Linkage between bacterial and fungal rhizosphere communities in hydrocarbon-contaminated soils is related to plant phylogeny.
Identifieur interne : 001230 ( Main/Corpus ); précédent : 001229; suivant : 001231Linkage between bacterial and fungal rhizosphere communities in hydrocarbon-contaminated soils is related to plant phylogeny.
Auteurs : Terrence H. Bell ; Saad El-Din Hassan ; Aurélien Lauron-Moreau ; Fahad Al-Otaibi ; Mohamed Hijri ; Etienne Yergeau ; Marc St-ArnaudSource :
- The ISME journal [ 1751-7370 ] ; 2014.
English descriptors
- KwdEn :
- Bacteria (classification), Bacteria (genetics), Bacteria (metabolism), Biodegradation, Environmental (MeSH), DNA, Ribosomal Spacer (genetics), Fungi (classification), Fungi (genetics), Fungi (metabolism), Fungi (physiology), Hydrocarbons (metabolism), Phylogeny (MeSH), RNA, Ribosomal, 16S (genetics), Rhizosphere (MeSH), Salix (classification), Salix (microbiology), Soil (chemistry), Soil Microbiology (MeSH), Soil Pollutants (chemistry), Soil Pollutants (metabolism).
- MESH :
- chemical , chemistry : Soil, Soil Pollutants.
- chemical , genetics : DNA, Ribosomal Spacer, RNA, Ribosomal, 16S.
- classification : Bacteria, Fungi, Salix.
- genetics : Bacteria, Fungi.
- metabolism : Bacteria, Fungi, Hydrocarbons, Soil Pollutants.
- microbiology : Salix.
- physiology : Fungi.
- Biodegradation, Environmental, Phylogeny, Rhizosphere, Soil Microbiology.
Abstract
Phytoremediation is an attractive alternative to excavating and chemically treating contaminated soils. Certain plants can directly bioremediate by sequestering and/or transforming pollutants, but plants may also enhance bioremediation by promoting contaminant-degrading microorganisms in soils. In this study, we used high-throughput sequencing of bacterial 16S rRNA genes and the fungal internal transcribed spacer (ITS) region to compare the community composition of 66 soil samples from the rhizosphere of planted willows (Salix spp.) and six unplanted control samples at the site of a former petrochemical plant. The Bray-Curtis distance between bacterial communities across willow cultivars was significantly correlated with the distance between fungal communities in uncontaminated and moderately contaminated soils but not in highly contaminated (HC) soils (>2000 mg kg(-1) hydrocarbons). The mean dissimilarity between fungal, but not bacterial, communities from the rhizosphere of different cultivars increased substantially in the HC blocks. This divergence was partly related to high fungal sensitivity to hydrocarbon contaminants, as demonstrated by reduced Shannon diversity, but also to a stronger influence of willows on fungal communities. Abundance of the fungal class Pezizomycetes in HC soils was directly related to willow phylogeny, with Pezizomycetes dominating the rhizosphere of a monophyletic cluster of cultivars, while remaining in low relative abundance in other soils. This has implications for plant selection in phytoremediation, as fungal associations may affect the health of introduced plants and the success of co-inoculated microbial strains. An integrated understanding of the relationships between fungi, bacteria and plants will enable the design of treatments that specifically promote effective bioremediating communities.
