Resilience of the rhizosphere Pseudomonas and ammonia-oxidizing bacterial populations during phytoextraction of heavy metal polluted soil with poplar.
Identifieur interne : 003828 ( Main/Exploration ); précédent : 003827; suivant : 003829Resilience of the rhizosphere Pseudomonas and ammonia-oxidizing bacterial populations during phytoextraction of heavy metal polluted soil with poplar.
Auteurs : Beat Frey [Suisse] ; Manuel Pesaro ; Andreas Rüdt ; Franco WidmerSource :
- Environmental microbiology [ 1462-2920 ] ; 2008.
Descripteurs français
- KwdFr :
- ADN bactérien (génétique), ADN bactérien (isolement et purification), ARN ribosomique 16S (génétique), Analyse de séquence d'ADN (MeSH), Bactéries (classification), Bactéries (croissance et développement), Bactéries (génétique), Biomasse (MeSH), Dénaturation d'acide nucléique (MeSH), Microbiologie du sol (MeSH), Métaux lourds (métabolisme), Nitrosomonadaceae (génétique), Phylogenèse (MeSH), Polluants du sol (métabolisme), Populus (microbiologie), Populus (métabolisme), Profilage d'ADN (MeSH), Pseudomonas fluorescens (génétique), Racines de plante (microbiologie), Similitude de séquences (MeSH), Viabilité microbienne (effets des médicaments et des substances chimiques), Électrophorèse sur gel de polyacrylamide (MeSH).
- MESH :
- croissance et développement : Bactéries.
- effets des médicaments et des substances chimiques : Viabilité microbienne.
- génétique : ADN bactérien, ARN ribosomique 16S, Bactéries, Nitrosomonadaceae, Pseudomonas fluorescens.
- isolement et purification : ADN bactérien.
- microbiologie : Populus, Racines de plante.
- métabolisme : Métaux lourds, Polluants du sol, Populus.
- Analyse de séquence d'ADN, Biomasse, Dénaturation d'acide nucléique, Microbiologie du sol, Phylogenèse, Profilage d'ADN, Similitude de séquences, Électrophorèse sur gel de polyacrylamide.
English descriptors
- KwdEn :
- Bacteria (classification), Bacteria (genetics), Bacteria (growth & development), Biomass (MeSH), DNA Fingerprinting (MeSH), DNA, Bacterial (genetics), DNA, Bacterial (isolation & purification), Electrophoresis, Polyacrylamide Gel (MeSH), Metals, Heavy (metabolism), Microbial Viability (drug effects), Nitrosomonadaceae (genetics), Nucleic Acid Denaturation (MeSH), Phylogeny (MeSH), Plant Roots (microbiology), Populus (metabolism), Populus (microbiology), Pseudomonas fluorescens (genetics), RNA, Ribosomal, 16S (genetics), Sequence Analysis, DNA (MeSH), Sequence Homology (MeSH), Soil Microbiology (MeSH), Soil Pollutants (metabolism).
- MESH :
- chemical , genetics : DNA, Bacterial, RNA, Ribosomal, 16S.
- classification : Bacteria.
- drug effects : Microbial Viability.
- genetics : Bacteria, Nitrosomonadaceae, Pseudomonas fluorescens.
- growth & development : Bacteria.
- chemical , isolation & purification : DNA, Bacterial.
- chemical , metabolism : Metals, Heavy, Populus, Soil Pollutants.
- microbiology : Plant Roots, Populus.
- Biomass, DNA Fingerprinting, Electrophoresis, Polyacrylamide Gel, Nucleic Acid Denaturation, Phylogeny, Sequence Analysis, DNA, Sequence Homology, Soil Microbiology.
