Genomewide comparative phylogenetic and molecular evolutionary analysis of tubby-like protein family in Arabidopsis, rice, and poplar.
Identifieur interne : 003904 ( Main/Exploration ); précédent : 003903; suivant : 003905Genomewide comparative phylogenetic and molecular evolutionary analysis of tubby-like protein family in Arabidopsis, rice, and poplar.
Auteurs : Zefeng Yang [République populaire de Chine] ; Yong Zhou ; Xuefeng Wang ; Shiliang Gu ; Jianmin Yu ; Guohua Liang ; Changjie Yan ; Chenwu XuSource :
- Genomics [ 1089-8646 ] ; 2008.
Descripteurs français
- KwdFr :
- Arabidopsis (génétique), Arabidopsis (métabolisme), Exons (génétique), Gènes de plante (physiologie), Introns (génétique), Oryza (génétique), Oryza (métabolisme), Phylogenèse (MeSH), Populus (génétique), Populus (métabolisme), Protéines d'Arabidopsis (génétique), Protéines d'Arabidopsis (métabolisme), Régulation de l'expression des gènes végétaux (physiologie), Structure tertiaire des protéines (physiologie), Évolution moléculaire (MeSH).
- MESH :
- génétique : Arabidopsis, Exons, Introns, Oryza, Populus, Protéines d'Arabidopsis.
- métabolisme : Arabidopsis, Oryza, Populus, Protéines d'Arabidopsis.
- physiologie : Gènes de plante, Régulation de l'expression des gènes végétaux, Structure tertiaire des protéines.
- Phylogenèse, Évolution moléculaire.
English descriptors
- KwdEn :
- Arabidopsis (genetics), Arabidopsis (metabolism), Arabidopsis Proteins (genetics), Arabidopsis Proteins (metabolism), Evolution, Molecular (MeSH), Exons (genetics), Gene Expression Regulation, Plant (physiology), Genes, Plant (physiology), Introns (genetics), Oryza (genetics), Oryza (metabolism), Phylogeny (MeSH), Populus (genetics), Populus (metabolism), Protein Structure, Tertiary (physiology).
- MESH :
- chemical , genetics : Arabidopsis Proteins.
- genetics : Arabidopsis, Exons, Introns, Oryza, Populus.
- metabolism : Arabidopsis, Arabidopsis Proteins, Oryza, Populus.
- physiology : Gene Expression Regulation, Plant, Genes, Plant, Protein Structure, Tertiary.
- Evolution, Molecular, Phylogeny.
Abstract
Tubby-like proteins, which are characterized by a highly conserved tubby domain, play an important role in the maintenance and function of neuronal cells during postdifferentiation and development in mammals. In additional to the tubby domain, most tubby-like proteins in plants also possess an F-box domain. Plants also appear to harbor a large number of TLP genes. To gain insight into how TLP genes evolved in plants, we conducted a comparative phylogenetic and molecular evolutionary analysis of the tubby-like protein gene family in Arabidopsis, rice, and poplar. Genomewide screening identified 11 TLP genes in Arabidopsis, 14 in rice, and 11 in poplar. Phylogenetic trees, domain organizations, and intron/exon structures classified this family into three subfamilies and indicated that species-specific expansion contributed to the evolution of this family in plants. We determined that in rice and poplar, the tubby-like protein family had expanded mainly through segmental duplication events. Tissue-specific expression analysis indicated that functional diversification of the duplicated TLP genes was a major feature of long-term evolution. Our results also demonstrated that the tubby and F-box domains had co-evolved during the evolution of proteins containing both domains.
