Genome-Wide Analysis of the Fasciclin-Like Arabinogalactan Protein Gene Family Reveals Differential Expression Patterns, Localization, and Salt Stress Response in Populus.
Identifieur interne : 001D42 ( Main/Exploration ); précédent : 001D41; suivant : 001D43Genome-Wide Analysis of the Fasciclin-Like Arabinogalactan Protein Gene Family Reveals Differential Expression Patterns, Localization, and Salt Stress Response in Populus.
Auteurs : Lina Zang [République populaire de Chine] ; Tangchun Zheng [République populaire de Chine] ; Yanguang Chu [République populaire de Chine] ; Changjun Ding [République populaire de Chine] ; Weixi Zhang [République populaire de Chine] ; Qinjun Huang [République populaire de Chine] ; Xiaohua Su [République populaire de Chine]Source :
- Frontiers in plant science [ 1664-462X ] ; 2015.
Abstract
Fasciclin-like arabinogalactan proteins (FLAs) are a subclass of arabinogalactan proteins (AGPs) involved in plant growth, development and response to abiotic stress. Although many studies have been performed to identify molecular functions of individual family members, little information is available on genome-wide identification and characterization of FLAs in the genus Populus. Based on genome-wide analysis, we have identified 35 Populus FLAs which were distributed on 16 chromosomes and phylogenetically clustered into four major groups. Gene structure and motif composition were relatively conserved in each group. All the members contained N-terminal signal peptide, 23 of which included predicted glycosylphosphatidylinositol (GPI) modification sites and were anchored to plasma membranes. Subcellular localization analysis showed that PtrFLA2/20/26 were localized in cell membrane and cytoplasm of protoplasts from Populus stem-differentiating xylem. The Ka/Ks ratios showed that purifying selection has played a leading role in the long-term evolutionary period which greatly maintained the function of this family. The expression profiles showed that 32 PtrFLAs were differentially expressed in four tissues at four seasons based on publicly available microarray data. 18 FLAs were further verified with qRT-PCR in different tissues, which indicated that PtrFLA1/2/3/7/11/12/20/21/22/24/26/30 were significantly expressed in male and female flowers, suggesting close correlations with the reproductive development. In addition, PtrFLA1/9/10/11/17/21/23/24/26/28 were highly expressed in the stems and differentiating xylem, which may be involved in stem development. To determine salt response of FLAs, qRT-PCR was performed to analyze the expression of 18 genes under salinity stress across two time points. Results demonstrated that all the 18 FLAs were expressed in root tissues; especially, PtrFLA2/12/20/21/24/30 were significantly induced at different time points. In summary, this study may lay the foundation for further investigating the biological functions of FLA genes in Populus trichocarpa.
DOI: 10.3389/fpls.2015.01140
PubMed: 26779187
PubMed Central: PMC4688393
Affiliations:
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State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of ForestryBeijing, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry UniversityHarbin, China; State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of ForestryBeijing</wicri:regionArea><wicri:noRegion>Chinese Academy of ForestryBeijing</wicri:noRegion></affiliation></author><author><name sortKey="Zheng, Tangchun" sort="Zheng, Tangchun" uniqKey="Zheng T" first="Tangchun" last="Zheng">Tangchun Zheng</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry University Harbin, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry University Harbin</wicri:regionArea><wicri:noRegion>Northeast Forestry University Harbin</wicri:noRegion></affiliation></author><author><name sortKey="Chu, Yanguang" sort="Chu, Yanguang" uniqKey="Chu Y" first="Yanguang" last="Chu">Yanguang Chu</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of ForestryBeijing, China; Key Laboratory of Tree Breeding and Cultivation, State Forestry AdministrationBeijing, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of ForestryBeijing, China; Key Laboratory of Tree Breeding and Cultivation, State Forestry AdministrationBeijing</wicri:regionArea><wicri:noRegion>State Forestry AdministrationBeijing</wicri:noRegion></affiliation></author><author><name sortKey="Ding, Changjun" sort="Ding, Changjun" uniqKey="Ding C" first="Changjun" last="Ding">Changjun Ding</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of ForestryBeijing, China; Key Laboratory of Tree Breeding and Cultivation, State Forestry AdministrationBeijing, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of ForestryBeijing, China; Key Laboratory of Tree Breeding and Cultivation, State Forestry AdministrationBeijing</wicri:regionArea><wicri:noRegion>State Forestry AdministrationBeijing</wicri:noRegion></affiliation></author><author><name sortKey="Zhang, Weixi" sort="Zhang, Weixi" uniqKey="Zhang W" first="Weixi" last="Zhang">Weixi Zhang</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of ForestryBeijing, China; Key Laboratory of Tree Breeding and Cultivation, State Forestry AdministrationBeijing, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of ForestryBeijing, China; Key Laboratory of Tree Breeding and Cultivation, State