Temporal transcriptome analysis of the white-rot fungus Obba rivulosa shows expression of a constitutive set of plant cell wall degradation targeted genes during growth on solid spruce wood.
Identifieur interne : 000358 ( Main/Exploration ); précédent : 000357; suivant : 000359Temporal transcriptome analysis of the white-rot fungus Obba rivulosa shows expression of a constitutive set of plant cell wall degradation targeted genes during growth on solid spruce wood.
Auteurs : Mila Marinovi [Finlande] ; Maria Victoria Aguilar-Pontes [Pays-Bas] ; Miaomiao Zhou [Pays-Bas] ; Otto Miettinen [Finlande] ; Ronald P. De Vries [Pays-Bas] ; Miia R. M Kel [Finlande] ; Kristiina Hildén [Finlande]Source :
- Fungal genetics and biology : FG & B [ 1096-0937 ] ; 2018.
Descripteurs français
- KwdFr :
- Analyse de profil d'expression de gènes (MeSH), Bois (microbiologie), Cellules végétales (métabolisme), Hydrolases (biosynthèse), Hydrolases (génétique), Lignine (métabolisme), Paroi cellulaire (métabolisme), Polyporales (croissance et développement), Polyporales (enzymologie), Polyporales (génétique), Régulation de l'expression des gènes fongiques (MeSH).
- MESH :
- biosynthèse : Hydrolases.
- croissance et développement : Polyporales.
- enzymologie : Polyporales.
- génétique : Hydrolases, Polyporales.
- microbiologie : Bois.
- métabolisme : Cellules végétales, Lignine, Paroi cellulaire.
- Analyse de profil d'expression de gènes, Régulation de l'expression des gènes fongiques.
English descriptors
- KwdEn :
- Cell Wall (metabolism), Gene Expression Profiling (MeSH), Gene Expression Regulation, Fungal (MeSH), Hydrolases (biosynthesis), Hydrolases (genetics), Lignin (metabolism), Plant Cells (metabolism), Polyporales (enzymology), Polyporales (genetics), Polyporales (growth & development), Wood (microbiology).
- MESH :
- chemical , biosynthesis : Hydrolases.
- chemical , genetics : Hydrolases.
- enzymology : Polyporales.
- genetics : Polyporales.
- growth & development : Polyporales.
- metabolism : Cell Wall, Lignin, Plant Cells.
- microbiology : Wood.
- Gene Expression Profiling, Gene Expression Regulation, Fungal.
Abstract
The basidiomycete white-rot fungus Obba rivulosa, a close relative of Gelatoporia (Ceriporiopsis) subvermispora, is an efficient degrader of softwood. The dikaryotic O. rivulosa strain T241i (FBCC949) has been shown to selectively remove lignin from spruce wood prior to depolymerization of plant cell wall polysaccharides, thus possessing potential in biotechnological applications such as pretreatment of wood in pulp and paper industry. In this work, we studied the time-course of the conversion of spruce by the genome-sequenced monokaryotic O. rivulosa strain 3A-2, which is derived from the dikaryon T241i, to get insight into transcriptome level changes during prolonged solid state cultivation. During 8-week cultivation, O. rivulosa expressed a constitutive set of genes encoding putative plant cell wall degrading enzymes. High level of expression of the genes targeted towards all plant cell wall polymers was detected at 2-week time point, after which majority of the genes showed reduced expression. This implicated non-selective degradation of lignin by the O. rivulosa monokaryon and suggests high variation between mono- and dikaryotic strains of the white-rot fungi with respect to their abilities to convert plant cell wall polymers.
DOI: 10.1016/j.fgb.2017.07.004
PubMed: 28754284
Affiliations:
- Finlande, Pays-Bas
- Utrecht (province), Uusimaa
- Helsinki, Utrecht
- Université d'Helsinki, Université d'Utrecht
Links toward previous steps (curation, corpus...)