DOI: 10.1038/ismej.2013.149
PubMed: 23985744
PubMed Central: PMC3906811
Links to Exploration step
pubmed:23985744Le document en format XML
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Bell</name><affiliation><nlm:affiliation>Biodiversity Centre, Institut de recherche en biologie végétale, Université de Montréal and Jardin botanique de Montréal, Montreal, Quebec, Canada.</nlm:affiliation></affiliation></author><author><name sortKey="El Din Hassan, Saad" sort="El Din Hassan, Saad" uniqKey="El Din Hassan S" first="Saad" last="El-Din Hassan">Saad El-Din Hassan</name><affiliation><nlm:affiliation>1] Biodiversity Centre, Institut de recherche en biologie végétale, Université de Montréal and Jardin botanique de Montréal, Montreal, Quebec, Canada [2] Department of Botany and Microbiology, Faculty of Science, Al-Azhar University, Nasr City, Egypt.</nlm:affiliation></affiliation></author><author><name sortKey="Lauron Moreau, Aurelien" sort="Lauron Moreau, Aurelien" uniqKey="Lauron Moreau A" first="Aurélien" last="Lauron-Moreau">Aurélien Lauron-Moreau</name><affiliation><nlm:affiliation>Biodiversity Centre, Institut de recherche en biologie végétale, Université de Montréal and Jardin botanique de Montréal, Montreal, Quebec, Canada.</nlm:affiliation></affiliation></author><author><name sortKey="Al Otaibi, Fahad" sort="Al Otaibi, Fahad" uniqKey="Al Otaibi F" first="Fahad" last="Al-Otaibi">Fahad Al-Otaibi</name><affiliation><nlm:affiliation>1] Biodiversity Centre, Institut de recherche en biologie végétale, Université de Montréal and Jardin botanique de Montréal, Montreal, Quebec, Canada [2] Department of Soil Science, King Saud University, Riyadh, Saudi Arabia.</nlm:affiliation></affiliation></author><author><name sortKey="Hijri, Mohamed" sort="Hijri, Mohamed" uniqKey="Hijri M" first="Mohamed" last="Hijri">Mohamed Hijri</name><affiliation><nlm:affiliation>Biodiversity Centre, Institut de recherche en biologie végétale, Université de Montréal and Jardin botanique de Montréal, Montreal, Quebec, Canada.</nlm:affiliation></affiliation></author><author><name sortKey="Yergeau, Etienne" sort="Yergeau, Etienne" uniqKey="Yergeau E" first="Etienne" last="Yergeau">Etienne Yergeau</name><affiliation><nlm:affiliation>National Research Council Canada, Energy, Mining and Environment, Montreal, Quebec, Canada.</nlm:affiliation></affiliation></author><author><name sortKey="St Arnaud, Marc" sort="St Arnaud, Marc" uniqKey="St Arnaud M" first="Marc" last="St-Arnaud">Marc St-Arnaud</name><affiliation><nlm:affiliation>Biodiversity Centre, Institut de recherche en biologie végétale, Université de Montréal and Jardin botanique de Montréal, Montreal, Quebec, Canada.</nlm:affiliation></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2014">2014</date><idno type="RBID">pubmed:23985744</idno><idno type="pmid">23985744</idno><idno type="doi">10.1038/ismej.2013.149</idno><idno type="pmc">PMC3906811</idno><idno type="wicri:Area/Main/Corpus">001230</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">001230</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Linkage between bacterial and fungal rhizosphere communities in hydrocarbon-contaminated soils is related to plant phylogeny.</title><author><name sortKey="Bell, Terrence H" sort="Bell, Terrence H" uniqKey="Bell T" first="Terrence H" last="Bell">Terrence H. Bell</name><affiliation><nlm:affiliation>Biodiversity Centre, Institut de recherche en biologie végétale, Université de Montréal and Jardin botanique de Montréal, Montreal, Quebec, Canada.</nlm:affiliation></affiliation></author><author><name sortKey="El Din Hassan, Saad" sort="El Din Hassan, Saad" uniqKey="El Din Hassan S" first="Saad" last="El-Din Hassan">Saad El-Din Hassan</name><affiliation><nlm:affiliation>1] Biodiversity Centre, Institut de recherche en biologie végétale, Université de Montréal and Jardin botanique de Montréal, Montreal, Quebec, Canada [2] Department of Botany and Microbiology, Faculty of Science, Al-Azhar University, Nasr City, Egypt.</nlm:affiliation></affiliation></author><author><name sortKey="Lauron Moreau, Aurelien" sort="Lauron Moreau, Aurelien" uniqKey="Lauron Moreau A" first="Aurélien" last="Lauron-Moreau">Aurélien Lauron-Moreau</name><affiliation><nlm:affiliation>Biodiversity Centre, Institut de recherche en biologie végétale, Université de Montréal and Jardin botanique de Montréal, Montreal, Quebec, Canada.</nlm:affiliation></affiliation></author><author><name sortKey="Al Otaibi, Fahad" sort="Al Otaibi, Fahad" uniqKey="Al Otaibi F" first="Fahad" last="Al-Otaibi">Fahad Al-Otaibi</name><affiliation><nlm:affiliation>1] Biodiversity Centre, Institut de recherche en biologie végétale, Université de Montréal and Jardin botanique de Montréal, Montreal, Quebec, Canada [2] Department of Soil Science, King Saud University, Riyadh, Saudi Arabia.</nlm:affiliation></affiliation></author><author><name sortKey="Hijri, Mohamed" sort="Hijri, Mohamed" uniqKey="Hijri M" first="Mohamed" last="Hijri">Mohamed Hijri</name><affiliation><nlm:affiliation>Biodiversity Centre, Institut de recherche en biologie végétale, Université de Montréal and Jardin botanique de Montréal, Montreal, Quebec, Canada.