PoplarV1, Main, Exploration, bibRecord, 001788

Lignin engineering in field-grown poplar trees affects the endosphere bacterial microbiome.

Identifieur interne : 001788 ( Main/Exploration ); précédent : 001787; suivant : 001789

Lignin engineering in field-grown poplar trees affects the endosphere bacterial microbiome.

Auteurs : Bram Beckers [Belgique] ; Michiel Op De Beeck [Suède] ; Nele Weyens [Belgique] ; Rebecca Van Acker [Belgique] ; Marc Van Montagu [Belgique] ; Wout Boerjan [Belgique] ; Jaco Vangronsveld [Belgique]

Source :

Proceedings of the National Academy of Sciences of the United States of America [ 1091-6490 ] ; 2016.

RBID : pubmed:26755604

Descripteurs français

KwdFr :
- Acides coumariques (métabolisme), Aldehyde oxidoreductases (antagonistes et inhibiteurs), Aldehyde oxidoreductases (génétique), Aldehyde oxidoreductases (métabolisme), Arbres (génétique), Arbres (microbiologie), Arbres (métabolisme), Bactéries (isolement et purification), Bactéries (métabolisme), Biomasse (MeSH), Charge bactérienne (MeSH), Génie génétique (MeSH), Lignine (métabolisme), Microbiote (MeSH), Populus (génétique), Populus (microbiologie), Populus (métabolisme), Protéines végétales (antagonistes et inhibiteurs), Protéines végétales (génétique), Protéines végétales (métabolisme), Régulation de l'expression des gènes codant pour des enzymes (MeSH), Régulation de l'expression des gènes végétaux (MeSH), Symbiose (MeSH), Végétaux génétiquement modifiés (MeSH).
MESH :
- antagonistes et inhibiteurs : Aldehyde oxidoreductases, Protéines végétales.
- génétique : Aldehyde oxidoreductases, Arbres, Populus, Protéines végétales.
- isolement et purification : Bactéries.
- microbiologie : Arbres, Populus.
- métabolisme : Acides coumariques, Aldehyde oxidoreductases, Arbres, Bactéries, Lignine, Populus, Protéines végétales.
- Biomasse, Charge bactérienne, Génie génétique, Microbiote, Régulation de l'expression des gènes codant pour des enzymes, Régulation de l'expression des gènes végétaux, Symbiose, Végétaux génétiquement modifiés.

English descriptors

KwdEn :
- Aldehyde Oxidoreductases (antagonists & inhibitors), Aldehyde Oxidoreductases (genetics), Aldehyde Oxidoreductases (metabolism), Bacteria (isolation & purification), Bacteria (metabolism), Bacterial Load (MeSH), Biomass (MeSH), Coumaric Acids (metabolism), Gene Expression Regulation, Enzymologic (MeSH), Gene Expression Regulation, Plant (MeSH), Genetic Engineering (MeSH), Lignin (metabolism), Microbiota (MeSH), Plant Proteins (antagonists & inhibitors), Plant Proteins (genetics), Plant Proteins (metabolism), Plants, Genetically Modified (MeSH), Populus (genetics), Populus (metabolism), Populus (microbiology), Symbiosis (MeSH), Trees (genetics), Trees (metabolism), Trees (microbiology).
MESH :
- chemical , antagonists & inhibitors : Aldehyde Oxidoreductases, Plant Proteins.
- chemical , genetics : Aldehyde Oxidoreductases, Plant Proteins.
- chemical , metabolism : Aldehyde Oxidoreductases, Coumaric Acids, Lignin, Plant Proteins.
- genetics : Populus, Trees.
- isolation & purification : Bacteria.
- metabolism : Bacteria, Populus, Trees.
- microbiology : Populus, Trees.
- Bacterial Load, Biomass, Gene Expression Regulation, Enzymologic, Gene Expression Regulation, Plant, Genetic Engineering, Microbiota, Plants, Genetically Modified, Symbiosis.