Abstract
We assessed the effects of phytoextraction on the dynamics of Pseudomonas spp. and ammonia-oxidizing bacterial populations in a heavy metal (HM) polluted soil. Hybrid poplars were grown in two-compartment root containers with a medium history (> 4 years) of HM pollution for 13 weeks. Bulk and poplar rhizosphere soils were analysed by denaturing gradient gel electrophoresis (DGGE) of Pseudomonas (sensu stricto) 16S rRNA and amoA gene fragments. DGGE patterns revealed that Pseudomonas and amoA-containing populations in the contaminated soils were markedly different from those in the uncontaminated soils. Pseudomonas and amoA profiles appeared to be stable over time in the bulk soils. In contrast, contaminated rhizosphere soils revealed a clear shift of populations with removal of HM becoming similar or at least shifted to the populations of the uncontaminated soils. The effect of phytoextraction was, however, not evident in the bulk samples, which still contained large amounts of HM. Cloning and sequencing of dominant DGGE bands revealed that Pseudomonas were phylogenetically related to the Pseudomonas fluorescens cluster and the amoA sequences to Nitrosospira spp. At the last sampling, major prominent band sequences from contaminated rhizosphere soils were identical to sequences obtained from uncontaminated rhizosphere soils, indicating that the populations were dominated by the same phylotypes. This study suggests that two taxonomically different populations are able to recover after the relief of HM stress by phytoextraction practices, whereas bulk microbial activities still remained depressed.
DOI: 10.1111/j.1462-2920.2007.01556.x
PubMed: 18279346
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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Hybrid poplars were grown in two-compartment root containers with a medium history (> 4 years) of HM pollution for 13 weeks. Bulk and poplar rhizosphere soils were analysed by denaturing gradient gel electrophoresis (DGGE) of Pseudomonas (sensu stricto) 16S rRNA and amoA gene fragments. DGGE patterns revealed that Pseudomonas and amoA-containing populations in the contaminated soils were markedly different from those in the uncontaminated soils. Pseudomonas and amoA profiles appeared to be stable over time in the bulk soils. In contrast, contaminated rhizosphere soils revealed a clear shift of populations with removal of HM becoming similar or at least shifted to the populations of the uncontaminated soils. The effect of phytoextraction was, however, not evident in the bulk samples, which still contained large amounts of HM. Cloning and sequencing of dominant DGGE bands revealed that Pseudomonas were phylogenetically related to the Pseudomonas fluorescens cluster and the amoA sequences to Nitrosospira spp. At the last sampling, major prominent band sequences from contaminated rhizosphere soils were identical to sequences obtained from uncontaminated rhizosphere soils, indicating that the populations were dominated by the same phylotypes. This study suggests that two taxonomically different populations are able to recover after the relief of HM stress by phytoextraction practices, whereas bulk microbial activities still remained depressed.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">18279346</PMID><DateCompleted><Year>2008</Year><Month>06</Month><Day>13</Day></DateCompleted><DateRevised><Year>2008</Year><Month>05</Month><Day>13</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1462-2920</ISSN><JournalIssue CitedMedium="Internet"><Volume>10</Volume><Issue>6</Issue><PubDate><Year>2008</Year><Month>Jun</Month></PubDate></JournalIssue><Title>Environmental microbiology</Title><ISOAbbreviation>Environ Microbiol</ISOAbbreviation></Journal><ArticleTitle>Resilience of the rhizosphere Pseudomonas and ammonia-oxidizing bacterial populations during phytoextraction of heavy metal polluted soil with poplar.</ArticleTitle><Pagination><MedlinePgn>1433-49</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1111/j.1462-2920.2007.01556.x</ELocationID><Abstract><AbstractText>We assessed the effects of phytoextraction on the dynamics of Pseudomonas spp. and ammonia-oxidizing bacterial populations in a heavy metal (HM) polluted soil. Hybrid poplars were grown in two-compartment root containers with a medium history (> 4 years) of HM pollution for 13 weeks. Bulk and poplar rhizosphere soils were analysed by denaturing gradient gel electrophoresis (DGGE) of Pseudomonas (sensu stricto) 16S rRNA and amoA gene fragments. DGGE patterns revealed that Pseudomonas and amoA-containing populations in the contaminated soils were markedly different from those in the uncontaminated soils. Pseudomonas and amoA profiles appeared to be stable over time in the bulk soils. In contrast, contaminated rhizosphere soils revealed a clear shift of populations with removal of HM becoming similar or at least shifted to the populations of the uncontaminated soils. The effect of phytoextraction was, however, not evident in the bulk samples, which still contained large amounts of HM. Cloning and sequencing of dominant DGGE bands revealed that Pseudomonas were phylogenetically related to the Pseudomonas fluorescens cluster and the amoA sequences to Nitrosospira spp. At the last sampling, major prominent band sequences from contaminated rhizosphere soils were identical to sequences obtained from uncontaminated rhizosphere soils, indicating that the populations were dominated by the same phylotypes. This study suggests that two taxonomically different populations are able to recover after the relief of HM stress by phytoextraction practices, whereas bulk microbial activities still remained depressed.