Annotation of a 95-kb Populus deltoides genomic sequence reveals a disease resistance gene cluster and novel class I and class II transposable elements.
Identifieur interne : 004318 ( Main/Exploration ); précédent : 004317; suivant : 004319Annotation of a 95-kb Populus deltoides genomic sequence reveals a disease resistance gene cluster and novel class I and class II transposable elements.
Auteurs : M. Lescot [Belgique] ; S. Rombauts ; J. Zhang ; S. Aubourg ; C. Mathé ; S. Jansson ; P. Rouzé ; W. BoerjanSource :
- TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik [ 0040-5752 ] ; 2004.
Descripteurs français
- KwdFr :
- Alignement de séquences (MeSH), Analyse de séquence d'ADN (MeSH), Basidiomycota (MeSH), Cartographie chromosomique (MeSH), Chromosomes artificiels de bactérie (génétique), Composants de gène (MeSH), Croisements génétiques (MeSH), Données de séquences moléculaires (MeSH), Immunité innée (génétique), Maladies des plantes (microbiologie), Plasmides (génétique), Populus (génétique), Séquence d'acides aminés (MeSH), Séquence nucléotidique (MeSH), Éléments transposables d'ADN (génétique).
- MESH :
- génétique : Chromosomes artificiels de bactérie, Immunité innée, Plasmides, Populus, Éléments transposables d'ADN.
- microbiologie : Maladies des plantes.
- Alignement de séquences, Analyse de séquence d'ADN, Basidiomycota, Cartographie chromosomique, Composants de gène, Croisements génétiques, Données de séquences moléculaires, Séquence d'acides aminés, Séquence nucléotidique.
English descriptors
- KwdEn :
- Amino Acid Sequence (MeSH), Base Sequence (MeSH), Basidiomycota (MeSH), Chromosome Mapping (MeSH), Chromosomes, Artificial, Bacterial (genetics), Crosses, Genetic (MeSH), DNA Transposable Elements (genetics), Gene Components (MeSH), Immunity, Innate (genetics), Molecular Sequence Data (MeSH), Plant Diseases (microbiology), Plasmids (genetics), Populus (genetics), Sequence Alignment (MeSH), Sequence Analysis, DNA (MeSH).
- MESH :
- chemical , genetics : DNA Transposable Elements.
- genetics : Chromosomes, Artificial, Bacterial, Immunity, Innate, Plasmids, Populus.
- microbiology : Plant Diseases.
- Amino Acid Sequence, Base Sequence, Basidiomycota, Chromosome Mapping, Crosses, Genetic, Gene Components, Molecular Sequence Data, Sequence Alignment, Sequence Analysis, DNA.
Abstract
Poplar has become a model system for functional genomics in woody plants. Here, we report the sequencing and annotation of the first large contiguous stretch of genomic sequence (95 kb) of poplar, corresponding to a bacterial artificial chromosome clone mapped 0.6 centiMorgan from the Melampsora larici-populina resistance locus. The annotation revealed 15 putative genetic objects, of which five were classified as hypothetical genes that were similar only with expressed sequence tags from poplar. Ten putative objects showed similarity with known genes, of which one was similar to a kinase. Three other objects corresponded to the toll/interleukin-1 receptor/nucleotide-binding site/leucine-rich repeat class of plant disease resistance genes, of which two were predicted to encode an amino terminal nuclear localization signal. Four objects were homologous to the Ty1/ copia family of class I transposable elements, one of which was designated Retropop and interrupted one of the disease resistance genes. Two other objects constituted a novel Spm-like class II transposable element, which we designated Magali.