Forestry AdministrationBeijing</wicri:regionArea><wicri:noRegion>State Forestry AdministrationBeijing</wicri:noRegion></affiliation></author><author><name sortKey="Huang, Qinjun" sort="Huang, Qinjun" uniqKey="Huang Q" first="Qinjun" last="Huang">Qinjun Huang</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of ForestryBeijing, China; Key Laboratory of Tree Breeding and Cultivation, State Forestry AdministrationBeijing, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of ForestryBeijing, China; Key Laboratory of Tree Breeding and Cultivation, State Forestry AdministrationBeijing</wicri:regionArea><wicri:noRegion>State Forestry AdministrationBeijing</wicri:noRegion></affiliation></author><author><name sortKey="Su, Xiaohua" sort="Su, Xiaohua" uniqKey="Su X" first="Xiaohua" last="Su">Xiaohua Su</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of ForestryBeijing, China; Key Laboratory of Tree Breeding and Cultivation, State Forestry AdministrationBeijing, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of ForestryBeijing, China; Key Laboratory of Tree Breeding and Cultivation, State Forestry AdministrationBeijing</wicri:regionArea><wicri:noRegion>State Forestry AdministrationBeijing</wicri:noRegion></affiliation></author></analytic><series><title level="j">Frontiers in plant science</title><idno type="ISSN">1664-462X</idno><imprint><date when="2015" type="published">2015</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Fasciclin-like arabinogalactan proteins (FLAs) are a subclass of arabinogalactan proteins (AGPs) involved in plant growth, development and response to abiotic stress. Although many studies have been performed to identify molecular functions of individual family members, little information is available on genome-wide identification and characterization of FLAs in the genus Populus. Based on genome-wide analysis, we have identified 35 Populus FLAs which were distributed on 16 chromosomes and phylogenetically clustered into four major groups. Gene structure and motif composition were relatively conserved in each group. All the members contained N-terminal signal peptide, 23 of which included predicted glycosylphosphatidylinositol (GPI) modification sites and were anchored to plasma membranes. Subcellular localization analysis showed that PtrFLA2/20/26 were localized in cell membrane and cytoplasm of protoplasts from Populus stem-differentiating xylem. The Ka/Ks ratios showed that purifying selection has played a leading role in the long-term evolutionary period which greatly maintained the function of this family. The expression profiles showed that 32 PtrFLAs were differentially expressed in four tissues at four seasons based on publicly available microarray data. 18 FLAs were further verified with qRT-PCR in different tissues, which indicated that PtrFLA1/2/3/7/11/12/20/21/22/24/26/30 were significantly expressed in male and female flowers, suggesting close correlations with the reproductive development. In addition, PtrFLA1/9/10/11/17/21/23/24/26/28 were highly expressed in the stems and differentiating xylem, which may be involved in stem development. To determine salt response of FLAs, qRT-PCR was performed to analyze the expression of 18 genes under salinity stress across two time points. Results demonstrated that all the 18 FLAs were expressed in root tissues; especially, PtrFLA2/12/20/21/24/30 were significantly induced at different time points. In summary, this study may lay the foundation for further investigating the biological functions of FLA genes in Populus trichocarpa. </div></front></TEI><pubmed><MedlineCitation Status="PubMed-not-MEDLINE" Owner="NLM"><PMID Version="1">26779187</PMID><DateCompleted><Year>2016</Year><Month>01</Month><Day>18</Day></DateCompleted><DateRevised><Year>2020</Year><Month>10</Month><Day>01</Day></DateRevised><Article PubModel="Electronic-eCollection"><Journal><ISSN IssnType="Print">1664-462X</ISSN><JournalIssue CitedMedium="Print"><Volume>6</Volume><PubDate><Year>2015</Year></PubDate></JournalIssue><Title>Frontiers in plant science</Title><ISOAbbreviation>Front Plant Sci</ISOAbbreviation></Journal><ArticleTitle>Genome-Wide Analysis of the Fasciclin-Like Arabinogalactan Protein Gene Family Reveals Differential Expression Patterns, Localization, and Salt Stress Response in Populus.</ArticleTitle><Pagination><MedlinePgn>1140</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.3389/fpls.2015.01140</ELocationID><Abstract><AbstractText>Fasciclin-like arabinogalactan proteins (FLAs) are a subclass of arabinogalactan proteins (AGPs) involved in plant growth, development and response to abiotic stress. Although many studies have been performed to identify molecular functions of individual family members, little information is available on genome-wide identification and characterization of FLAs in the genus Populus. Based on genome-wide analysis, we have identified 35 Populus FLAs which were distributed on 16 chromosomes and phylogenetically clustered into four major groups. Gene structure and motif composition were relatively conserved in each group. All the members contained N-terminal signal peptide, 23 of which included predicted glycosylphosphatidylinositol (GPI) modification sites and were anchored to plasma membranes. Subcellular localization analysis showed that PtrFLA2/20/26 were