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Frey</LastName><ForeName>Beat</ForeName><Initials>B</Initials><AffiliationInfo><Affiliation>Soil Sciences, Swiss Federal Research Institute WSL, CH-8903 Birmensdorf, Switzerland. beat.frey@wsl.ch</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Pesaro</LastName><ForeName>Manuel</ForeName><Initials>M</Initials></Author><Author ValidYN="Y"><LastName>Rüdt</LastName><ForeName>Andreas</ForeName><Initials>A</Initials></Author><Author ValidYN="Y"><LastName>Widmer</LastName><ForeName>Franco</ForeName><Initials>F</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D003160">Comparative Study</PublicationType><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>02</Month><Day>11</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Environ Microbiol</MedlineTA><NlmUniqueID>100883692</NlmUniqueID><ISSNLinking>1462-2912</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D004269">DNA, Bacterial</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D019216">Metals, Heavy</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D012336">RNA, Ribosomal, 16S</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D012989">Soil Pollutants</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D001419" MajorTopicYN="N">Bacteria</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000254" MajorTopicYN="Y">growth & development</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D018533" MajorTopicYN="N">Biomass</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D016172" MajorTopicYN="N">DNA Fingerprinting</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D004269" MajorTopicYN="N">DNA, Bacterial</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000302" MajorTopicYN="N">isolation & purification</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D004591" MajorTopicYN="N">Electrophoresis, Polyacrylamide Gel</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D019216" MajorTopicYN="N">Metals, Heavy</DescriptorName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D050296" MajorTopicYN="N">Microbial Viability</DescriptorName><QualifierName UI="Q000187" MajorTopicYN="Y">drug effects</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D043369" MajorTopicYN="N">Nitrosomonadaceae</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D009691" MajorTopicYN="N">Nucleic Acid Denaturation</DescriptorName></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="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName><QualifierName UI="Q000382" MajorTopicYN="N">microbiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D011551" MajorTopicYN="N">Pseudomonas fluorescens</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D012336" MajorTopicYN="N">RNA, Ribosomal, 16S</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D017422" MajorTopicYN="N">Sequence Analysis, DNA</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017385" MajorTopicYN="N">Sequence Homology</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D012988" MajorTopicYN="Y">Soil Microbiology</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D012989" MajorTopicYN="N">Soil Pollutants</DescriptorName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="pubmed"><Year>2008</Year><Month>2</Month><Day>19</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2008</Year><Month>6</Month><Day>14</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2008</Year><Month>2</Month><Day>19</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">18279346</ArticleId><ArticleId IdType="pii">EMI1556</ArticleId><ArticleId IdType="doi">10.1111/j.1462-2920.2007.01556.x</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>Suisse</li></country></list><tree><noCountry><name sortKey="Pesaro, Manuel" sort="Pesaro, Manuel" uniqKey="Pesaro M" first="Manuel" last="Pesaro">Manuel Pesaro</name><name sortKey="Rudt, Andreas" sort="Rudt, Andreas" uniqKey="Rudt A" first="Andreas" last="Rüdt">Andreas Rüdt</name><name sortKey="Widmer, Franco" sort="Widmer, Franco" uniqKey="Widmer F" first="Franco" last="Widmer">Franco Widmer</name></noCountry><country name="Suisse"><noRegion><name sortKey="Frey, Beat" sort="Frey, Beat" uniqKey="Frey B" first="Beat" last="Frey">Beat Frey</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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