Comparative analysis of the small heat shock proteins in three angiosperm genomes identifies new subfamilies and reveals diverse evolutionary patterns.
Identifieur interne : 003961 ( Main/Exploration ); précédent : 003960; suivant : 003962Comparative analysis of the small heat shock proteins in three angiosperm genomes identifies new subfamilies and reveals diverse evolutionary patterns.
Auteurs : Elizabeth R. Waters [États-Unis] ; Brian D. Aevermann ; Zipporah Sanders-ReedSource :
- Cell stress & chaperones [ 1466-1268 ] ; 2008.
Descripteurs français
- KwdFr :
- Alignement de séquences (MeSH), Arabidopsis (génétique), Conversion des gènes (MeSH), Données de séquences moléculaires (MeSH), Famille multigénique (MeSH), Fractions subcellulaires (composition chimique), Génome végétal (MeSH), Magnoliopsida (classification), Magnoliopsida (génétique), Oryza (génétique), Phylogenèse (MeSH), Populus (génétique), Protéines d'Arabidopsis (classification), Protéines d'Arabidopsis (génétique), Protéines du choc thermique (classification), Protéines du choc thermique (génétique), Protéines végétales (génétique), Protéines végétales (sang), Régulation de l'expression des gènes végétaux (MeSH), Similitude de séquences d'acides aminés (MeSH), Spécificité d'espèce (MeSH), Séquence conservée (MeSH), Séquence d'acides aminés (MeSH), Évolution moléculaire (MeSH).
- MESH :
- composition chimique : Fractions subcellulaires, Magnoliopsida.
- génétique : Arabidopsis, Magnoliopsida, Oryza, Populus, Protéines d'Arabidopsis, Protéines du choc thermique, Protéines végétales.
- sang : Protéines d'Arabidopsis, Protéines du choc thermique, Protéines végétales.
- Alignement de séquences, Conversion des gènes, Données de séquences moléculaires, Famille multigénique, Génome végétal, Phylogenèse, Régulation de l'expression des gènes végétaux, Similitude de séquences d'acides aminés, Spécificité d'espèce, Séquence conservée, Séquence d'acides aminés, Évolution moléculaire.
English descriptors
- KwdEn :
- Amino Acid Sequence (MeSH), Arabidopsis (genetics), Arabidopsis Proteins (classification), Arabidopsis Proteins (genetics), Conserved Sequence (MeSH), Evolution, Molecular (MeSH), Gene Conversion (MeSH), Gene Expression Regulation, Plant (MeSH), Genome, Plant (MeSH), Heat-Shock Proteins (classification), Heat-Shock Proteins (genetics), Magnoliopsida (classification), Magnoliopsida (genetics), Molecular Sequence Data (MeSH), Multigene Family (MeSH), Oryza (genetics), Phylogeny (MeSH), Plant Proteins (blood), Plant Proteins (genetics), Populus (genetics), Sequence Alignment (MeSH), Sequence Homology, Amino Acid (MeSH), Species Specificity (MeSH), Subcellular Fractions (chemistry).
- MESH :
- chemical , blood : Plant Proteins.
- chemical , classification : Arabidopsis Proteins, Heat-Shock Proteins.
- chemistry : Subcellular Fractions.
- classification : Magnoliopsida.
- genetics : Arabidopsis, Arabidopsis Proteins, Heat-Shock Proteins, Magnoliopsida, Oryza, Plant Proteins, Populus.
- Amino Acid Sequence, Conserved Sequence, Evolution, Molecular, Gene Conversion, Gene Expression Regulation, Plant, Genome, Plant, Molecular Sequence Data, Multigene Family, Phylogeny, Sequence Alignment, Sequence Homology, Amino Acid, Species Specificity.