DOI: 10.1016/j.ygeno.2008.06.001
PubMed: 18620041
Affiliations:
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Le document en format XML
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Wang</name></author><author><name sortKey="Gu, Shiliang" sort="Gu, Shiliang" uniqKey="Gu S" first="Shiliang" last="Gu">Shiliang Gu</name></author><author><name sortKey="Yu, Jianmin" sort="Yu, Jianmin" uniqKey="Yu J" first="Jianmin" last="Yu">Jianmin Yu</name></author><author><name sortKey="Liang, Guohua" sort="Liang, Guohua" uniqKey="Liang G" first="Guohua" last="Liang">Guohua Liang</name></author><author><name sortKey="Yan, Changjie" sort="Yan, Changjie" uniqKey="Yan C" first="Changjie" last="Yan">Changjie Yan</name></author><author><name sortKey="Xu, Chenwu" sort="Xu, Chenwu" uniqKey="Xu C" first="Chenwu" last="Xu">Chenwu Xu</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2008">2008</date><idno type="RBID">pubmed:18620041</idno><idno type="pmid">18620041</idno><idno type="doi">10.1016/j.ygeno.2008.06.001</idno><idno type="wicri:Area/Main/Corpus">003841</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" 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sortKey="Zhou, Yong" sort="Zhou, Yong" uniqKey="Zhou Y" first="Yong" last="Zhou">Yong Zhou</name></author><author><name sortKey="Wang, Xuefeng" sort="Wang, Xuefeng" uniqKey="Wang X" first="Xuefeng" last="Wang">Xuefeng Wang</name></author><author><name sortKey="Gu, Shiliang" sort="Gu, Shiliang" uniqKey="Gu S" first="Shiliang" last="Gu">Shiliang Gu</name></author><author><name sortKey="Yu, Jianmin" sort="Yu, Jianmin" uniqKey="Yu J" first="Jianmin" last="Yu">Jianmin Yu</name></author><author><name sortKey="Liang, Guohua" sort="Liang, Guohua" uniqKey="Liang G" first="Guohua" last="Liang">Guohua Liang</name></author><author><name sortKey="Yan, Changjie" sort="Yan, Changjie" uniqKey="Yan C" first="Changjie" last="Yan">Changjie Yan</name></author><author><name sortKey="Xu, Chenwu" sort="Xu, Chenwu" uniqKey="Xu C" first="Chenwu" last="Xu">Chenwu Xu</name></author></analytic><series><title level="j">Genomics</title><idno type="eISSN">1089-8646</idno><imprint><date when="2008" 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(métabolisme)</term><term>Phylogenèse (MeSH)</term><term>Populus (génétique)</term><term>Populus (métabolisme)</term><term>Protéines d'Arabidopsis (génétique)</term><term>Protéines d'Arabidopsis (métabolisme)</term><term>Régulation de l'expression des gènes végétaux (physiologie)</term><term>Structure tertiaire des protéines (physiologie)</term><term>Évolution moléculaire (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Arabidopsis Proteins</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Arabidopsis</term><term>Exons</term><term>Introns</term><term>Oryza</term><term>Populus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Arabidopsis</term><term>Exons</term><term>Introns</term><term>Oryza</term><term>Populus</term><term>Protéines d'Arabidopsis</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Arabidopsis</term><term>Arabidopsis Proteins</term><term>Oryza</term><term>Populus</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Arabidopsis</term><term>Oryza</term><term>Populus</term><term>Protéines d'Arabidopsis</term></keywords><keywords scheme="MESH" qualifier="physiologie" xml:lang="fr"><term>Gènes de plante</term><term>Régulation de l'expression des gènes végétaux</term><term>Structure tertiaire des protéines</term></keywords><keywords scheme="MESH" qualifier="physiology" xml:lang="en"><term>Gene Expression Regulation, Plant</term><term>Genes, Plant</term><term>Protein Structure, Tertiary</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Evolution, Molecular</term><term>Phylogeny</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Phylogenèse</term><term>Évolution moléculaire</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Tubby-like proteins, which are characterized by a highly conserved tubby domain, play an important role in the maintenance and function of neuronal cells during postdifferentiation and development in mammals. In additional to the tubby domain, most tubby-like proteins in plants also possess an F-box domain. Plants also appear to harbor a large number of TLP genes. To gain insight into how TLP genes evolved in plants, we conducted a comparative phylogenetic and molecular evolutionary analysis of the tubby-like protein gene family in Arabidopsis, rice, and poplar. Genomewide screening identified 11 TLP genes in Arabidopsis, 14 in rice, and 11 in poplar. Phylogenetic trees, domain organizations, and intron/exon structures classified this family into three subfamilies and indicated that species-specific expansion contributed to the evolution of this family in plants. We determined that in rice and poplar, the tubby-like protein family had expanded mainly through segmental duplication events. Tissue-specific expression analysis indicated that functional diversification of the duplicated TLP genes was a major feature of long-term evolution. Our results also demonstrated that the tubby and F-box domains had co-evolved during the evolution of proteins containing both domains.