The actin multigene family in Populus: organization, expression and phylogenetic analysis.
Identifieur interne : 003090 ( Main/Exploration ); précédent : 003089; suivant : 003091The actin multigene family in Populus: organization, expression and phylogenetic analysis.
Auteurs : Deqiang Zhang [République populaire de Chine] ; Qingzhang Du ; Baohua Xu ; Zhiyi Zhang ; Bailian LiSource :
- Molecular genetics and genomics : MGG [ 1617-4623 ] ; 2010.
Descripteurs français
- KwdFr :
- MESH :
- croissance et développement : Populus.
- génétique : Actines, Bois, Plantes, Populus, Tiges de plante.
- Famille multigénique, Phylogenèse.
English descriptors
- KwdEn :
- MESH :
- chemical , genetics : Actins.
- genetics : Plant Stems, Plants, Populus, Wood.
- growth & development : Populus.
- Multigene Family, Phylogeny.
Abstract
Despite the significance of actin in plant growth and development, little is known of the structure, expression and evolution of the actin gene family in woody plants. In this study, we systematically examined the diversification of the actin gene family in Populus by integrating genomic organization, expression, and phylogeny data. Genome-wide analysis of the Populus genome indicated that actin is a multigene family consisting of eight members, all predicted to encode 377-amino acid polypeptides that share high sequence homology ranging from 94.2 to 100% identity. Microarray and real-time PCR expression analysis showed that the PtrACT family members are differentially expressed in different tissues, exhibiting overlapping and unique expression patterns. Of particular interest, all PtrACT genes have been found to be preferentially expressed in the stem phloem and xylem, suggesting that poplar PtrACTs are involved in the wood formation. Gene structural and phylogenetic analyses revealed that the PtrACT family is composed of two main subgroups that share an ancient common ancestor. Extremely high intraspecies synonymous nucleotide diversity of pi(syn) = 0.01205 was detected, and the pi(non-syn)/pi(syn) ratio was significantly less than 1; therefore, the PtACT1 appears to be evolving in Populus, primarily under purifying selection. We demonstrated that the actin gene family in Populus is divided into two distinct subgroups, suggesting functional divergence. The results reported here will be useful in conducting future functional genomics studies to understand the detailed function of actin genes in tree growth and development.
DOI: 10.1007/s00438-010-0552-5
PubMed: 20577761
Affiliations:
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DeqiangZhang@bjfu.edu.cn</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>National Engineering Laboratory for Tree Breeding, Beijing Forestry University, Beijing 100083</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Du, Qingzhang" sort="Du, Qingzhang" uniqKey="Du Q" first="Qingzhang" last="Du">Qingzhang Du</name></author><author><name sortKey="Xu, Baohua" sort="Xu, Baohua" uniqKey="Xu B" first="Baohua" last="Xu">Baohua Xu</name></author><author><name sortKey="Zhang, Zhiyi" sort="Zhang, Zhiyi" uniqKey="Zhang Z" first="Zhiyi" last="Zhang">Zhiyi Zhang</name></author><author><name sortKey="Li, Bailian" sort="Li, Bailian" uniqKey="Li B" first="Bailian" last="Li">Bailian Li</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2010">2010</date><idno type="RBID">pubmed:20577761</idno><idno type="pmid">20577761</idno><idno type="doi">10.1007/s00438-010-0552-5</idno><idno type="wicri:Area/Main/Corpus">003143</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">003143</idno><idno type="wicri:Area/Main/Curation">003143</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Curation">003143</idno><idno type="wicri:Area/Main/Exploration">003143</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">The actin multigene family in Populus: organization, expression and phylogenetic analysis.</title><author><name sortKey="Zhang, Deqiang" sort="Zhang, Deqiang" uniqKey="Zhang D" first="Deqiang" last="Zhang">Deqiang Zhang</name><affiliation wicri:level="1"><nlm:affiliation>National Engineering Laboratory for Tree Breeding, Beijing Forestry University, Beijing 100083, People's Republic of China. DeqiangZhang@bjfu.edu.cn</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>National Engineering Laboratory for Tree Breeding, Beijing Forestry University, Beijing 100083</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Du, Qingzhang" sort="Du, Qingzhang" uniqKey="Du Q" first="Qingzhang" last="Du">Qingzhang Du</name></author><author><name sortKey="Xu, Baohua" sort="Xu, Baohua" uniqKey="Xu B" first="Baohua" last="Xu">Baohua Xu</name></author><author><name sortKey="Zhang, Zhiyi" sort="Zhang, Zhiyi" uniqKey="Zhang Z" first="Zhiyi" last="Zhang">Zhiyi Zhang</name></author><author><name sortKey="Li, Bailian" sort="Li, Bailian" uniqKey="Li B" first="Bailian" last="Li">Bailian Li</name></author></analytic><series><title level="j">Molecular genetics and genomics : MGG</title><idno type="eISSN">1617-4623</idno><imprint><date when="2010" type="published">2010</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Actins (genetics)</term><term>Multigene Family (MeSH)</term><term>Phylogeny (MeSH)</term><term>Plant Stems (genetics)</term><term>Plants (genetics)</term><term>Populus (genetics)</term><term>Populus (growth & development)</term><term>Wood (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Actines (génétique)</term><term>Bois (génétique)</term><term>Famille multigénique (MeSH)</term><term>Phylogenèse (MeSH)</term><term>Plantes (génétique)</term><term>Populus (croissance et développement)</term><term>Populus (génétique)</term><term>Tiges de plante (génétique)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Actins</term></keywords><keywords scheme="MESH" qualifier="croissance et développement" xml:lang="fr"><term>Populus</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Plant