Le document en format XML
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De Vries</name><affiliation wicri:level="4"><nlm:affiliation>Division of Microbiology and Biotechnology, Department of Food and Environmental Sciences, University of Helsinki, Viikinkaari 9, Helsinki, Finland; Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands; Fungal Molecular Physiology, Utrecht University, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands.</nlm:affiliation><country xml:lang="fr">Pays-Bas</country><wicri:regionArea>Division of Microbiology and Biotechnology, Department of Food and Environmental Sciences, University of Helsinki, Viikinkaari 9, Helsinki, Finland; Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands; Fungal Molecular Physiology, Utrecht University, Uppsalalaan 8, 3584 CT Utrecht</wicri:regionArea><orgName type="university">Université d'Helsinki</orgName><placeName><settlement type="city">Helsinki</settlement><region type="région" nuts="2">Uusimaa</region></placeName></affiliation></author><author><name sortKey="M Kel, Miia R" sort="M Kel, Miia R" uniqKey="M Kel M" first="Miia R" last="M Kel">Miia R. M Kel</name><affiliation wicri:level="4"><nlm:affiliation>Division of Microbiology and Biotechnology, Department of Food and Environmental Sciences, University of Helsinki, Viikinkaari 9, Helsinki, Finland.</nlm:affiliation><country xml:lang="fr">Finlande</country><wicri:regionArea>Division of Microbiology and Biotechnology, Department of Food and Environmental Sciences, University of Helsinki, Viikinkaari 9, Helsinki</wicri:regionArea><orgName type="university">Université d'Helsinki</orgName><placeName><settlement type="city">Helsinki</settlement><region type="région" nuts="2">Uusimaa</region></placeName></affiliation></author><author><name sortKey="Hilden, Kristiina" sort="Hilden, Kristiina" uniqKey="Hilden K" first="Kristiina" last="Hildén">Kristiina Hildén</name><affiliation wicri:level="4"><nlm:affiliation>Division of Microbiology and Biotechnology, Department of Food and Environmental Sciences, University of Helsinki, Viikinkaari 9, Helsinki, Finland. Electronic address: kristiina.s.hilden@helsinki.fi.</nlm:affiliation><country xml:lang="fr">Finlande</country><wicri:regionArea>Division of Microbiology and Biotechnology, Department of Food and Environmental Sciences, University of Helsinki, Viikinkaari 9, Helsinki</wicri:regionArea><orgName type="university">Université d'Helsinki</orgName><placeName><settlement type="city">Helsinki</settlement><region type="région" nuts="2">Uusimaa</region></placeName></affiliation></author></analytic><series><title level="j">Fungal genetics and biology : FG & B</title><idno type="eISSN">1096-0937</idno><imprint><date when="2018" type="published">2018</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Cell Wall (metabolism)</term><term>Gene Expression Profiling (MeSH)</term><term>Gene Expression Regulation, Fungal (MeSH)</term><term>Hydrolases (biosynthesis)</term><term>Hydrolases (genetics)</term><term>Lignin (metabolism)</term><term>Plant Cells (metabolism)</term><term>Polyporales (enzymology)</term><term>Polyporales (genetics)</term><term>Polyporales (growth & development)</term><term>Wood (microbiology)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Analyse de profil d'expression de gènes (MeSH)</term><term>Bois (microbiologie)</term><term>Cellules végétales (métabolisme)</term><term>Hydrolases (biosynthèse)</term><term>Hydrolases (génétique)</term><term>Lignine (métabolisme)</term><term>Paroi cellulaire (métabolisme)</term><term>Polyporales (croissance et développement)</term><term>Polyporales (enzymologie)</term><term>Polyporales (génétique)</term><term>Régulation de l'expression des gènes fongiques (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="biosynthesis" xml:lang="en"><term>Hydrolases</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Hydrolases</term></keywords><keywords scheme="MESH" qualifier="biosynthèse" xml:lang="fr"><term>Hydrolases</term></keywords><keywords scheme="MESH" qualifier="croissance et développement" xml:lang="fr"><term>Polyporales</term></keywords><keywords scheme="MESH" qualifier="enzymologie" xml:lang="fr"><term>Polyporales</term></keywords><keywords scheme="MESH" qualifier="enzymology" xml:lang="en"><term>Polyporales</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Polyporales</term></keywords><keywords scheme="MESH" qualifier="growth & development" xml:lang="en"><term>Polyporales</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Hydrolases</term><term>Polyporales</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Cell Wall</term><term>Lignin</term><term>Plant Cells</term></keywords><keywords scheme="MESH" qualifier="microbiologie" xml:lang="fr"><term>Bois</term></keywords><keywords scheme="MESH" qualifier="microbiology" xml:lang="en"><term>Wood</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Cellules végétales</term><term>Lignine</term><term>Paroi cellulaire</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Gene Expression Profiling</term><term>Gene Expression