Tissue-type-specific transcriptome analysis identifies developing xylem-specific promoters in poplar.
Identifieur interne : 002870 ( Main/Exploration ); précédent : 002869; suivant : 002871Tissue-type-specific transcriptome analysis identifies developing xylem-specific promoters in poplar.
Auteurs : Jae-Heung Ko [Corée du Sud] ; Hyun-Tae Kim ; Ildoo Hwang ; Kyung-Hwan HanSource :
- Plant biotechnology journal [ 1467-7652 ] ; 2012.
Descripteurs français
- KwdFr :
- ARN des plantes (génétique), Agrobacterium (MeSH), Analyse de profil d'expression de gènes (MeSH), Biologie informatique (MeSH), Biomasse (MeSH), Gènes de plante (MeSH), Populus (génétique), Régions promotrices (génétique) (MeSH), Régulation de l'expression des gènes végétaux (MeSH), Transcriptome (MeSH), Transformation génétique (MeSH), Vecteurs génétiques (MeSH), Végétaux génétiquement modifiés (génétique), Xylème (génétique).
- MESH :
- génétique : ARN des plantes, Populus, Végétaux génétiquement modifiés, Xylème.
- Agrobacterium, Analyse de profil d'expression de gènes, Biologie informatique, Biomasse, Gènes de plante, Régions promotrices (génétique), Régulation de l'expression des gènes végétaux, Transcriptome, Transformation génétique, Vecteurs génétiques.
English descriptors
- KwdEn :
- Agrobacterium (MeSH), Biomass (MeSH), Computational Biology (MeSH), Gene Expression Profiling (MeSH), Gene Expression Regulation, Plant (MeSH), Genes, Plant (MeSH), Genetic Vectors (MeSH), Plants, Genetically Modified (genetics), Populus (genetics), Promoter Regions, Genetic (MeSH), RNA, Plant (genetics), Transcriptome (MeSH), Transformation, Genetic (MeSH), Xylem (genetics).
- MESH :
- chemical , genetics : RNA, Plant.
- genetics : Plants, Genetically Modified, Populus, Xylem.
- Agrobacterium, Biomass, Computational Biology, Gene Expression Profiling, Gene Expression Regulation, Plant, Genes, Plant, Genetic Vectors, Promoter Regions, Genetic, Transcriptome, Transformation, Genetic.
Abstract
Plant biotechnology offers a means to create novel phenotypes. However, commercial application of biotechnology in crop improvement programmes is severely hindered by the lack of utility promoters (or freedom to operate the existing ones) that can drive gene expression in a tissue-specific or temporally controlled manner. Woody biomass is gaining popularity as a source of fermentable sugars for liquid fuel production. To improve the quantity and quality of woody biomass, developing xylem (DX)-specific modification of the feedstock is highly desirable. To develop utility promoters that can drive transgene expression in a DX-specific manner, we used the Affymetrix Poplar Genome Arrays to obtain tissue-type-specific transcriptomes from poplar stems. Subsequent bioinformatics analysis identified 37 transcripts that are specifically or strongly expressed in DX cells of poplar. After further confirmation of their DX-specific expression using semi-quantitative PCR, we selected four genes (DX5, DX8, DX11 and DX15) for in vivo confirmation of their tissue-specific expression in transgenic poplars. The promoter regions of the selected DX genes were isolated and fused to a β-glucuronidase (GUS)-reported gene in a binary vector. This construct was used to produce transgenic poplars via Agrobacterium-mediated transformation. The GUS expression patterns of the resulting transgenic plants showed that these promoters were active in the xylem cells at early seedling growth and had strongest expression in the developing xylem cells at later growth stages of poplar. We conclude that these DX promoters can be used as a utility promoter for DX-specific biomass engineering.
