Microdiversity of Burkholderiales associated with mycorrhizal and nonmycorrhizal roots of Medicago truncatula.
Identifieur interne : 002C70 ( Main/Exploration ); précédent : 002C69; suivant : 002C71Microdiversity of Burkholderiales associated with mycorrhizal and nonmycorrhizal roots of Medicago truncatula.
Auteurs : Pierre Offre [France] ; Barbara Pivato ; Sylvie Mazurier ; Séverine Siblot ; Graziella Berta ; Philippe Lemanceau ; Christophe MougelSource :
- FEMS microbiology ecology [ 0168-6496 ] ; 2008.
Descripteurs français
- KwdFr :
- ADN bactérien (analyse), ARN ribosomique 16S (génétique), Betaproteobacteria (classification), Betaproteobacteria (génétique), Betaproteobacteria (isolement et purification), Comamonadaceae (classification), Comamonadaceae (génétique), Comamonadaceae (isolement et purification), Données de séquences moléculaires (MeSH), Espaceur de l'ADN ribosomique (analyse), Gènes d'ARN ribosomique (MeSH), Medicago truncatula (génétique), Medicago truncatula (microbiologie), Mycorhizes (MeSH), Oxalobacteraceae (classification), Oxalobacteraceae (génétique), Oxalobacteraceae (isolement et purification), Phylogenèse (MeSH), Racines de plante (microbiologie), Variation génétique (MeSH).
- MESH :
- analyse : ADN bactérien, Espaceur de l'ADN ribosomique.
- génétique : ARN ribosomique 16S, Betaproteobacteria, Comamonadaceae, Medicago truncatula, Oxalobacteraceae.
- isolement et purification : Betaproteobacteria, Comamonadaceae, Oxalobacteraceae.
- microbiologie : Medicago truncatula, Racines de plante.
- classification : Betaproteobacteria, Comamonadaceae, Données de séquences moléculaires, Gènes d'ARN ribosomique, Mycorhizes, Oxalobacteraceae, Phylogenèse, Variation génétique.
English descriptors
- KwdEn :
- Betaproteobacteria (classification), Betaproteobacteria (genetics), Betaproteobacteria (isolation & purification), Comamonadaceae (classification), Comamonadaceae (genetics), Comamonadaceae (isolation & purification), DNA, Bacterial (analysis), DNA, Ribosomal Spacer (analysis), Genes, rRNA (MeSH), Genetic Variation (MeSH), Medicago truncatula (genetics), Medicago truncatula (microbiology), Molecular Sequence Data (MeSH), Mycorrhizae (MeSH), Oxalobacteraceae (classification), Oxalobacteraceae (genetics), Oxalobacteraceae (isolation & purification), Phylogeny (MeSH), Plant Roots (microbiology), RNA, Ribosomal, 16S (genetics).
- MESH :
- chemical , analysis : DNA, Bacterial, DNA, Ribosomal Spacer.
- classification : Betaproteobacteria, Comamonadaceae, Oxalobacteraceae.
- genetics : Betaproteobacteria, Comamonadaceae, Medicago truncatula, Oxalobacteraceae, RNA, Ribosomal, 16S.
- isolation & purification : Betaproteobacteria, Comamonadaceae, Oxalobacteraceae.
- microbiology : Medicago truncatula, Plant Roots.
- Genes, rRNA, Genetic Variation, Molecular Sequence Data, Mycorrhizae, Phylogeny.