localized in cell membrane and cytoplasm of protoplasts from Populus stem-differentiating xylem. The Ka/Ks ratios showed that purifying selection has played a leading role in the long-term evolutionary period which greatly maintained the function of this family. The expression profiles showed that 32 PtrFLAs were differentially expressed in four tissues at four seasons based on publicly available microarray data. 18 FLAs were further verified with qRT-PCR in different tissues, which indicated that PtrFLA1/2/3/7/11/12/20/21/22/24/26/30 were significantly expressed in male and female flowers, suggesting close correlations with the reproductive development. In addition, PtrFLA1/9/10/11/17/21/23/24/26/28 were highly expressed in the stems and differentiating xylem, which may be involved in stem development. To determine salt response of FLAs, qRT-PCR was performed to analyze the expression of 18 genes under salinity stress across two time points. Results demonstrated that all the 18 FLAs were expressed in root tissues; especially, PtrFLA2/12/20/21/24/30 were significantly induced at different time points. In summary, this study may lay the foundation for further investigating the biological functions of FLA genes in Populus trichocarpa. </AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Zang</LastName><ForeName>Lina</ForeName><Initials>L</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry UniversityHarbin, China; State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of ForestryBeijing, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zheng</LastName><ForeName>Tangchun</ForeName><Initials>T</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry University Harbin, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Chu</LastName><ForeName>Yanguang</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of ForestryBeijing, China; Key Laboratory of Tree Breeding and Cultivation, State Forestry AdministrationBeijing, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Ding</LastName><ForeName>Changjun</ForeName><Initials>C</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of ForestryBeijing, China; Key Laboratory of Tree Breeding and Cultivation, State Forestry AdministrationBeijing, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Weixi</ForeName><Initials>W</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of ForestryBeijing, China; Key Laboratory of Tree Breeding and Cultivation, State Forestry AdministrationBeijing, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Huang</LastName><ForeName>Qinjun</ForeName><Initials>Q</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of ForestryBeijing, China; Key Laboratory of Tree Breeding and Cultivation, State Forestry AdministrationBeijing, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Su</LastName><ForeName>Xiaohua</ForeName><Initials>X</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of ForestryBeijing, China; Key Laboratory of Tree Breeding and Cultivation, State Forestry AdministrationBeijing, China.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2015</Year><Month>12</Month><Day>23</Day></ArticleDate></Article><MedlineJournalInfo><Country>Switzerland</Country><MedlineTA>Front Plant Sci</MedlineTA><NlmUniqueID>101568200</NlmUniqueID><ISSNLinking>1664-462X</ISSNLinking></MedlineJournalInfo><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Populus trichocarpa</Keyword><Keyword MajorTopicYN="N">PtrFLA</Keyword><Keyword MajorTopicYN="N">arabinogalactan-proteins</Keyword><Keyword MajorTopicYN="N">expression analysis</Keyword><Keyword MajorTopicYN="N">fasciclin domain</Keyword><Keyword MajorTopicYN="N">salt response</Keyword><Keyword MajorTopicYN="N">subcellular localization</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2015</Year><Month>09</Month><Day>29</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2015</Year><Month>12</Month><Day>01</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2016</Year><Month>1</Month><Day>19</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2016</Year><Month>1</Month><Day>19</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2016</Year><Month>1</Month><Day>19</Day><Hour>6</Hour><Minute>1</Minute></PubMedPubDate></History><PublicationStatus>epublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">26779187</ArticleId><ArticleId IdType="doi">10.3389/fpls.2015.01140</ArticleId><ArticleId IdType="pmc">PMC4688393</ArticleId></ArticleIdList><ReferenceList><Reference><Citation>Annu Rev Plant Biol. 2007;58:137-61</Citation><ArticleIdList><ArticleId IdType="pubmed">17201686</ArticleId></ArticleIdList></Reference><Reference><Citation>Plant Physiol. 2003 Jul;132(3):1362-9</Citation><ArticleIdList><ArticleId IdType="pubmed">12857818</ArticleId></ArticleIdList></Reference><Reference><Citation>Plant Physiol. 2010 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last="Huang">Qinjun Huang</name><name sortKey="Su, Xiaohua" sort="Su, Xiaohua" uniqKey="Su X" first="Xiaohua" last="Su">Xiaohua Su</name><name sortKey="Zhang, Weixi" sort="Zhang, Weixi" uniqKey="Zhang W" first="Weixi" last="Zhang">Weixi Zhang</name><name sortKey="Zheng, Tangchun" sort="Zheng, Tangchun" uniqKey="Zheng T" first="Tangchun" last="Zheng">Tangchun Zheng</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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