DOI: 10.1111/j.1467-7652.2012.00690.x
PubMed: 22405574
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Tissue-type-specific transcriptome analysis identifies developing xylem-specific promoters in poplar.</title><author><name sortKey="Ko, Jae Heung" sort="Ko, Jae Heung" uniqKey="Ko J" first="Jae-Heung" last="Ko">Jae-Heung Ko</name><affiliation wicri:level="1"><nlm:affiliation>Department of Plant and Environmental New Resources, Kyung Hee University, Giheung-Gu, Yongin-Si, Gyeonggi-Do, Korea. hanky@msu.edu</nlm:affiliation><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Department of Plant and Environmental New Resources, Kyung Hee University, Giheung-Gu, Yongin-Si, Gyeonggi-Do</wicri:regionArea><wicri:noRegion>Gyeonggi-Do</wicri:noRegion></affiliation></author><author><name sortKey="Kim, Hyun Tae" sort="Kim, Hyun Tae" uniqKey="Kim H" first="Hyun-Tae" last="Kim">Hyun-Tae Kim</name></author><author><name sortKey="Hwang, Ildoo" sort="Hwang, Ildoo" uniqKey="Hwang I" first="Ildoo" last="Hwang">Ildoo Hwang</name></author><author><name sortKey="Han, Kyung Hwan" sort="Han, Kyung Hwan" uniqKey="Han K" first="Kyung-Hwan" last="Han">Kyung-Hwan Han</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2012">2012</date><idno type="RBID">pubmed:22405574</idno><idno type="pmid">22405574</idno><idno type="doi">10.1111/j.1467-7652.2012.00690.x</idno><idno type="wicri:Area/Main/Corpus">002B10</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">002B10</idno><idno type="wicri:Area/Main/Curation">002B10</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Curation">002B10</idno><idno type="wicri:Area/Main/Exploration">002B10</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Tissue-type-specific transcriptome analysis identifies developing xylem-specific promoters in poplar.</title><author><name sortKey="Ko, Jae Heung" sort="Ko, Jae Heung" uniqKey="Ko J" first="Jae-Heung" last="Ko">Jae-Heung Ko</name><affiliation wicri:level="1"><nlm:affiliation>Department of Plant and Environmental New Resources, Kyung Hee University, Giheung-Gu, Yongin-Si, Gyeonggi-Do, Korea. hanky@msu.edu</nlm:affiliation><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Department of Plant and Environmental New Resources, Kyung Hee University, Giheung-Gu, Yongin-Si, Gyeonggi-Do</wicri:regionArea><wicri:noRegion>Gyeonggi-Do</wicri:noRegion></affiliation></author><author><name sortKey="Kim, Hyun Tae" sort="Kim, Hyun Tae" uniqKey="Kim H" first="Hyun-Tae" last="Kim">Hyun-Tae Kim</name></author><author><name sortKey="Hwang, Ildoo" sort="Hwang, Ildoo" uniqKey="Hwang I" first="Ildoo" last="Hwang">Ildoo Hwang</name></author><author><name sortKey="Han, Kyung Hwan" sort="Han, Kyung Hwan" uniqKey="Han K" first="Kyung-Hwan" last="Han">Kyung-Hwan Han</name></author></analytic><series><title level="j">Plant biotechnology journal</title><idno type="eISSN">1467-7652</idno><imprint><date when="2012" type="published">2012</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Agrobacterium (MeSH)</term><term>Biomass (MeSH)</term><term>Computational Biology (MeSH)</term><term>Gene Expression Profiling (MeSH)</term><term>Gene Expression Regulation, Plant (MeSH)</term><term>Genes, Plant (MeSH)</term><term>Genetic Vectors (MeSH)</term><term>Plants, Genetically Modified (genetics)</term><term>Populus (genetics)</term><term>Promoter Regions, Genetic (MeSH)</term><term>RNA, Plant (genetics)</term><term>Transcriptome (MeSH)</term><term>Transformation, Genetic (MeSH)</term><term>Xylem (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ARN des plantes (génétique)</term><term>Agrobacterium (MeSH)</term><term>Analyse de profil d'expression de gènes (MeSH)</term><term>Biologie informatique (MeSH)</term><term>Biomasse (MeSH)</term><term>Gènes de plante (MeSH)</term><term>Populus (génétique)</term><term>Régions promotrices (génétique) (MeSH)</term><term>Régulation de l'expression des gènes végétaux (MeSH)</term><term>Transcriptome (MeSH)</term><term>Transformation génétique (MeSH)</term><term>Vecteurs génétiques (MeSH)</term><term>Végétaux génétiquement modifiés (génétique)</term><term>Xylème (génétique)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>RNA, Plant</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Plants, Genetically Modified</term><term>Populus</term><term>Xylem</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>ARN des plantes</term><term>Populus</term><term>Végétaux génétiquement modifiés</term><term>Xylème</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Agrobacterium</term><term>Biomass</term><term>Computational Biology</term><term>Gene Expression Profiling</term><term>Gene Expression Regulation, Plant</term><term>Genes, Plant</term><term>Genetic Vectors</term><term>Promoter