Abstract
The genetic diversity of bacterial communities associated with mycorrhizal and nonmycorrhizal roots of Medicago truncatula was characterized by two approaches. Firstly, phylogenetic analysis was performed on 164 partial 16S rRNA gene-intergenic spacer (IGS) sequences from operational taxonomic units previously shown to be preferentially associated with mycorrhizal roots. These sequences were distributed into three branches corresponding to Comamonadaceae, Oxalobacteraceae and Rubrivivax subgroups. Most sequences were obtained from mycorrhizal roots, indicating the preferential association of the corresponding families with mycorrhizal roots. A second phylogenetic analysis was performed on the partial 16S rRNA gene-IGS sequences of 173 isolates among a large collection of isolates, from mycorrhizal and nonmycorrhizal roots, belonging to Comamonadaceae and Oxalobacteraceae on the basis of their positive hybridization with a partial 16S rRNA gene-IGS probe obtained in this study. Sequence analysis confirmed the affiliation of 166 isolates to Comamonadaceae and seven to Oxalobacteraceae. Oxalobacteraceae isolates were more abundant in mycorrhizal (five) than in nonmycorrhizal (two) roots, whereas Comamonadaceae isolates were more abundant in nonmycorrhizal (109) than mycorrhizal roots (57). Further analysis of Comamonadaceae isolates by BOX-PCR showed that the genetic structure of culturable populations belonging to this family differed significantly in mycorrhizal and nonmycorrhizal roots, as indicated by distributions in different BOX types, differences being significantly explained by BOX types only including isolates from mycorrhizal roots. These data are discussed in an ecological context.
DOI: 10.1111/j.1574-6941.2008.00504.x
PubMed: 18507681
Affiliations:
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(microbiology)</term><term>Molecular Sequence Data (MeSH)</term><term>Mycorrhizae (MeSH)</term><term>Oxalobacteraceae (classification)</term><term>Oxalobacteraceae (genetics)</term><term>Oxalobacteraceae (isolation & purification)</term><term>Phylogeny (MeSH)</term><term>Plant Roots (microbiology)</term><term>RNA, Ribosomal, 16S (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ADN bactérien (analyse)</term><term>ARN ribosomique 16S (génétique)</term><term>Betaproteobacteria (classification)</term><term>Betaproteobacteria (génétique)</term><term>Betaproteobacteria (isolement et purification)</term><term>Comamonadaceae (classification)</term><term>Comamonadaceae (génétique)</term><term>Comamonadaceae (isolement et purification)</term><term>Données de séquences moléculaires (MeSH)</term><term>Espaceur de l'ADN ribosomique (analyse)</term><term>Gènes d'ARN ribosomique (MeSH)</term><term>Medicago truncatula (génétique)</term><term>Medicago truncatula 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Data</term><term>Mycorrhizae</term><term>Phylogeny</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="fr"><term>Betaproteobacteria</term><term>Comamonadaceae</term><term>Données de séquences moléculaires</term><term>Gènes d'ARN ribosomique</term><term>Mycorhizes</term><term>Oxalobacteraceae</term><term>Phylogenèse</term><term>Variation génétique</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">The genetic diversity of bacterial communities associated with mycorrhizal and nonmycorrhizal roots of Medicago truncatula was characterized by two approaches. Firstly, phylogenetic analysis was performed on 164 partial 16S rRNA gene-intergenic spacer (IGS) sequences from operational taxonomic units previously shown to be preferentially associated with mycorrhizal roots. These sequences were distributed into three branches corresponding to Comamonadaceae, Oxalobacteraceae and Rubrivivax subgroups. Most sequences were obtained from mycorrhizal roots, indicating the preferential association of the corresponding families with mycorrhizal roots. A second phylogenetic analysis was performed on the partial 16S rRNA gene-IGS sequences of 173 isolates among a large collection of isolates, from mycorrhizal and nonmycorrhizal roots, belonging to Comamonadaceae and Oxalobacteraceae on the basis of their positive hybridization with a partial 16S rRNA gene-IGS probe obtained in this study. Sequence analysis confirmed