Screening for rapidly evolving genes in the ectomycorrhizal fungus Paxillus involutus using cDNA microarrays.
Identifieur interne : 003190 ( Main/Exploration ); précédent : 003189; suivant : 003191Screening for rapidly evolving genes in the ectomycorrhizal fungus Paxillus involutus using cDNA microarrays.
Auteurs : Antoine Le Quéré [Suède] ; Kasper Astrup Eriksen ; Balaji Rajashekar ; Andres Schützendübel ; Björn Canb Ck ; Tomas Johansson ; Anders TunlidSource :
- Molecular ecology [ 0962-1083 ] ; 2006.
Descripteurs français
- KwdFr :
- Analyse de variance (MeSH), Basidiomycota (génétique), Dosage génique (MeSH), Duplication de gène (MeSH), Fluorescence (MeSH), Gènes fongiques (MeSH), Hybridation fluorescente in situ (MeSH), Modèles génétiques (MeSH), Mycorhizes (génétique), Séquençage par oligonucléotides en batterie (méthodes), Variation génétique (MeSH), Étiquettes de séquences exprimées (MeSH), Évolution moléculaire (MeSH).
- MESH :
- génétique : Basidiomycota, Mycorhizes.
- méthodes : Séquençage par oligonucléotides en batterie.
- Analyse de variance, Dosage génique, Duplication de gène, Fluorescence, Gènes fongiques, Hybridation fluorescente in situ, Modèles génétiques, Variation génétique, Étiquettes de séquences exprimées, Évolution moléculaire.
English descriptors
- KwdEn :
- Analysis of Variance (MeSH), Basidiomycota (genetics), Evolution, Molecular (MeSH), Expressed Sequence Tags (MeSH), Fluorescence (MeSH), Gene Dosage (MeSH), Gene Duplication (MeSH), Genes, Fungal (MeSH), Genetic Variation (MeSH), In Situ Hybridization, Fluorescence (MeSH), Models, Genetic (MeSH), Mycorrhizae (genetics), Oligonucleotide Array Sequence Analysis (methods).
- MESH :
Abstract
We have examined the variations in gene content and sequence divergence that could be associated with symbiotic adaptations in the ectomycorrhizal fungus Paxillus involutus and the closely related species Paxillus filamentosus. Strains with various abilities to form mycorrhizae were analysed by comparative genomic hybridizations using a cDNA microarray containing 1076 putative unique genes of P. involutus. To screen for genes diverging at an enhanced and presumably non-neutral rate, we implemented a simple rate test using information from both the variations in hybridizations signal and data on sequence divergence of the arrayed genes relative to the genome of Coprinus cinereus. C. cinereus is a free-living saprophyte and is the closest evolutionary relative to P. involutus that has been fully sequenced. Approximately 17% of the genes investigated were detected as rapidly diverging within Paxillus. Furthermore, 6% of the genes varied in copy numbers between the analysed strains. Genome rearrangements associated with this variation including duplications and deletions may also play a role in adaptive evolution. The cohort of divergent and duplicated genes showed an over-representation of either orphans, genes whose products are located at membranes, or genes encoding for components of stress/defence reactions. Some of the identified genomic changes may be associated with the variation in host specificity of ectomycorrhizal fungi. The proposed procedure could be generally applicable to screen for rapidly evolving genes in closely related strains or species where at least one has been sequenced or characterized by expressed sequence tag analysis.
DOI: 10.1111/j.1365-294X.2005.02796.x
PubMed: 16448419
Affiliations:
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Strains with various abilities to form mycorrhizae were analysed by comparative genomic hybridizations using a cDNA microarray containing 1076 putative unique genes of P. involutus. To screen for genes diverging at an enhanced and presumably non-neutral rate, we implemented a simple rate test using information from both the variations in hybridizations signal and data on sequence divergence of the arrayed genes relative to the genome of Coprinus cinereus. C. cinereus is a free-living saprophyte and is the closest evolutionary relative to P. involutus that has been fully sequenced. Approximately 17% of the genes investigated were detected as rapidly diverging within Paxillus. Furthermore, 6% of the genes varied in copy numbers between the analysed strains. Genome rearrangements associated with this variation including duplications and deletions may also play a role in adaptive evolution. The cohort of divergent and duplicated genes showed an over-representation of either orphans, genes whose products are located at membranes, or genes encoding for components of stress/defence reactions. Some of the identified genomic changes may be associated with the variation in host specificity of ectomycorrhizal fungi. The proposed procedure could be generally applicable to screen for rapidly evolving genes in closely related strains or species where at least one has been sequenced or characterized by expressed sequence tag analysis.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">16448419</PMID><DateCompleted><Year>2006</Year><Month>04</Month><Day>05</Day></DateCompleted><DateRevised><Year>2008</Year><Month>11</Month><Day>21</Day></DateRevised><Article PubModel="Print"><Journal><ISSN IssnType="Print">0962-1083</ISSN><JournalIssue CitedMedium="Print"><Volume>15</Volume><Issue>2</Issue><PubDate><Year>2006</Year><Month>Feb</Month></PubDate></JournalIssue><Title>Molecular ecology</Title><ISOAbbreviation>Mol Ecol</ISOAbbreviation></Journal><ArticleTitle>Screening for rapidly evolving genes in the ectomycorrhizal fungus Paxillus involutus using cDNA microarrays.