DOI: 10.1007/s00122-004-1621-0
PubMed: 15085260
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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Here, we report the sequencing and annotation of the first large contiguous stretch of genomic sequence (95 kb) of poplar, corresponding to a bacterial artificial chromosome clone mapped 0.6 centiMorgan from the Melampsora larici-populina resistance locus. The annotation revealed 15 putative genetic objects, of which five were classified as hypothetical genes that were similar only with expressed sequence tags from poplar. Ten putative objects showed similarity with known genes, of which one was similar to a kinase. Three other objects corresponded to the toll/interleukin-1 receptor/nucleotide-binding site/leucine-rich repeat class of plant disease resistance genes, of which two were predicted to encode an amino terminal nuclear localization signal. Four objects were homologous to the Ty1/ copia family of class I transposable elements, one of which was designated Retropop and interrupted one of the disease resistance genes. Two other objects constituted a novel Spm-like class II transposable element, which we designated Magali.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">15085260</PMID><DateCompleted><Year>2004</Year><Month>08</Month><Day>13</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Print">0040-5752</ISSN><JournalIssue CitedMedium="Print"><Volume>109</Volume><Issue>1</Issue><PubDate><Year>2004</Year><Month>Jun</Month></PubDate></JournalIssue><Title>TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik</Title><ISOAbbreviation>Theor Appl Genet</ISOAbbreviation></Journal><ArticleTitle>Annotation of a 95-kb Populus deltoides genomic sequence reveals a disease resistance gene cluster and novel class I and class II transposable elements.</ArticleTitle><Pagination><MedlinePgn>10-22</MedlinePgn></Pagination><Abstract><AbstractText>Poplar has become a model system for functional genomics in woody plants. Here, we report the sequencing and annotation of the first large contiguous stretch of genomic sequence (95 kb) of poplar, corresponding to a bacterial artificial chromosome clone mapped 0.6 centiMorgan from the Melampsora larici-populina resistance locus. The annotation revealed 15 putative genetic objects, of which five were classified as hypothetical genes that were similar only with expressed sequence tags from poplar. Ten putative objects showed similarity with known genes, of which one was similar to a kinase. Three other objects corresponded to the toll/interleukin-1 receptor/nucleotide-binding site/leucine-rich repeat class of plant disease resistance genes, of which two were predicted to encode an amino terminal nuclear localization signal. Four objects were homologous to the Ty1/ copia family of class I transposable elements, one of which was designated Retropop and interrupted one of the disease resistance genes. Two other objects constituted a novel Spm-like class II transposable element, which we designated Magali.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Lescot</LastName><ForeName>M</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>Department of Plant Systems Biology, Flanders Interuniversity Institute for Biotechnology, Ghent University, Technologiepark 927, 9052 Gent, Belgium.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Rombauts</LastName><ForeName>S</ForeName><Initials>S</Initials></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>J</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Aubourg</LastName><ForeName>S</ForeName><Initials>S</Initials></Author><Author ValidYN="Y"><LastName>Mathé</LastName><ForeName>C</ForeName><Initials>C</Initials></Author><Author ValidYN="Y"><LastName>Jansson</LastName><ForeName>S</ForeName><Initials>S</Initials></Author><Author ValidYN="Y"><LastName>Rouzé</LastName><ForeName>P</ForeName><Initials>P</Initials></Author><Author ValidYN="Y"><LastName>Boerjan</LastName><ForeName>W</ForeName><Initials>W</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D003160">Comparative Study</PublicationType><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2004</Year><Month>04</Month><Day>14</Day></ArticleDate></Article><MedlineJournalInfo><Country>Germany</Country><MedlineTA>Theor Appl Genet</MedlineTA><NlmUniqueID>0145600</NlmUniqueID><ISSNLinking>0040-5752</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D004251">DNA Transposable Elements</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D000595" MajorTopicYN="N">Amino Acid Sequence</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D001483" MajorTopicYN="N">Base Sequence</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D001487" MajorTopicYN="Y">Basidiomycota</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D002874" MajorTopicYN="Y">Chromosome Mapping</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D022202" MajorTopicYN="N">Chromosomes, Artificial, Bacterial</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D003433" MajorTopicYN="N">Crosses, Genetic</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D004251" MajorTopicYN="N">DNA Transposable Elements</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D040461" MajorTopicYN="N">Gene Components</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D007113" MajorTopicYN="N">Immunity, Innate</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D008969" MajorTopicYN="N">Molecular Sequence Data</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010935" MajorTopicYN="N">Plant Diseases</DescriptorName><QualifierName UI="Q000382" MajorTopicYN="Y">microbiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D010957" MajorTopicYN="N">Plasmids</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D016415" MajorTopicYN="N">Sequence Alignment</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017422" 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sort="Aubourg, S" uniqKey="Aubourg S" first="S" last="Aubourg">S. Aubourg</name><name sortKey="Boerjan, W" sort="Boerjan, W" uniqKey="Boerjan W" first="W" last="Boerjan">W. Boerjan</name><name sortKey="Jansson, S" sort="Jansson, S" uniqKey="Jansson S" first="S" last="Jansson">S. Jansson</name><name sortKey="Mathe, C" sort="Mathe, C" uniqKey="Mathe C" first="C" last="Mathé">C. Mathé</name><name sortKey="Rombauts, S" sort="Rombauts, S" uniqKey="Rombauts S" first="S" last="Rombauts">S. Rombauts</name><name sortKey="Rouze, P" sort="Rouze, P" uniqKey="Rouze P" first="P" last="Rouzé">P. Rouzé</name><name sortKey="Zhang, J" sort="Zhang, J" uniqKey="Zhang J" first="J" last="Zhang">J. Zhang</name></noCountry><country name="Belgique"><region name="Région flamande"><name sortKey="Lescot, M" sort="Lescot, M" uniqKey="Lescot M" first="M" last="Lescot">M. Lescot</name></region></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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