the affiliation of 166 isolates to Comamonadaceae and seven to Oxalobacteraceae. Oxalobacteraceae isolates were more abundant in mycorrhizal (five) than in nonmycorrhizal (two) roots, whereas Comamonadaceae isolates were more abundant in nonmycorrhizal (109) than mycorrhizal roots (57). Further analysis of Comamonadaceae isolates by BOX-PCR showed that the genetic structure of culturable populations belonging to this family differed significantly in mycorrhizal and nonmycorrhizal roots, as indicated by distributions in different BOX types, differences being significantly explained by BOX types only including isolates from mycorrhizal roots. These data are discussed in an ecological context.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">18507681</PMID><DateCompleted><Year>2008</Year><Month>09</Month><Day>30</Day></DateCompleted><DateRevised><Year>2008</Year><Month>11</Month><Day>21</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Print">0168-6496</ISSN><JournalIssue CitedMedium="Print"><Volume>65</Volume><Issue>2</Issue><PubDate><Year>2008</Year><Month>Aug</Month></PubDate></JournalIssue><Title>FEMS microbiology ecology</Title><ISOAbbreviation>FEMS Microbiol Ecol</ISOAbbreviation></Journal><ArticleTitle>Microdiversity of Burkholderiales associated with mycorrhizal and nonmycorrhizal roots of Medicago truncatula.</ArticleTitle><Pagination><MedlinePgn>180-92</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1111/j.1574-6941.2008.00504.x</ELocationID><Abstract><AbstractText>The genetic diversity of bacterial communities associated with mycorrhizal and nonmycorrhizal roots of Medicago truncatula was characterized by two approaches. Firstly, phylogenetic analysis was performed on 164 partial 16S rRNA gene-intergenic spacer (IGS) sequences from operational taxonomic units previously shown to be preferentially associated with mycorrhizal roots. These sequences were distributed into three branches corresponding to Comamonadaceae, Oxalobacteraceae and Rubrivivax subgroups. Most sequences were obtained from mycorrhizal roots, indicating the preferential association of the corresponding families with mycorrhizal roots. A second phylogenetic analysis was performed on the partial 16S rRNA gene-IGS sequences of 173 isolates among a large collection of isolates, from mycorrhizal and nonmycorrhizal roots, belonging to Comamonadaceae and Oxalobacteraceae on the basis of their positive hybridization with a partial 16S rRNA gene-IGS probe obtained in this study. Sequence analysis confirmed the affiliation of 166 isolates to Comamonadaceae and seven to Oxalobacteraceae. Oxalobacteraceae isolates were more abundant in mycorrhizal (five) than in nonmycorrhizal (two) roots, whereas Comamonadaceae isolates were more abundant in nonmycorrhizal (109) than mycorrhizal roots (57). Further analysis of Comamonadaceae isolates by BOX-PCR showed that the genetic structure of culturable populations belonging to this family differed significantly in mycorrhizal and nonmycorrhizal roots, as indicated by distributions in different BOX types, differences being significantly explained by BOX types only including isolates from mycorrhizal roots. These data are discussed in an ecological context.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Offre</LastName><ForeName>Pierre</ForeName><Initials>P</Initials><AffiliationInfo><Affiliation>INRA, Université de Bourgogne, UMR1229 Microbiologie du Sol et de l'Environnement, CMSE, BP, Dijon, France.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Pivato</LastName><ForeName>Barbara</ForeName><Initials>B</Initials></Author><Author ValidYN="Y"><LastName>Mazurier</LastName><ForeName>Sylvie</ForeName><Initials>S</Initials></Author><Author ValidYN="Y"><LastName>Siblot</LastName><ForeName>Séverine</ForeName><Initials>S</Initials></Author><Author ValidYN="Y"><LastName>Berta</LastName><ForeName>Graziella</ForeName><Initials>G</Initials></Author><Author ValidYN="Y"><LastName>Lemanceau</LastName><ForeName>Philippe</ForeName><Initials>P</Initials></Author><Author ValidYN="Y"><LastName>Mougel</LastName><ForeName>Christophe</ForeName><Initials>C</Initials></Author></AuthorList><Language>eng</Language><DataBankList