Abstract

Cinnamoyl-CoA reductase (CCR), an enzyme central to the lignin biosynthetic pathway, represents a promising biotechnological target to reduce lignin levels and to improve the commercial viability of lignocellulosic biomass. However, silencing of the CCR gene results in considerable flux changes of the general and monolignol-specific lignin pathways, ultimately leading to the accumulation of various extractable phenolic compounds in the xylem. Here, we evaluated host genotype-dependent effects of field-grown, CCR-down-regulated poplar trees (Populus tremula × Populus alba) on the bacterial rhizosphere microbiome and the endosphere microbiome, namely the microbiota present in roots, stems, and leaves. Plant-associated bacteria were isolated from all plant compartments by selective isolation and enrichment techniques with specific phenolic carbon sources (such as ferulic acid) that are up-regulated in CCR-deficient poplar trees. The bacterial microbiomes present in the endosphere were highly responsive to the CCR-deficient poplar genotype with remarkably different metabolic capacities and associated community structures compared with the WT trees. In contrast, the rhizosphere microbiome of CCR-deficient and WT poplar trees featured highly overlapping bacterial community structures and metabolic capacities. We demonstrate the host genotype modulation of the plant microbiome by minute genetic variations in the plant genome. Hence, these interactions need to be taken into consideration to understand the full consequences of plant metabolic pathway engineering and its relation with the environment and the intended genetic improvement.

DOI: 10.1073/pnas.1523264113
PubMed: 26755604
PubMed Central: PMC4776533

Affiliations:

Links toward previous steps (curation, corpus...)