</nlm:affiliation></affiliation></author><author><name sortKey="Yergeau, Etienne" sort="Yergeau, Etienne" uniqKey="Yergeau E" first="Etienne" last="Yergeau">Etienne Yergeau</name><affiliation><nlm:affiliation>National Research Council Canada, Energy, Mining and Environment, Montreal, Quebec, Canada.</nlm:affiliation></affiliation></author><author><name sortKey="St Arnaud, Marc" sort="St Arnaud, Marc" uniqKey="St Arnaud M" first="Marc" last="St-Arnaud">Marc St-Arnaud</name><affiliation><nlm:affiliation>Biodiversity Centre, Institut de recherche en biologie végétale, Université de Montréal and Jardin botanique de Montréal, Montreal, Quebec, Canada.</nlm:affiliation></affiliation></author></analytic><series><title level="j">The ISME journal</title><idno type="eISSN">1751-7370</idno><imprint><date when="2014" type="published">2014</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Bacteria (classification)</term><term>Bacteria (genetics)</term><term>Bacteria (metabolism)</term><term>Biodegradation, Environmental (MeSH)</term><term>DNA, Ribosomal Spacer (genetics)</term><term>Fungi (classification)</term><term>Fungi (genetics)</term><term>Fungi (metabolism)</term><term>Fungi (physiology)</term><term>Hydrocarbons (metabolism)</term><term>Phylogeny (MeSH)</term><term>RNA, Ribosomal, 16S (genetics)</term><term>Rhizosphere (MeSH)</term><term>Salix (classification)</term><term>Salix (microbiology)</term><term>Soil (chemistry)</term><term>Soil Microbiology (MeSH)</term><term>Soil Pollutants (chemistry)</term><term>Soil Pollutants (metabolism)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>Soil</term><term>Soil Pollutants</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>DNA, Ribosomal Spacer</term><term>RNA, Ribosomal, 16S</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Bacteria</term><term>Fungi</term><term>Salix</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Bacteria</term><term>Fungi</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Bacteria</term><term>Fungi</term><term>Hydrocarbons</term><term>Soil Pollutants</term></keywords><keywords scheme="MESH" qualifier="microbiology" xml:lang="en"><term>Salix</term></keywords><keywords scheme="MESH" qualifier="physiology" xml:lang="en"><term>Fungi</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Biodegradation, Environmental</term><term>Phylogeny</term><term>Rhizosphere</term><term>Soil Microbiology</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Phytoremediation is an attractive alternative to excavating and chemically treating contaminated soils. Certain plants can directly bioremediate by sequestering and/or transforming pollutants, but plants may also enhance bioremediation by promoting contaminant-degrading microorganisms in soils. In this study, we used high-throughput sequencing of bacterial 16S rRNA genes and the fungal internal transcribed spacer (ITS) region to compare the community composition of 66 soil samples from the rhizosphere of planted willows (Salix spp.) and six unplanted control samples at the site of a former petrochemical plant. The Bray-Curtis distance between bacterial communities across willow cultivars was significantly correlated with the distance between fungal communities in uncontaminated and moderately contaminated soils but not in highly contaminated (HC) soils (>2000 mg kg(-1) hydrocarbons). The mean dissimilarity between fungal, but not bacterial, communities from the rhizosphere of different cultivars increased substantially in the HC blocks. This divergence was partly related to high fungal sensitivity to hydrocarbon contaminants, as demonstrated by reduced Shannon diversity, but also to a stronger influence of willows on fungal communities. Abundance of the fungal class Pezizomycetes in HC soils was directly related to willow phylogeny, with Pezizomycetes dominating the rhizosphere of a monophyletic cluster of cultivars, while remaining in low relative abundance in other soils. This has implications for plant selection in phytoremediation, as fungal associations may affect the health of introduced plants and the success of co-inoculated microbial strains. An integrated understanding of the relationships between fungi, bacteria and plants will enable the design of treatments that specifically promote effective bioremediating communities. </div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" IndexingMethod="Curated" Owner="NLM"><PMID Version="1">23985744</PMID><DateCompleted><Year>2014</Year><Month>04</Month><Day>03</Day></DateCompleted><DateRevised><Year>2020</Year><Month>03</Month><Day>05</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1751-7370</ISSN><JournalIssue CitedMedium="Internet"><Volume>8</Volume><Issue>2</Issue><PubDate><Year>2014</Year><Month>Feb</Month></PubDate></JournalIssue><Title>The ISME journal</Title><ISOAbbreviation>ISME J</ISOAbbreviation></Journal><ArticleTitle>Linkage between bacterial and fungal rhizosphere communities in hydrocarbon-contaminated soils is related to plant phylogeny.