Stems</term><term>Plants</term><term>Populus</term><term>Wood</term></keywords><keywords scheme="MESH" qualifier="growth & development" xml:lang="en"><term>Populus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Actines</term><term>Bois</term><term>Plantes</term><term>Populus</term><term>Tiges de plante</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Multigene Family</term><term>Phylogeny</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Famille multigénique</term><term>Phylogenèse</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Despite the significance of actin in plant growth and development, little is known of the structure, expression and evolution of the actin gene family in woody plants. In this study, we systematically examined the diversification of the actin gene family in Populus by integrating genomic organization, expression, and phylogeny data. Genome-wide analysis of the Populus genome indicated that actin is a multigene family consisting of eight members, all predicted to encode 377-amino acid polypeptides that share high sequence homology ranging from 94.2 to 100% identity. Microarray and real-time PCR expression analysis showed that the PtrACT family members are differentially expressed in different tissues, exhibiting overlapping and unique expression patterns. Of particular interest, all PtrACT genes have been found to be preferentially expressed in the stem phloem and xylem, suggesting that poplar PtrACTs are involved in the wood formation. Gene structural and phylogenetic analyses revealed that the PtrACT family is composed of two main subgroups that share an ancient common ancestor. Extremely high intraspecies synonymous nucleotide diversity of pi(syn) = 0.01205 was detected, and the pi(non-syn)/pi(syn) ratio was significantly less than 1; therefore, the PtACT1 appears to be evolving in Populus, primarily under purifying selection. We demonstrated that the actin gene family in Populus is divided into two distinct subgroups, suggesting functional divergence. The results reported here will be useful in conducting future functional genomics studies to understand the detailed function of actin genes in tree growth and development.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">20577761</PMID><DateCompleted><Year>2010</Year><Month>08</Month><Day>06</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1617-4623</ISSN><JournalIssue CitedMedium="Internet"><Volume>284</Volume><Issue>2</Issue><PubDate><Year>2010</Year><Month>Aug</Month></PubDate></JournalIssue><Title>Molecular genetics and genomics : MGG</Title><ISOAbbreviation>Mol Genet Genomics</ISOAbbreviation></Journal><ArticleTitle>The actin multigene family in Populus: organization, expression and phylogenetic analysis.</ArticleTitle><Pagination><MedlinePgn>105-19</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1007/s00438-010-0552-5</ELocationID><Abstract><AbstractText>Despite the significance of actin in plant growth and development, little is known of the structure, expression and evolution of the actin gene family in woody plants. In this study, we systematically examined the diversification of the actin gene family in Populus by integrating genomic organization, expression, and phylogeny data. Genome-wide analysis of the Populus genome indicated that actin is a multigene family consisting of eight members, all predicted to encode 377-amino acid polypeptides that share high sequence homology ranging from 94.2 to 100% identity. Microarray and real-time PCR expression analysis showed that the PtrACT family members are differentially expressed in different tissues, exhibiting overlapping and unique expression patterns. Of particular interest, all PtrACT genes have been found to be preferentially expressed in the stem phloem and xylem, suggesting that poplar PtrACTs are involved in the wood formation. Gene structural and phylogenetic analyses revealed that the PtrACT family is composed of two main subgroups that share an ancient common ancestor. Extremely high intraspecies synonymous nucleotide diversity of pi(syn) = 0.01205 was detected, and the pi(non-syn)/pi(syn) ratio was significantly less than 1; therefore, the PtACT1 appears to be evolving in Populus, primarily under purifying selection. We demonstrated that the actin gene family in Populus is divided into two distinct subgroups, suggesting functional divergence. The results reported here will be useful in conducting future functional genomics studies to understand the detailed function of actin genes in tree growth and development.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Deqiang</ForeName><Initials>D</Initials><AffiliationInfo><Affiliation>National Engineering Laboratory for Tree Breeding, Beijing Forestry University, Beijing 100083, People's Republic of China. 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IdType="pubmed">9254694</ArticleId></ArticleIdList></Reference></ReferenceList></PubmedData></pubmed><affiliations><list><country><li>République populaire de Chine</li></country><settlement><li>Pékin</li></settlement></list><tree><noCountry><name sortKey="Du, Qingzhang" sort="Du, Qingzhang" uniqKey="Du Q" first="Qingzhang" last="Du">Qingzhang Du</name><name sortKey="Li, Bailian" sort="Li, Bailian" uniqKey="Li B" first="Bailian" last="Li">Bailian Li</name><name sortKey="Xu, Baohua" sort="Xu, Baohua" uniqKey="Xu B" first="Baohua" last="Xu">Baohua Xu</name><name sortKey="Zhang, Zhiyi" sort="Zhang, Zhiyi" uniqKey="Zhang Z" first="Zhiyi" last="Zhang">Zhiyi Zhang</name></noCountry><country name="République populaire de Chine"><noRegion><name sortKey="Zhang, Deqiang" sort="Zhang, Deqiang" uniqKey="Zhang D" first="Deqiang" last="Zhang">Deqiang Zhang</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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