Abstract
The small heat shock proteins (sHSPs) are a diverse family of molecular chaperones. It is well established that these proteins are crucial components of the plant heat shock response. They also have important roles in other stress responses and in normal development. We have conducted a comparative sequence analysis of the sHSPs in three complete angiosperms genomes: Arabidopsis thaliana, Populus trichocarpa, and Oryza sativa. Our phylogenetic analysis has identified four additional plant sHSP subfamilies and thus has increased the number of plant sHSP subfamilies from 7 to 11. We have also identified a number of novel sHSP genes in each genome that lack close homologs in other genomes. Using publicly available gene expression data and predicted secondary structures, we have determined that the sHSPs in plants are far more diverse in sequence, expression profile, and in structure than had been previously known. Some of the newly identified subfamilies are not stress regulated, may not possess the highly conserved large oligomer structure, and may not even function as molecular chaperones. We found no consistent evolutionary patterns across the three species studied. For example, gene conversion was found among the sHSPs in O. sativa but not in A. thaliana or P. trichocarpa. Among the three species, P. trichocarpa had the most sHSPs. This was due to an expansion of the cytosolic I sHSPs that was not seen in the other two species. Our analysis indicates that the sHSPs are a dynamic protein family in angiosperms with unexpected levels of diversity.
DOI: 10.1007/s12192-008-0023-7
PubMed: 18759000
PubMed Central: PMC2673885
Affiliations:
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Le document en format XML
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It is well established that these proteins are crucial components of the plant heat shock response. They also have important roles in other stress responses and in normal development. We have conducted a comparative sequence analysis of the sHSPs in three complete angiosperms genomes: Arabidopsis thaliana, Populus trichocarpa, and Oryza sativa. Our phylogenetic analysis has identified four additional plant sHSP subfamilies and thus has increased the number of plant sHSP subfamilies from 7 to 11. We have also identified a number of novel sHSP genes in each genome that lack close homologs in other genomes. Using publicly available gene expression data and predicted secondary structures, we have determined that the sHSPs in plants are far more diverse in sequence, expression profile, and in structure than had been previously known. Some of the newly identified subfamilies are not stress regulated, may not possess the highly conserved large oligomer structure, and may not even function as molecular chaperones. We found no consistent evolutionary patterns across the three species studied. For example, gene conversion was found among the sHSPs in O. sativa but not in A. thaliana or P. trichocarpa. Among the three species, P. trichocarpa had the most sHSPs. This was due to an expansion of the cytosolic I sHSPs that was not seen in the other two species. Our analysis indicates that the sHSPs are a dynamic protein family in angiosperms with unexpected levels of diversity.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">18759000</PMID><DateCompleted><Year>2009</Year><Month>10</Month><Day>21</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1466-1268</ISSN><JournalIssue CitedMedium="Internet"><Volume>13</Volume><Issue>2</Issue><PubDate><Year>2008</Year><Season>Summer</Season></PubDate></JournalIssue><Title>Cell stress & chaperones</Title><ISOAbbreviation>Cell Stress Chaperones</ISOAbbreviation></Journal><ArticleTitle>Comparative analysis of the small heat shock proteins in three angiosperm genomes identifies new subfamilies and reveals diverse evolutionary patterns.</ArticleTitle><Pagination><MedlinePgn>127-42</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1007/s12192-008-0023-7</ELocationID><Abstract><AbstractText>The small heat shock proteins (sHSPs) are a diverse family of molecular chaperones. It is well established that these proteins are crucial components of the plant heat shock response. They also have important roles in other stress responses and in normal development. We have conducted a comparative sequence analysis of the sHSPs in three complete angiosperms genomes: Arabidopsis thaliana, Populus trichocarpa, and Oryza sativa. Our phylogenetic analysis has identified four additional plant sHSP subfamilies and thus has increased the number of plant sHSP subfamilies from 7 to 11. We have also identified a number of novel sHSP genes in each genome that lack close homologs in other genomes. Using publicly available gene expression data and predicted secondary structures, we have determined that the sHSPs in plants are far more diverse in sequence, expression profile, and in structure than had been previously known. Some of the newly identified subfamilies are not stress regulated, may not possess the highly conserved large oligomer structure, and may not even function as molecular chaperones. We found no consistent evolutionary patterns across the three species studied. For example, gene conversion was found among the sHSPs in O. sativa but not in A. thaliana or P. trichocarpa. Among the three species, P. trichocarpa had the most sHSPs. This was due to an expansion of the cytosolic I sHSPs that was not seen in the other two species. Our analysis indicates that the sHSPs are a dynamic protein family in angiosperms with unexpected levels of diversity.