CompleteYN="Y"><DataBank><DataBankName>GENBANK</DataBankName><AccessionNumberList><AccessionNumber>EU074784</AccessionNumber><AccessionNumber>EU074785</AccessionNumber><AccessionNumber>EU074786</AccessionNumber><AccessionNumber>EU074787</AccessionNumber><AccessionNumber>EU074788</AccessionNumber><AccessionNumber>EU074789</AccessionNumber></AccessionNumberList></DataBank></DataBankList><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2008</Year><Month>05</Month><Day>28</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="D004269">DNA, Bacterial</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D021903">DNA, Ribosomal Spacer</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D012336">RNA, Ribosomal, 16S</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D020562" MajorTopicYN="N">Betaproteobacteria</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="Y">classification</QualifierName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000302" MajorTopicYN="N">isolation & purification</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D042621" MajorTopicYN="N">Comamonadaceae</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000302" MajorTopicYN="N">isolation & purification</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D004269" MajorTopicYN="N">DNA, Bacterial</DescriptorName><QualifierName UI="Q000032" MajorTopicYN="N">analysis</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D021903" MajorTopicYN="N">DNA, Ribosomal Spacer</DescriptorName><QualifierName UI="Q000032" MajorTopicYN="N">analysis</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D020459" MajorTopicYN="N">Genes, rRNA</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D014644" MajorTopicYN="Y">Genetic Variation</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D046913" MajorTopicYN="N">Medicago truncatula</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000382" MajorTopicYN="Y">microbiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D008969" MajorTopicYN="N">Molecular Sequence Data</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D038821" MajorTopicYN="Y">Mycorrhizae</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D042802" MajorTopicYN="N">Oxalobacteraceae</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000302" MajorTopicYN="N">isolation & purification</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D010802" MajorTopicYN="N">Phylogeny</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018517" MajorTopicYN="N">Plant Roots</DescriptorName><QualifierName UI="Q000382" MajorTopicYN="Y">microbiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D012336" MajorTopicYN="N">RNA, Ribosomal, 16S</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="pubmed"><Year>2008</Year><Month>5</Month><Day>30</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2008</Year><Month>10</Month><Day>1</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2008</Year><Month>5</Month><Day>30</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">18507681</ArticleId><ArticleId IdType="pii">FEM504</ArticleId><ArticleId IdType="doi">10.1111/j.1574-6941.2008.00504.x</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>France</li></country><region><li>Bourgogne</li><li>Bourgogne-Franche-Comté</li></region><settlement><li>Dijon</li></settlement><orgName><li>Université de Bourgogne</li></orgName></list><tree><noCountry><name sortKey="Berta, Graziella" sort="Berta, Graziella" uniqKey="Berta G" first="Graziella" last="Berta">Graziella Berta</name><name sortKey="Lemanceau, Philippe" sort="Lemanceau, Philippe" uniqKey="Lemanceau P" first="Philippe" last="Lemanceau">Philippe Lemanceau</name><name sortKey="Mazurier, Sylvie" sort="Mazurier, Sylvie" uniqKey="Mazurier S" first="Sylvie" last="Mazurier">Sylvie Mazurier</name><name sortKey="Mougel, Christophe" sort="Mougel, Christophe" uniqKey="Mougel C" first="Christophe" last="Mougel">Christophe Mougel</name><name sortKey="Pivato, Barbara" sort="Pivato, Barbara" uniqKey="Pivato B" first="Barbara" last="Pivato">Barbara Pivato</name><name sortKey="Siblot, Severine" sort="Siblot, Severine" uniqKey="Siblot S" first="Séverine" last="Siblot">Séverine Siblot</name></noCountry><country name="France"><region name="Bourgogne-Franche-Comté"><name sortKey="Offre, Pierre" sort="Offre, Pierre" uniqKey="Offre P" first="Pierre" 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