</ArticleTitle><Pagination><MedlinePgn>535-50</MedlinePgn></Pagination><Abstract><AbstractText>We have examined the variations in gene content and sequence divergence that could be associated with symbiotic adaptations in the ectomycorrhizal fungus Paxillus involutus and the closely related species Paxillus filamentosus. Strains with various abilities to form mycorrhizae were analysed by comparative genomic hybridizations using a cDNA microarray containing 1076 putative unique genes of P. involutus. To screen for genes diverging at an enhanced and presumably non-neutral rate, we implemented a simple rate test using information from both the variations in hybridizations signal and data on sequence divergence of the arrayed genes relative to the genome of Coprinus cinereus. C. cinereus is a free-living saprophyte and is the closest evolutionary relative to P. involutus that has been fully sequenced. Approximately 17% of the genes investigated were detected as rapidly diverging within Paxillus. Furthermore, 6% of the genes varied in copy numbers between the analysed strains. Genome rearrangements associated with this variation including duplications and deletions may also play a role in adaptive evolution. The cohort of divergent and duplicated genes showed an over-representation of either orphans, genes whose products are located at membranes, or genes encoding for components of stress/defence reactions. Some of the identified genomic changes may be associated with the variation in host specificity of ectomycorrhizal fungi. The proposed procedure could be generally applicable to screen for rapidly evolving genes in closely related strains or species where at least one has been sequenced or characterized by expressed sequence tag analysis.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Le Quéré</LastName><ForeName>Antoine</ForeName><Initials>A</Initials><AffiliationInfo><Affiliation>Department of Microbial Ecology, Lund University, Ecology Building, SE-223 62 Lund, Sweden.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Eriksen</LastName><ForeName>Kasper Astrup</ForeName><Initials>KA</Initials></Author><Author ValidYN="Y"><LastName>Rajashekar</LastName><ForeName>Balaji</ForeName><Initials>B</Initials></Author><Author ValidYN="Y"><LastName>Schützendübel</LastName><ForeName>Andres</ForeName><Initials>A</Initials></Author><Author ValidYN="Y"><LastName>Canbäck</LastName><ForeName>Björn</ForeName><Initials>B</Initials></Author><Author ValidYN="Y"><LastName>Johansson</LastName><ForeName>Tomas</ForeName><Initials>T</Initials></Author><Author ValidYN="Y"><LastName>Tunlid</LastName><ForeName>Anders</ForeName><Initials>A</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Mol Ecol</MedlineTA><NlmUniqueID>9214478</NlmUniqueID><ISSNLinking>0962-1083</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D000704" MajorTopicYN="N">Analysis of Variance</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D001487" MajorTopicYN="N">Basidiomycota</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D019143" 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MajorTopicYN="N">Mycorrhizae</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D020411" MajorTopicYN="N">Oligonucleotide Array Sequence Analysis</DescriptorName><QualifierName UI="Q000379" MajorTopicYN="Y">methods</QualifierName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="pubmed"><Year>2006</Year><Month>2</Month><Day>2</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2006</Year><Month>4</Month><Day>6</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2006</Year><Month>2</Month><Day>2</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">16448419</ArticleId><ArticleId IdType="pii">MEC2796</ArticleId><ArticleId IdType="doi">10.1111/j.1365-294X.2005.02796.x</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>Suède</li></country></list><tree><noCountry><name sortKey="Canb Ck, Bjorn" sort="Canb Ck, Bjorn" uniqKey="Canb Ck B" first="Björn" last="Canb Ck">Björn Canb Ck</name><name sortKey="Eriksen, Kasper Astrup" sort="Eriksen, Kasper Astrup" uniqKey="Eriksen K" first="Kasper Astrup" last="Eriksen">Kasper Astrup Eriksen</name><name sortKey="Johansson, Tomas" sort="Johansson, Tomas" uniqKey="Johansson T" first="Tomas" last="Johansson">Tomas Johansson</name><name sortKey="Rajashekar, Balaji" sort="Rajashekar, Balaji" uniqKey="Rajashekar B" first="Balaji" last="Rajashekar">Balaji Rajashekar</name><name sortKey="Schutzendubel, Andres" sort="Schutzendubel, Andres" uniqKey="Schutzendubel A" first="Andres" last="Schützendübel">Andres Schützendübel</name><name sortKey="Tunlid, Anders" sort="Tunlid, Anders" uniqKey="Tunlid A" first="Anders" last="Tunlid">Anders Tunlid</name></noCountry><country name="Suède"><noRegion><name sortKey="Le Quere, Antoine" sort="Le Quere, Antoine" uniqKey="Le Quere A" first="Antoine" last="Le Quéré">Antoine Le Quéré</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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