BP 71427, 25211 Montbéliard, France Université de Lorraine, Faculté des Sciences et Technologies, BP 70239, 54506 Vandoeuvre-les-Nancy, France michel.chalot@univ-fcomte.fr.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2016</Year><Month>07</Month><Day>31</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>FEMS Microbiol Ecol</MedlineTA><NlmUniqueID>8901229</NlmUniqueID><ISSNLinking>0168-6496</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D008670">Metals</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D012987">Soil</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D012989">Soil Pollutants</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D001673" MajorTopicYN="Y">Biodegradation, Environmental</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017753" MajorTopicYN="N">Ecosystem</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D004777" MajorTopicYN="N">Environment</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D059014" MajorTopicYN="N">High-Throughput Nucleotide Sequencing</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D008670" MajorTopicYN="N">Metals</DescriptorName><QualifierName UI="Q000032" MajorTopicYN="Y">analysis</QualifierName><QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D059013" MajorTopicYN="Y">Microbial Consortia</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D038821" MajorTopicYN="N">Mycorrhizae</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018517" MajorTopicYN="N">Plant Roots</DescriptorName><QualifierName UI="Q000382" MajorTopicYN="N">microbiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D012987" MajorTopicYN="N">Soil</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="Y">chemistry</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D012988" MajorTopicYN="Y">Soil Microbiology</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D012989" MajorTopicYN="N">Soil Pollutants</DescriptorName><QualifierName UI="Q000032" MajorTopicYN="N">analysis</QualifierName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading></MeshHeadingList><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="Y">Illumina-based sequencing</Keyword><Keyword MajorTopicYN="Y">bacterial 16S</Keyword><Keyword MajorTopicYN="Y">fungal ITS</Keyword><Keyword MajorTopicYN="Y">metal-contaminated soils</Keyword><Keyword MajorTopicYN="Y">phytomanagement, poplar cultivars</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="accepted"><Year>2016</Year><Month>07</Month><Day>25</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2016</Year><Month>8</Month><Day>3</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2016</Year><Month>8</Month><Day>3</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2017</Year><Month>6</Month><Day>16</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">27481257</ArticleId><ArticleId IdType="pii">fiw163</ArticleId><ArticleId IdType="doi">10.1093/femsec/fiw163</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>France</li></country><region><li>Bourgogne-Franche-Comté</li><li>Franche-Comté</li><li>Grand Est</li><li>Lorraine (région)</li></region><settlement><li>Montbéliard</li><li>Vandœuvre-lès-Nancy</li></settlement><orgName><li>Université de Lorraine</li></orgName></list><tree><country name="France"><region name="Bourgogne-Franche-Comté"><name sortKey="Foulon, Julie" sort="Foulon, Julie" uniqKey="Foulon J" first="Julie" last="Foulon">Julie Foulon</name></region><name sortKey="Blaudez, Damien" sort="Blaudez, Damien" uniqKey="Blaudez D" first="Damien" last="Blaudez">Damien Blaudez</name><name sortKey="Chalot, Michel" sort="Chalot, Michel" uniqKey="Chalot M" first="Michel" last="Chalot">Michel Chalot</name><name sortKey="Durand, Alexis" sort="Durand, Alexis" uniqKey="Durand A" first="Alexis" last="Durand">Alexis Durand</name><name sortKey="Valot, Benoit" sort="Valot, Benoit" uniqKey="Valot B" first="Benoit" last="Valot">Benoit Valot</name><name sortKey="Zappelini, Cyril" sort="Zappelini, Cyril" uniqKey="Zappelini C" first="Cyril" last="Zappelini">Cyril Zappelini</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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