</ArticleTitle><Pagination><MedlinePgn>331-43</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1038/ismej.2013.149</ELocationID><Abstract><AbstractText>Phytoremediation is an attractive alternative to excavating and chemically treating contaminated soils. Certain plants can directly bioremediate by sequestering and/or transforming pollutants, but plants may also enhance bioremediation by promoting contaminant-degrading microorganisms in soils. In this study, we used high-throughput sequencing of bacterial 16S rRNA genes and the fungal internal transcribed spacer (ITS) region to compare the community composition of 66 soil samples from the rhizosphere of planted willows (Salix spp.) and six unplanted control samples at the site of a former petrochemical plant. The Bray-Curtis distance between bacterial communities across willow cultivars was significantly correlated with the distance between fungal communities in uncontaminated and moderately contaminated soils but not in highly contaminated (HC) soils (>2000 mg kg(-1) hydrocarbons). The mean dissimilarity between fungal, but not bacterial, communities from the rhizosphere of different cultivars increased substantially in the HC blocks. This divergence was partly related to high fungal sensitivity to hydrocarbon contaminants, as demonstrated by reduced Shannon diversity, but also to a stronger influence of willows on fungal communities. Abundance of the fungal class Pezizomycetes in HC soils was directly related to willow phylogeny, with Pezizomycetes dominating the rhizosphere of a monophyletic cluster of cultivars, while remaining in low relative abundance in other soils. This has implications for plant selection in phytoremediation, as fungal associations may affect the health of introduced plants and the success of co-inoculated microbial strains. An integrated understanding of the relationships between fungi, bacteria and plants will enable the design of treatments that specifically promote effective bioremediating communities. </AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Bell</LastName><ForeName>Terrence H</ForeName><Initials>TH</Initials><AffiliationInfo><Affiliation>Biodiversity Centre, Institut de recherche en biologie végétale, Université de Montréal and Jardin botanique de Montréal, Montreal, Quebec, Canada.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>El-Din Hassan</LastName><ForeName>Saad</ForeName><Initials>S</Initials><AffiliationInfo><Affiliation>1] Biodiversity Centre, Institut de recherche en biologie végétale, Université de Montréal and Jardin botanique de Montréal, Montreal, Quebec, Canada [2] Department of Botany and Microbiology, Faculty of Science, Al-Azhar University, Nasr City, Egypt.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Lauron-Moreau</LastName><ForeName>Aurélien</ForeName><Initials>A</Initials><AffiliationInfo><Affiliation>Biodiversity Centre, Institut de recherche en biologie végétale, Université de Montréal and Jardin botanique de Montréal, Montreal, Quebec, Canada.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Al-Otaibi</LastName><ForeName>Fahad</ForeName><Initials>F</Initials><AffiliationInfo><Affiliation>1] Biodiversity Centre, Institut de recherche en biologie végétale, Université de Montréal and Jardin botanique de Montréal, Montreal, Quebec, Canada [2] Department of Soil Science, King Saud University, Riyadh, Saudi Arabia.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Hijri</LastName><ForeName>Mohamed</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>Biodiversity Centre, Institut de recherche en biologie végétale, Université de Montréal and Jardin botanique de Montréal, Montreal, Quebec, Canada.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Yergeau</LastName><ForeName>Etienne</ForeName><Initials>E</Initials><Identifier Source="ORCID">0000000271123425</Identifier><AffiliationInfo><Affiliation>National Research Council Canada, Energy, Mining and Environment, Montreal, Quebec, Canada.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>St-Arnaud</LastName><ForeName>Marc</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>Biodiversity Centre, Institut de recherche en biologie végétale, Université de Montréal and Jardin botanique de Montréal, Montreal, Quebec, Canada.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList><ArticleDate 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MajorTopicYN="N">Bacteria</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D001673" MajorTopicYN="N">Biodegradation, Environmental</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D021903" MajorTopicYN="N">DNA, Ribosomal Spacer</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D005658" MajorTopicYN="N">Fungi</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName><QualifierName UI="Q000502" MajorTopicYN="Y">physiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D006838" MajorTopicYN="N">Hydrocarbons</DescriptorName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D010802" MajorTopicYN="Y">Phylogeny</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D012336" MajorTopicYN="N">RNA, Ribosomal, 16S</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D058441" MajorTopicYN="Y">Rhizosphere</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D032108" MajorTopicYN="Y">Salix</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName><QualifierName UI="Q000382" MajorTopicYN="N">microbiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D012987" MajorTopicYN="N">Soil</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D012988" MajorTopicYN="Y">Soil 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