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">18620041</PMID><DateCompleted><Year>2008</Year><Month>12</Month><Day>09</Day></DateCompleted><DateRevised><Year>2015</Year><Month>11</Month><Day>19</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1089-8646</ISSN><JournalIssue CitedMedium="Internet"><Volume>92</Volume><Issue>4</Issue><PubDate><Year>2008</Year><Month>Oct</Month></PubDate></JournalIssue><Title>Genomics</Title><ISOAbbreviation>Genomics</ISOAbbreviation></Journal><ArticleTitle>Genomewide comparative phylogenetic and molecular evolutionary analysis of tubby-like protein family in Arabidopsis, rice, and poplar.</ArticleTitle><Pagination><MedlinePgn>246-53</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1016/j.ygeno.2008.06.001</ELocationID><Abstract><AbstractText>Tubby-like proteins, which are characterized by a highly conserved tubby domain, play an important role in the maintenance and function of neuronal cells during postdifferentiation and development in mammals. In additional to the tubby domain, most tubby-like proteins in plants also possess an F-box domain. Plants also appear to harbor a large number of TLP genes. To gain insight into how TLP genes evolved in plants, we conducted a comparative phylogenetic and molecular evolutionary analysis of the tubby-like protein gene family in Arabidopsis, rice, and poplar. Genomewide screening identified 11 TLP genes in Arabidopsis, 14 in rice, and 11 in poplar. Phylogenetic trees, domain organizations, and intron/exon structures classified this family into three subfamilies and indicated that species-specific expansion contributed to the evolution of this family in plants. We determined that in rice and poplar, the tubby-like protein family had expanded mainly through segmental duplication events. Tissue-specific expression analysis indicated that functional diversification of the duplicated TLP genes was a major feature of long-term evolution. Our results also demonstrated that the tubby and F-box domains had co-evolved during the evolution of proteins containing both domains.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Yang</LastName><ForeName>Zefeng</ForeName><Initials>Z</Initials><AffiliationInfo><Affiliation>Jiangsu Provincial Key Laboratory of Crop Genetics and Physiology, Yangzhou University, Yangzhou, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zhou</LastName><ForeName>Yong</ForeName><Initials>Y</Initials></Author><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Xuefeng</ForeName><Initials>X</Initials></Author><Author ValidYN="Y"><LastName>Gu</LastName><ForeName>Shiliang</ForeName><Initials>S</Initials></Author><Author ValidYN="Y"><LastName>Yu</LastName><ForeName>Jianmin</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Liang</LastName><ForeName>Guohua</ForeName><Initials>G</Initials></Author><Author ValidYN="Y"><LastName>Yan</LastName><ForeName>Changjie</ForeName><Initials>C</Initials></Author><Author ValidYN="Y"><LastName>Xu</LastName><ForeName>Chenwu</ForeName><Initials>C</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><ArticleDate DateType="Electronic"><Year>2008</Year><Month>07</Month><Day>23</Day></ArticleDate></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>Genomics</MedlineTA><NlmUniqueID>8800135</NlmUniqueID><ISSNLinking>0888-7543</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D029681">Arabidopsis Proteins</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D017360" 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MajorTopicYN="N">physiology</QualifierName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2007</Year><Month>12</Month><Day>07</Day></PubMedPubDate><PubMedPubDate PubStatus="revised"><Year>2008</Year><Month>05</Month><Day>18</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2008</Year><Month>06</Month><Day>09</Day></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2008</Year><Month>7</Month><Day>16</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2008</Year><Month>12</Month><Day>17</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2008</Year><Month>7</Month><Day>16</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">18620041</ArticleId><ArticleId IdType="pii">S0888-7543(08)00139-0</ArticleId><ArticleId IdType="doi">10.1016/j.ygeno.2008.06.001</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>République populaire de Chine</li></country></list><tree><noCountry><name sortKey="Gu, Shiliang" sort="Gu, Shiliang" uniqKey="Gu S" first="Shiliang" last="Gu">Shiliang Gu</name><name sortKey="Liang, Guohua" sort="Liang, Guohua" uniqKey="Liang G" first="Guohua" last="Liang">Guohua Liang</name><name sortKey="Wang, Xuefeng" sort="Wang, Xuefeng" uniqKey="Wang X" first="Xuefeng" last="Wang">Xuefeng Wang</name><name sortKey="Xu, Chenwu" sort="Xu, Chenwu" uniqKey="Xu C" first="Chenwu" last="Xu">Chenwu Xu</name><name sortKey="Yan, Changjie" sort="Yan, Changjie" uniqKey="Yan C" first="Changjie" last="Yan">Changjie Yan</name><name sortKey="Yu, Jianmin" sort="Yu, Jianmin" uniqKey="Yu J" first="Jianmin" last="Yu">Jianmin Yu</name><name sortKey="Zhou, Yong" sort="Zhou, Yong" uniqKey="Zhou Y" first="Yong" last="Zhou">Yong Zhou</name></noCountry><country name="République populaire de Chine"><noRegion><name sortKey="Yang, Zefeng" sort="Yang, Zefeng" uniqKey="Yang Z" first="Zefeng" last="Yang">Zefeng Yang</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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