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Le document en format XML

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<profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Aldehyde Oxidoreductases (antagonists & inhibitors)</term>
<term>Aldehyde Oxidoreductases (genetics)</term>
<term>Aldehyde Oxidoreductases (metabolism)</term>
<term>Bacteria (isolation & purification)</term>
<term>Bacteria (metabolism)</term>
<term>Bacterial Load (MeSH)</term>
<term>Biomass (MeSH)</term>
<term>Coumaric Acids (metabolism)</term>
<term>Gene Expression Regulation, Enzymologic (MeSH)</term>
<term>Gene Expression Regulation, Plant (MeSH)</term>
<term>Genetic Engineering (MeSH)</term>
<term>Lignin (metabolism)</term>
<term>Microbiota (MeSH)</term>
<term>Plant Proteins (antagonists & inhibitors)</term>
<term>Plant Proteins (genetics)</term>
<term>Plant Proteins (metabolism)</term>
<term>Plants, Genetically Modified (MeSH)</term>
<term>Populus (genetics)</term>
<term>Populus (metabolism)</term>
<term>Populus (microbiology)</term>
<term>Symbiosis (MeSH)</term>
<term>Trees (genetics)</term>
<term>Trees (metabolism)</term>
<term>Trees (microbiology)</term>
</keywords>
<keywords scheme="KwdFr" xml:lang="fr"><term>Acides coumariques (métabolisme)</term>
<term>Aldehyde oxidoreductases (antagonistes et inhibiteurs)</term>
<term>Aldehyde oxidoreductases (génétique)</term>
<term>Aldehyde oxidoreductases (métabolisme)</term>
<term>Arbres (génétique)</term>
<term>Arbres (microbiologie)</term>
<term>Arbres (métabolisme)</term>
<term>Bactéries (isolement et purification)</term>
<term>Bactéries (métabolisme)</term>
<term>Biomasse (MeSH)</term>
<term>Charge bactérienne (MeSH)</term>
<term>Génie génétique (MeSH)</term>
<term>Lignine (métabolisme)</term>
<term>Microbiote (MeSH)</term>
<term>Populus (génétique)</term>
<term>Populus (microbiologie)</term>
<term>Populus (métabolisme)</term>
<term>Protéines végétales (antagonistes et inhibiteurs)</term>
<term>Protéines végétales (génétique)</term>
<term>Protéines végétales (métabolisme)</term>
<term>Régulation de l'expression des gènes codant pour des enzymes (MeSH)</term>
<term>Régulation de l'expression des gènes végétaux (MeSH)</term>
<term>Symbiose (MeSH)</term>
<term>Végétaux génétiquement modifiés (MeSH)</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="antagonists & inhibitors" xml:lang="en"><term>Aldehyde Oxidoreductases</term>
<term>Plant Proteins</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Aldehyde Oxidoreductases</term>
<term>Plant Proteins</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>Aldehyde Oxidoreductases</term>
<term>Coumaric Acids</term>
<term>Lignin</term>
<term>Plant Proteins</term>
</keywords>
<keywords scheme="MESH" qualifier="antagonistes et inhibiteurs" xml:lang="fr"><term>Aldehyde oxidoreductases</term>
<term>Protéines végétales</term>
</keywords>
<keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Populus</term>
<term>Trees</term>
</keywords>
<keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Aldehyde oxidoreductases</term>
<term>Arbres</term>
<term>Populus</term>
<term>Protéines végétales</term>
</keywords>
<keywords scheme="MESH" qualifier="isolation & purification" xml:lang="en"><term>Bacteria</term>
</keywords>
<keywords scheme="MESH" qualifier="isolement et purification" xml:lang="fr"><term>Bactéries</term>
</keywords>
<keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Bacteria</term>
<term>Populus</term>
<term>Trees</term>
</keywords>
<keywords scheme="MESH" qualifier="microbiologie" xml:lang="fr"><term>Arbres</term>
<term>Populus</term>
</keywords>
<keywords scheme="MESH" qualifier="microbiology" xml:lang="en"><term>Populus</term>
<term>Trees</term>
</keywords>
<keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Acides coumariques</term>
<term>Aldehyde oxidoreductases</term>
<term>Arbres</term>
<term>Bactéries</term>
<term>Lignine</term>
<term>Populus</term>
<term>Protéines végétales</term>
</keywords>
<keywords scheme="MESH" xml:lang="en"><term>Bacterial Load</term>
<term>Biomass</term>
<term>Gene Expression Regulation, Enzymologic</term>
<term>Gene Expression Regulation, Plant</term>
<term>Genetic Engineering</term>
<term>Microbiota</term>
<term>Plants, Genetically Modified</term>
<term>Symbiosis</term>
</keywords>
<keywords scheme="MESH" xml:lang="fr"><term>Biomasse</term>
<term>Charge bactérienne</term>
<term>Génie génétique</term>
<term>Microbiote</term>
<term>Régulation de l'expression des gènes codant pour des enzymes</term>
<term>Régulation de l'expression des gènes végétaux</term>
<term>Symbiose</term>
<term>Végétaux génétiquement modifiés</term>
