Carbohydrate-related enzymes of important Phytophthora plant pathogens.
Identifieur interne : 001147 ( Main/Exploration ); précédent : 001146; suivant : 001148Carbohydrate-related enzymes of important Phytophthora plant pathogens.
Auteurs : Henk Brouwer [Pays-Bas] ; Pedro M. Coutinho [France] ; Bernard Henrissat [Arabie saoudite] ; Ronald P. De Vries [Pays-Bas]Source :
- Fungal genetics and biology : FG & B [ 1096-0937 ] ; 2014.
Descripteurs français
- KwdFr :
- Biologie informatique (MeSH), Carbone (métabolisme), Glycosidases (génétique), Glycosidases (métabolisme), Génome fongique (MeSH), Milieux de culture (composition chimique), Phytophthora (croissance et développement), Phytophthora (enzymologie), Phytophthora (génétique), Pythium (croissance et développement), Pythium (enzymologie), Pythium (génétique).
- MESH :
- composition chimique : Milieux de culture.
- croissance et développement : Phytophthora, Pythium.
- enzymologie : Phytophthora, Pythium.
- génétique : Glycosidases, Phytophthora, Pythium.
- métabolisme : Carbone, Glycosidases.
- Biologie informatique, Génome fongique.
English descriptors
- KwdEn :
- Carbon (metabolism), Computational Biology (MeSH), Culture Media (chemistry), Genome, Fungal (MeSH), Glycoside Hydrolases (genetics), Glycoside Hydrolases (metabolism), Phytophthora (enzymology), Phytophthora (genetics), Phytophthora (growth & development), Pythium (enzymology), Pythium (genetics), Pythium (growth & development).
- MESH :
- chemical , chemistry : Culture Media.
- chemical , genetics : Glycoside Hydrolases.
- chemical , metabolism : Carbon, Glycoside Hydrolases.
- enzymology : Phytophthora, Pythium.
- genetics : Phytophthora, Pythium.
- growth & development : Phytophthora, Pythium.
- Computational Biology, Genome, Fungal.
Abstract
Carbohydrate-Active enZymes (CAZymes) form particularly interesting targets to study in plant pathogens. Despite the fact that many CAZymes are pathogenicity factors, oomycete CAZymes have received significantly less attention than effectors in the literature. Here we present an analysis of the CAZymes present in the Phytophthora infestans, Ph. ramorum, Ph. sojae and Pythium ultimum genomes compared to growth of these species on a range of different carbon sources. Growth on these carbon sources indicates that the size of enzyme families involved in degradation of cell-wall related substrates like cellulose, xylan and pectin is not always a good predictor of growth on these substrates. While a capacity to degrade xylan and cellulose exists the products are not fully saccharified and used as a carbon source. The Phytophthora genomes encode larger CAZyme sets when compared to Py. ultimum, and encode putative cutinases, GH12 xyloglucanases and GH10 xylanases that are missing in the Py. ultimum genome. Phytophthora spp. also encode a larger number of enzyme families and genes involved in pectin degradation. No loss or gain of complete enzyme families was found between the Phytophthora genomes, but there are some marked differences in the size of some enzyme families.
DOI: 10.1016/j.fgb.2014.08.011
PubMed: 25192612
Affiliations:
- Arabie saoudite, France, Pays-Bas
- Provence-Alpes-Côte d'Azur, Utrecht (province)
- Marseille, Utrecht
- Université d'Utrecht
Links toward previous steps (curation, corpus...)
Le document en format XML
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Coutinho</name><affiliation wicri:level="3"><nlm:affiliation>Architecture et Fonction des Macromolecules Biologiques, UMR7257, CNRS, Univ. Aix-Marseille I & II, 163 Avenue de Luminy, 13288 Marseille, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>Architecture et Fonction des Macromolecules Biologiques, UMR7257, CNRS, Univ. Aix-Marseille I & II, 163 Avenue de Luminy, 13288 Marseille</wicri:regionArea><placeName><region type="region" nuts="2">Provence-Alpes-Côte d'Azur</region><settlement type="city">Marseille</settlement></placeName></affiliation></author><author><name sortKey="Henrissat, Bernard" sort="Henrissat, Bernard" uniqKey="Henrissat B" first="Bernard" last="Henrissat">Bernard Henrissat</name><affiliation wicri:level="1"><nlm:affiliation>Architecture et Fonction des Macromolecules Biologiques, UMR7257, CNRS, Univ. 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Electronic address: r.devries@cbs.knaw.nl.</nlm:affiliation><country xml:lang="fr">Pays-Bas</country><wicri:regionArea>CBS-KNAW, Fungal Biodiversity Centre, Uppsalalaan 8, Utrecht 3584 CT, The Netherlands; Fungal Molecular Physiology, Utrecht University, Uppsalalaan 8, 3584 CT Utrecht</wicri:regionArea><orgName type="university">Université d'Utrecht</orgName><placeName><settlement type="city">Utrecht</settlement><region nuts="2">Utrecht (province)</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="2014" type="published">2014</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Carbon (metabolism)</term><term>Computational Biology (MeSH)</term><term>Culture Media (chemistry)</term><term>Genome, Fungal (MeSH)</term><term>Glycoside Hydrolases (genetics)</term><term>Glycoside Hydrolases (metabolism)</term><term>Phytophthora (enzymology)</term><term>Phytophthora (genetics)</term><term>Phytophthora (growth & development)</term><term>Pythium (enzymology)</term><term>Pythium (genetics)</term><term>Pythium (growth & development)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Biologie informatique (MeSH)</term><term>Carbone (métabolisme)</term><term>Glycosidases (génétique)</term><term>Glycosidases (métabolisme)</term><term>Génome fongique (MeSH)</term><term>Milieux de culture (composition chimique)</term><term>Phytophthora (croissance et développement)</term><term>Phytophthora (enzymologie)</term><term>Phytophthora (génétique)</term><term>Pythium (croissance et développement)</term><term>Pythium (enzymologie)</term><term>Pythium (génétique)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>Culture Media</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Glycoside Hydrolases</term></keywords><keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>Carbon</term><term>Glycoside Hydrolases</term></keywords><keywords scheme="MESH" qualifier="composition chimique" xml:lang="fr"><term>Milieux de culture</term></keywords><keywords scheme="MESH" qualifier="croissance et développement" xml:lang="fr"><term>Phytophthora</term><term>Pythium</term></keywords><keywords scheme="MESH" qualifier="enzymologie" xml:lang="fr"><term>Phytophthora</term><term>Pythium</term></keywords><keywords scheme="MESH" qualifier="enzymology" xml:lang="en"><term>Phytophthora</term><term>Pythium</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Phytophthora</term><term>Pythium</term></keywords><keywords scheme="MESH" qualifier="growth & development" xml:lang="en"><term>Phytophthora</term><term>Pythium</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Glycosidases</term><term>Phytophthora</term><term>Pythium</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Carbone</term><term>Glycosidases</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Computational Biology</term><term>Genome, Fungal</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Biologie informatique</term><term>Génome fongique</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Carbohydrate-Active enZymes (CAZymes) form particularly interesting targets to study in plant pathogens. Despite the fact that many CAZymes are pathogenicity factors, oomycete CAZymes have received significantly less attention than effectors in the literature. Here we present an analysis of the CAZymes present in the Phytophthora infestans, Ph. ramorum, Ph. sojae and Pythium ultimum genomes compared to growth of these species on a range of different carbon sources. Growth on these carbon sources indicates that the size of enzyme families involved in degradation of cell-wall related substrates like cellulose, xylan and pectin is not always a good predictor of growth on these substrates. While a capacity to degrade xylan and cellulose exists the products are not fully saccharified and used as a carbon source. The Phytophthora genomes encode larger CAZyme sets when compared to Py. ultimum, and encode putative cutinases, GH12 xyloglucanases and GH10 xylanases that are missing in the Py. ultimum genome. Phytophthora spp. also encode a larger number of enzyme families and genes involved in pectin degradation. No loss or gain of complete enzyme families was found between the Phytophthora genomes, but there are some marked differences in the size of some enzyme families. </div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">25192612</PMID><DateCompleted><Year>2015</Year><Month>07</Month><Day>15</Day></DateCompleted><DateRevised><Year>2017</Year><Month>08</Month><Day>30</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1096-0937</ISSN><JournalIssue CitedMedium="Internet"><Volume>72</Volume><PubDate><Year>2014</Year><Month>Nov</Month></PubDate></JournalIssue><Title>Fungal genetics and biology : FG & B</Title><ISOAbbreviation>Fungal Genet Biol</ISOAbbreviation></Journal><ArticleTitle>Carbohydrate-related enzymes of important Phytophthora plant pathogens.</ArticleTitle><Pagination><MedlinePgn>192-200</MedlinePgn></Pagination><ELocationID EIdType="pii" ValidYN="Y">S1087-1845(14)00154-6</ELocationID><ELocationID EIdType="doi" ValidYN="Y">10.1016/j.fgb.2014.08.011</ELocationID><Abstract><AbstractText>Carbohydrate-Active enZymes (CAZymes) form particularly interesting targets to study in plant pathogens. Despite the fact that many CAZymes are pathogenicity factors, oomycete CAZymes have received significantly less attention than effectors in the literature. Here we present an analysis of the CAZymes present in the Phytophthora infestans, Ph. ramorum, Ph. sojae and Pythium ultimum genomes compared to growth of these species on a range of different carbon sources. Growth on these carbon sources indicates that the size of enzyme families involved in degradation of cell-wall related substrates like cellulose, xylan and pectin is not always a good predictor of growth on these substrates. While a capacity to degrade xylan and cellulose exists the products are not fully saccharified and used as a carbon source. The Phytophthora genomes encode larger CAZyme sets when compared to Py. ultimum, and encode putative cutinases, GH12 xyloglucanases and GH10 xylanases that are missing in the Py. ultimum genome. Phytophthora spp. also encode a larger number of enzyme families and genes involved in pectin degradation. No loss or gain of complete enzyme families was found between the Phytophthora genomes, but there are some marked differences in the size of some enzyme families. </AbstractText><CopyrightInformation>Copyright © 2014 Elsevier Inc. All rights reserved.