Regulation, Fungal</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Analyse de profil d'expression de gènes</term><term>Régulation de l'expression des gènes fongiques</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">The basidiomycete white-rot fungus Obba rivulosa, a close relative of Gelatoporia (Ceriporiopsis) subvermispora, is an efficient degrader of softwood. The dikaryotic O. rivulosa strain T241i (FBCC949) has been shown to selectively remove lignin from spruce wood prior to depolymerization of plant cell wall polysaccharides, thus possessing potential in biotechnological applications such as pretreatment of wood in pulp and paper industry. In this work, we studied the time-course of the conversion of spruce by the genome-sequenced monokaryotic O. rivulosa strain 3A-2, which is derived from the dikaryon T241i, to get insight into transcriptome level changes during prolonged solid state cultivation. During 8-week cultivation, O. rivulosa expressed a constitutive set of genes encoding putative plant cell wall degrading enzymes. High level of expression of the genes targeted towards all plant cell wall polymers was detected at 2-week time point, after which majority of the genes showed reduced expression. This implicated non-selective degradation of lignin by the O. rivulosa monokaryon and suggests high variation between mono- and dikaryotic strains of the white-rot fungi with respect to their abilities to convert plant cell wall polymers.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">28754284</PMID><DateCompleted><Year>2019</Year><Month>01</Month><Day>28</Day></DateCompleted><DateRevised><Year>2019</Year><Month>01</Month><Day>28</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1096-0937</ISSN><JournalIssue CitedMedium="Internet"><Volume>112</Volume><PubDate><Year>2018</Year><Month>03</Month></PubDate></JournalIssue><Title>Fungal genetics and biology : FG & B</Title><ISOAbbreviation>Fungal Genet Biol</ISOAbbreviation></Journal><ArticleTitle>Temporal transcriptome analysis of the white-rot fungus Obba rivulosa shows expression of a constitutive set of plant cell wall degradation targeted genes during growth on solid spruce wood.</ArticleTitle><Pagination><MedlinePgn>47-54</MedlinePgn></Pagination><ELocationID EIdType="pii" ValidYN="Y">S1087-1845(17)30103-2</ELocationID><ELocationID EIdType="doi" ValidYN="Y">10.1016/j.fgb.2017.07.004</ELocationID><Abstract><AbstractText>The basidiomycete white-rot fungus Obba rivulosa, a close relative of Gelatoporia (Ceriporiopsis) subvermispora, is an efficient degrader of softwood. The dikaryotic O. rivulosa strain T241i (FBCC949) has been shown to selectively remove lignin from spruce wood prior to depolymerization of plant cell wall polysaccharides, thus possessing potential in biotechnological applications such as pretreatment of wood in pulp and paper industry. In this work, we studied the time-course of the conversion of spruce by the genome-sequenced monokaryotic O. rivulosa strain 3A-2, which is derived from the dikaryon T241i, to get insight into transcriptome level changes during prolonged solid state cultivation. During 8-week cultivation, O. rivulosa expressed a constitutive set of genes encoding putative plant cell wall degrading enzymes. High level of expression of the genes targeted towards all plant cell wall polymers was detected at 2-week time point, after which majority of the genes showed reduced expression. This implicated non-selective degradation of lignin by the O. rivulosa monokaryon and suggests high variation between mono- and dikaryotic strains of the white-rot fungi with respect to their abilities to convert plant cell wall polymers.</AbstractText><CopyrightInformation>Copyright © 2017 Elsevier Inc. All rights reserved.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Marinović</LastName><ForeName>Mila</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>Division of Microbiology and Biotechnology, Department of Food and Environmental Sciences, University of Helsinki, Viikinkaari 9, Helsinki, Finland.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Aguilar-Pontes</LastName><ForeName>Maria Victoria</ForeName><Initials>MV</Initials><AffiliationInfo><Affiliation>Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands; Fungal Molecular Physiology, Utrecht University, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zhou</LastName><ForeName>Miaomiao</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands; Fungal Molecular Physiology, Utrecht University, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Miettinen</LastName><ForeName>Otto</ForeName><Initials>O</Initials><AffiliationInfo><Affiliation>Finnish Museum of Natural History, University of Helsinki, Helsinki, Finland.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>de Vries</LastName><ForeName>Ronald P</ForeName><Initials>RP</Initials><AffiliationInfo><Affiliation>Division of Microbiology and Biotechnology, Department of Food and Environmental Sciences, University of Helsinki, Viikinkaari 9, Helsinki, Finland; Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands; Fungal Molecular Physiology, Utrecht University, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Mäkelä</LastName><ForeName>Miia R</ForeName><Initials>MR</Initials><AffiliationInfo><Affiliation>Division of Microbiology and Biotechnology, Department of Food and Environmental Sciences, University of Helsinki, Viikinkaari 9, Helsinki, Finland.