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<front><div type="abstract" xml:lang="en">Cinnamoyl-CoA reductase (CCR), an enzyme central to the lignin biosynthetic pathway, represents a promising biotechnological target to reduce lignin levels and to improve the commercial viability of lignocellulosic biomass. However, silencing of the CCR gene results in considerable flux changes of the general and monolignol-specific lignin pathways, ultimately leading to the accumulation of various extractable phenolic compounds in the xylem. Here, we evaluated host genotype-dependent effects of field-grown, CCR-down-regulated poplar trees (Populus tremula × Populus alba) on the bacterial rhizosphere microbiome and the endosphere microbiome, namely the microbiota present in roots, stems, and leaves. Plant-associated bacteria were isolated from all plant compartments by selective isolation and enrichment techniques with specific phenolic carbon sources (such as ferulic acid) that are up-regulated in CCR-deficient poplar trees. The bacterial microbiomes present in the endosphere were highly responsive to the CCR-deficient poplar genotype with remarkably different metabolic capacities and associated community structures compared with the WT trees. In contrast, the rhizosphere microbiome of CCR-deficient and WT poplar trees featured highly overlapping bacterial community structures and metabolic capacities. We demonstrate the host genotype modulation of the plant microbiome by minute genetic variations in the plant genome. Hence, these interactions need to be taken into consideration to understand the full consequences of plant metabolic pathway engineering and its relation with the environment and the intended genetic improvement. </div>
</front>
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<Abstract><AbstractText>Cinnamoyl-CoA reductase (CCR), an enzyme central to the lignin biosynthetic pathway, represents a promising biotechnological target to reduce lignin levels and to improve the commercial viability of lignocellulosic biomass. However, silencing of the CCR gene results in considerable flux changes of the general and monolignol-specific lignin pathways, ultimately leading to the accumulation of various extractable phenolic compounds in the xylem. Here, we evaluated host genotype-dependent effects of field-grown, CCR-down-regulated poplar trees (Populus tremula × Populus alba) on the bacterial rhizosphere microbiome and the endosphere microbiome, namely the microbiota present in roots, stems, and leaves. Plant-associated bacteria were isolated from all plant compartments by selective isolation and enrichment techniques with specific phenolic carbon sources (such as ferulic acid) that are up-regulated in CCR-deficient poplar trees. The bacterial microbiomes present in the endosphere were highly responsive to the CCR-deficient poplar genotype with remarkably different metabolic capacities and associated community structures compared with the WT trees. In contrast, the rhizosphere microbiome of CCR-deficient and WT poplar trees featured highly overlapping bacterial community structures and metabolic capacities. We demonstrate the host genotype modulation of the plant microbiome by minute genetic variations in the plant genome. Hence, these interactions need to be taken into consideration to understand the full consequences of plant metabolic pathway engineering and its relation with the environment and the intended genetic improvement. </AbstractText>
</Abstract>
<AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Beckers</LastName>
<ForeName>Bram</ForeName>
<Initials>B</Initials>
<AffiliationInfo><Affiliation>Centre for Environmental Sciences, Hasselt University, B-3590 Diepenbeek, Belgium;</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Op De Beeck</LastName>
<ForeName>Michiel</ForeName>
<Initials>M</Initials>
<AffiliationInfo><Affiliation>Centre for Environmental Sciences, Hasselt University, B-3590 Diepenbeek, Belgium; Department of Biology, Lund University, SE-22 362 Lund, Sweden;</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Weyens</LastName>
<ForeName>Nele</ForeName>
<Initials>N</Initials>
<AffiliationInfo><Affiliation>Centre for Environmental Sciences, Hasselt University, B-3590 Diepenbeek, Belgium;</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Van Acker</LastName>
<ForeName>Rebecca</ForeName>
<Initials>R</Initials>
<AffiliationInfo><Affiliation>Department of Plant Systems Biology, VIB, B-9052 Ghent, Belgium; Department of Plant Biotechnology and Bioinformatics, Ghent University, B-9052 Ghent, Belgium.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Van Montagu</LastName>
<ForeName>Marc</ForeName>
<Initials>M</Initials>
<AffiliationInfo><Affiliation>Department of Plant Systems Biology, VIB, B-9052 Ghent, Belgium; Department of Plant Biotechnology and Bioinformatics, Ghent University, B-9052 Ghent, Belgium marc.vanmontagu@ugent.be wout.boerjan@psb.vib-ugent.be jaco.vangronsveld@uhasselt.be.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Boerjan</LastName>