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Brouwer</LastName><ForeName>Henk</ForeName><Initials>H</Initials><AffiliationInfo><Affiliation>CBS-KNAW, Fungal Biodiversity Centre, Uppsalalaan 8, Utrecht 3584 CT, The Netherlands.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Coutinho</LastName><ForeName>Pedro M</ForeName><Initials>PM</Initials><AffiliationInfo><Affiliation>Architecture et Fonction des Macromolecules Biologiques, UMR7257, CNRS, Univ. Aix-Marseille I & II, 163 Avenue de Luminy, 13288 Marseille, France.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Henrissat</LastName><ForeName>Bernard</ForeName><Initials>B</Initials><AffiliationInfo><Affiliation>Architecture et Fonction des Macromolecules Biologiques, UMR7257, CNRS, Univ. Aix-Marseille I & II, 163 Avenue de Luminy, 13288 Marseille, France; Department of Biological Sciences, Faculty of Science, King Abdulaziz University, Jeddah, Saudi Arabia.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>de Vries</LastName><ForeName>Ronald P</ForeName><Initials>RP</Initials><AffiliationInfo><Affiliation>CBS-KNAW, Fungal Biodiversity Centre, Uppsalalaan 8, Utrecht 3584 CT, The Netherlands; Fungal Molecular Physiology, Utrecht University, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands. Electronic address: r.devries@cbs.knaw.nl.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D003160">Comparative Study</PublicationType><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2014</Year><Month>09</Month><Day>03</Day></ArticleDate></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>Fungal Genet Biol</MedlineTA><NlmUniqueID>9607601</NlmUniqueID><ISSNLinking>1087-1845</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D003470">Culture Media</NameOfSubstance></Chemical><Chemical><RegistryNumber>7440-44-0</RegistryNumber><NameOfSubstance UI="D002244">Carbon</NameOfSubstance></Chemical><Chemical><RegistryNumber>EC 3.2.1.-</RegistryNumber><NameOfSubstance UI="D006026">Glycoside Hydrolases</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D002244" MajorTopicYN="N">Carbon</DescriptorName><QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D019295" MajorTopicYN="N">Computational Biology</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D003470" MajorTopicYN="N">Culture Media</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D016681" MajorTopicYN="N">Genome, Fungal</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D006026" MajorTopicYN="N">Glycoside Hydrolases</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D010838" MajorTopicYN="N">Phytophthora</DescriptorName><QualifierName UI="Q000201" MajorTopicYN="Y">enzymology</QualifierName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000254" MajorTopicYN="N">growth & development</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D011775" MajorTopicYN="N">Pythium</DescriptorName><QualifierName UI="Q000201" MajorTopicYN="Y">enzymology</QualifierName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000254" MajorTopicYN="N">growth & development</QualifierName></MeshHeading></MeshHeadingList><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Carbohydrate-related-enzymes</Keyword><Keyword MajorTopicYN="N">Carbon source utilization</Keyword><Keyword MajorTopicYN="N">Growth profiling</Keyword><Keyword MajorTopicYN="N">Phytophthora</Keyword><Keyword MajorTopicYN="N">Pythium</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2014</Year><Month>04</Month><Day>07</Day></PubMedPubDate><PubMedPubDate PubStatus="revised"><Year>2014</Year><Month>08</Month><Day>15</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2014</Year><Month>08</Month><Day>25</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2014</Year><Month>9</Month><Day>7</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2014</Year><Month>9</Month><Day>7</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2015</Year><Month>7</Month><Day>16</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">25192612</ArticleId><ArticleId IdType="pii">S1087-1845(14)00154-6</ArticleId><ArticleId IdType="doi">10.1016/j.fgb.2014.08.011</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>Arabie saoudite</li><li>France</li><li>Pays-Bas</li></country><region><li>Provence-Alpes-Côte d'Azur</li><li>Utrecht (province)</li></region><settlement><li>Marseille</li><li>Utrecht</li></settlement><orgName><li>Université d'Utrecht</li></orgName></list><tree><country name="Pays-Bas"><noRegion><name sortKey="Brouwer, Henk" sort="Brouwer, Henk" uniqKey="Brouwer H" first="Henk" last="Brouwer">Henk Brouwer</name></noRegion><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></country><country name="France"><region name="Provence-Alpes-Côte d'Azur"><name sortKey="Coutinho, Pedro M" sort="Coutinho, Pedro M" uniqKey="Coutinho P" first="Pedro M" last="Coutinho">Pedro M. Coutinho</name></region></country><country name="Arabie saoudite"><noRegion><name sortKey="Henrissat, Bernard" sort="Henrissat, Bernard" uniqKey="Henrissat B" first="Bernard" last="Henrissat">Bernard Henrissat</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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