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Hildén</LastName><ForeName>Kristiina</ForeName><Initials>K</Initials><AffiliationInfo><Affiliation>Division of Microbiology and Biotechnology, Department of Food and Environmental Sciences, University of Helsinki, Viikinkaari 9, Helsinki, Finland. Electronic address: kristiina.s.hilden@helsinki.fi.</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>2017</Year><Month>07</Month><Day>25</Day></ArticleDate></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>Fungal Genet Biol</MedlineTA><NlmUniqueID>9607601</NlmUniqueID><ISSNLinking>1087-1845</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>9005-53-2</RegistryNumber><NameOfSubstance UI="D008031">Lignin</NameOfSubstance></Chemical><Chemical><RegistryNumber>EC 3.-</RegistryNumber><NameOfSubstance UI="D006867">Hydrolases</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D002473" MajorTopicYN="N">Cell Wall</DescriptorName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D020869" MajorTopicYN="N">Gene Expression Profiling</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D015966" MajorTopicYN="Y">Gene Expression Regulation, Fungal</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D006867" MajorTopicYN="N">Hydrolases</DescriptorName><QualifierName UI="Q000096" MajorTopicYN="Y">biosynthesis</QualifierName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D008031" MajorTopicYN="N">Lignin</DescriptorName><QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D059828" MajorTopicYN="N">Plant Cells</DescriptorName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D020072" MajorTopicYN="N">Polyporales</DescriptorName><QualifierName UI="Q000201" MajorTopicYN="Y">enzymology</QualifierName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000254" MajorTopicYN="Y">growth & development</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D014934" MajorTopicYN="N">Wood</DescriptorName><QualifierName UI="Q000382" MajorTopicYN="Y">microbiology</QualifierName></MeshHeading></MeshHeadingList><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="Y">Lignocellulose</Keyword><Keyword MajorTopicYN="Y">Obba rivulosa</Keyword><Keyword MajorTopicYN="Y">Solid state cultivation</Keyword><Keyword MajorTopicYN="Y">Transcriptomics</Keyword><Keyword MajorTopicYN="Y">White-rot</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2017</Year><Month>05</Month><Day>31</Day></PubMedPubDate><PubMedPubDate PubStatus="revised"><Year>2017</Year><Month>07</Month><Day>10</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2017</Year><Month>07</Month><Day>13</Day></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2017</Year><Month>7</Month><Day>30</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2019</Year><Month>1</Month><Day>29</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2017</Year><Month>7</Month><Day>30</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">28754284</ArticleId><ArticleId IdType="pii">S1087-1845(17)30103-2</ArticleId><ArticleId IdType="doi">10.1016/j.fgb.2017.07.004</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>Finlande</li><li>Pays-Bas</li></country><region><li>Utrecht (province)</li><li>Uusimaa</li></region><settlement><li>Helsinki</li><li>Utrecht</li></settlement><orgName><li>Université d'Helsinki</li><li>Université d'Utrecht</li></orgName></list><tree><country name="Finlande"><region name="Uusimaa"><name sortKey="Marinovi, Mila" sort="Marinovi, Mila" uniqKey="Marinovi M" first="Mila" last="Marinovi">Mila Marinovi</name></region><name sortKey="Hilden, Kristiina" sort="Hilden, Kristiina" uniqKey="Hilden K" first="Kristiina" last="Hildén">Kristiina Hildén</name><name sortKey="M Kel, Miia R" sort="M Kel, Miia R" uniqKey="M Kel M" first="Miia R" last="M Kel">Miia R. M Kel</name><name sortKey="Miettinen, Otto" sort="Miettinen, Otto" uniqKey="Miettinen O" first="Otto" last="Miettinen">Otto Miettinen</name></country><country name="Pays-Bas"><region name="Utrecht (province)"><name sortKey="Aguilar Pontes, Maria Victoria" sort="Aguilar Pontes, Maria Victoria" uniqKey="Aguilar Pontes M" first="Maria Victoria" last="Aguilar-Pontes">Maria Victoria Aguilar-Pontes</name></region><name sortKey="De Vries, Ronald P" sort="De Vries, Ronald P" uniqKey="De Vries R" first="Ronald P" last="De Vries">Ronald P. De Vries</name><name sortKey="Zhou, Miaomiao" sort="Zhou, Miaomiao" uniqKey="Zhou M" first="Miaomiao" last="Zhou">Miaomiao Zhou</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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|texte= Temporal transcriptome analysis of the white-rot fungus Obba rivulosa shows expression of a constitutive set of plant cell wall degradation targeted genes during growth on solid spruce wood.
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