<ForeName>Wout</ForeName>
<Initials>W</Initials>
<AffiliationInfo><Affiliation>Department of Plant Systems Biology, VIB, B-9052 Ghent, Belgium; Department of Plant Biotechnology and Bioinformatics, Ghent University, B-9052 Ghent, Belgium marc.vanmontagu@ugent.be wout.boerjan@psb.vib-ugent.be jaco.vangronsveld@uhasselt.be.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Vangronsveld</LastName>
<ForeName>Jaco</ForeName>
<Initials>J</Initials>
<AffiliationInfo><Affiliation>Centre for Environmental Sciences, Hasselt University, B-3590 Diepenbeek, Belgium; marc.vanmontagu@ugent.be wout.boerjan@psb.vib-ugent.be jaco.vangronsveld@uhasselt.be.</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 DateType="Electronic"><Year>2016</Year>
<Month>01</Month>
<Day>11</Day>
</ArticleDate>
</Article>
<MedlineJournalInfo><Country>United States</Country>
<MedlineTA>Proc Natl Acad Sci U S A</MedlineTA>
<NlmUniqueID>7505876</NlmUniqueID>
<ISSNLinking>0027-8424</ISSNLinking>
</MedlineJournalInfo>
<ChemicalList><Chemical><RegistryNumber>0</RegistryNumber>
<NameOfSubstance UI="D003373">Coumaric Acids</NameOfSubstance>
</Chemical>
<Chemical><RegistryNumber>0</RegistryNumber>
<NameOfSubstance UI="D010940">Plant Proteins</NameOfSubstance>
</Chemical>
<Chemical><RegistryNumber>9005-53-2</RegistryNumber>
<NameOfSubstance UI="D008031">Lignin</NameOfSubstance>
</Chemical>
<Chemical><RegistryNumber>AVM951ZWST</RegistryNumber>
<NameOfSubstance UI="C004999">ferulic acid</NameOfSubstance>
</Chemical>
<Chemical><RegistryNumber>EC 1.2.-</RegistryNumber>
<NameOfSubstance UI="D000445">Aldehyde Oxidoreductases</NameOfSubstance>
</Chemical>
<Chemical><RegistryNumber>EC 1.2.1.44</RegistryNumber>
<NameOfSubstance UI="C019904">cinnamoyl CoA reductase</NameOfSubstance>
</Chemical>
</ChemicalList>
<CitationSubset>IM</CitationSubset>
<MeshHeadingList><MeshHeading><DescriptorName UI="D000445" MajorTopicYN="N">Aldehyde Oxidoreductases</DescriptorName>
<QualifierName UI="Q000037" MajorTopicYN="N">antagonists & inhibitors</QualifierName>
<QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName>
<QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D001419" MajorTopicYN="N">Bacteria</DescriptorName>
<QualifierName UI="Q000302" MajorTopicYN="N">isolation & purification</QualifierName>
<QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D058491" MajorTopicYN="N">Bacterial Load</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D018533" MajorTopicYN="N">Biomass</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D003373" MajorTopicYN="N">Coumaric Acids</DescriptorName>
<QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D015971" MajorTopicYN="N">Gene Expression Regulation, Enzymologic</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D018506" MajorTopicYN="N">Gene Expression Regulation, Plant</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D005818" MajorTopicYN="N">Genetic Engineering</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D008031" MajorTopicYN="N">Lignin</DescriptorName>
<QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D064307" MajorTopicYN="Y">Microbiota</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D010940" MajorTopicYN="N">Plant Proteins</DescriptorName>
<QualifierName UI="Q000037" MajorTopicYN="N">antagonists & inhibitors</QualifierName>
<QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName>
<QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D030821" MajorTopicYN="N">Plants, Genetically Modified</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName>
<QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName>
<QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName>
<QualifierName UI="Q000382" MajorTopicYN="Y">microbiology</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D013559" MajorTopicYN="N">Symbiosis</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D014197" MajorTopicYN="N">Trees</DescriptorName>
<QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName>
<QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName>
<QualifierName UI="Q000382" MajorTopicYN="N">microbiology</QualifierName>
</MeshHeading>
</MeshHeadingList>
<KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">CCR gene silencing</Keyword>
<Keyword MajorTopicYN="N">host genotype modulation</Keyword>
<Keyword MajorTopicYN="N">plant-associated bacteria</Keyword>
</KeywordList>
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Lignin engineering in field-grown poplar trees affects the endosphere bacterial microbiome.

Lignin engineering in field-grown poplar trees affects the endosphere bacterial microbiome.

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