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Waters</LastName><ForeName>Elizabeth R</ForeName><Initials>ER</Initials><AffiliationInfo><Affiliation>Department of Biology, San Diego State University, 5500 Campanile Drive, San Diego, CA 92182, USA. ewaters@sciences.sdsu.edu</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Aevermann</LastName><ForeName>Brian D</ForeName><Initials>BD</Initials></Author><Author ValidYN="Y"><LastName>Sanders-Reed</LastName><ForeName>Zipporah</ForeName><Initials>Z</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><PublicationType UI="D013486">Research Support, U.S. Gov't, Non-P.H.S.</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2008</Year><Month>02</Month><Day>26</Day></ArticleDate></Article><MedlineJournalInfo><Country>Netherlands</Country><MedlineTA>Cell Stress Chaperones</MedlineTA><NlmUniqueID>9610925</NlmUniqueID><ISSNLinking>1355-8145</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D029681">Arabidopsis Proteins</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D006360">Heat-Shock Proteins</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D010940">Plant Proteins</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D000595" MajorTopicYN="N">Amino Acid Sequence</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017360" MajorTopicYN="N">Arabidopsis</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D029681" MajorTopicYN="N">Arabidopsis Proteins</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D017124" MajorTopicYN="N">Conserved Sequence</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D019143" MajorTopicYN="N">Evolution, Molecular</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D005785" MajorTopicYN="N">Gene Conversion</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018506" MajorTopicYN="N">Gene Expression Regulation, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018745" MajorTopicYN="Y">Genome, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D006360" MajorTopicYN="N">Heat-Shock Proteins</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D019684" MajorTopicYN="N">Magnoliopsida</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D008969" MajorTopicYN="N">Molecular Sequence Data</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D005810" MajorTopicYN="N">Multigene Family</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D012275" MajorTopicYN="N">Oryza</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D010802" MajorTopicYN="Y">Phylogeny</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010940" MajorTopicYN="N">Plant Proteins</DescriptorName><QualifierName UI="Q000097" MajorTopicYN="N">blood</QualifierName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D016415" MajorTopicYN="N">Sequence Alignment</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017386" MajorTopicYN="N">Sequence Homology, Amino Acid</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D013045" MajorTopicYN="N">Species Specificity</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D013347" MajorTopicYN="N">Subcellular Fractions</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2007</Year><Month>07</Month><Day>18</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2007</Year><Month>10</Month><Day>02</Day></PubMedPubDate><PubMedPubDate PubStatus="revised"><Year>2007</Year><Month>09</Month><Day>23</Day></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2008</Year><Month>9</Month><Day>2</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2009</Year><Month>10</Month><Day>22</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2008</Year><Month>9</Month><Day>2</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">18759000</ArticleId><ArticleId IdType="doi">10.1007/s12192-008-0023-7</ArticleId><ArticleId IdType="pmc">PMC2673885</ArticleId></ArticleIdList><ReferenceList><Reference><Citation>J Mol Evol. 1995 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Aevermann</name><name sortKey="Sanders Reed, Zipporah" sort="Sanders Reed, Zipporah" uniqKey="Sanders Reed Z" first="Zipporah" last="Sanders-Reed">Zipporah Sanders-Reed</name></noCountry><country name="États-Unis"><region name="Californie"><name sortKey="Waters, Elizabeth R" sort="Waters, Elizabeth R" uniqKey="Waters E" first="Elizabeth R" last="Waters">Elizabeth R. Waters</name></region></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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