Regions, Genetic</term><term>Transcriptome</term><term>Transformation, Genetic</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Agrobacterium</term><term>Analyse de profil d'expression de gènes</term><term>Biologie informatique</term><term>Biomasse</term><term>Gènes de plante</term><term>Régions promotrices (génétique)</term><term>Régulation de l'expression des gènes végétaux</term><term>Transcriptome</term><term>Transformation génétique</term><term>Vecteurs génétiques</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Plant biotechnology offers a means to create novel phenotypes. However, commercial application of biotechnology in crop improvement programmes is severely hindered by the lack of utility promoters (or freedom to operate the existing ones) that can drive gene expression in a tissue-specific or temporally controlled manner. Woody biomass is gaining popularity as a source of fermentable sugars for liquid fuel production. To improve the quantity and quality of woody biomass, developing xylem (DX)-specific modification of the feedstock is highly desirable. To develop utility promoters that can drive transgene expression in a DX-specific manner, we used the Affymetrix Poplar Genome Arrays to obtain tissue-type-specific transcriptomes from poplar stems. Subsequent bioinformatics analysis identified 37 transcripts that are specifically or strongly expressed in DX cells of poplar. After further confirmation of their DX-specific expression using semi-quantitative PCR, we selected four genes (DX5, DX8, DX11 and DX15) for in vivo confirmation of their tissue-specific expression in transgenic poplars. The promoter regions of the selected DX genes were isolated and fused to a β-glucuronidase (GUS)-reported gene in a binary vector. This construct was used to produce transgenic poplars via Agrobacterium-mediated transformation. The GUS expression patterns of the resulting transgenic plants showed that these promoters were active in the xylem cells at early seedling growth and had strongest expression in the developing xylem cells at later growth stages of poplar. We conclude that these DX promoters can be used as a utility promoter for DX-specific biomass engineering.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">22405574</PMID><DateCompleted><Year>2012</Year><Month>09</Month><Day>14</Day></DateCompleted><DateRevised><Year>2012</Year><Month>05</Month><Day>02</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1467-7652</ISSN><JournalIssue CitedMedium="Internet"><Volume>10</Volume><Issue>5</Issue><PubDate><Year>2012</Year><Month>Jun</Month></PubDate></JournalIssue><Title>Plant biotechnology journal</Title><ISOAbbreviation>Plant Biotechnol J</ISOAbbreviation></Journal><ArticleTitle>Tissue-type-specific transcriptome analysis identifies developing xylem-specific promoters in poplar.</ArticleTitle><Pagination><MedlinePgn>587-96</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1111/j.1467-7652.2012.00690.x</ELocationID><Abstract><AbstractText>Plant biotechnology offers a means to create novel phenotypes. However, commercial application of biotechnology in crop improvement programmes is severely hindered by the lack of utility promoters (or freedom to operate the existing ones) that can drive gene expression in a tissue-specific or temporally controlled manner. Woody biomass is gaining popularity as a source of fermentable sugars for liquid fuel production. To improve the quantity and quality of woody biomass, developing xylem (DX)-specific modification of the feedstock is highly desirable. To develop utility promoters that can drive transgene expression in a DX-specific manner, we used the Affymetrix Poplar Genome Arrays to obtain tissue-type-specific transcriptomes from poplar stems. Subsequent bioinformatics analysis identified 37 transcripts that are specifically or strongly expressed in DX cells of poplar. After further confirmation of their DX-specific expression using semi-quantitative PCR, we selected four genes (DX5, DX8, DX11 and DX15) for in vivo confirmation of their tissue-specific expression in transgenic poplars. The promoter regions of the selected DX genes were isolated and fused to a β-glucuronidase (GUS)-reported gene in a binary vector. This construct was used to produce transgenic poplars via Agrobacterium-mediated transformation. The GUS expression patterns of the resulting transgenic plants showed that these promoters were active in the xylem cells at early seedling growth and had strongest expression in the developing xylem cells at later growth stages of poplar. We conclude that these DX promoters can be used as a utility promoter for DX-specific biomass engineering.</AbstractText><CopyrightInformation>© 2012 The Authors. Plant Biotechnology Journal © 2012 Society for Experimental Biology, Association of Applied Biologists and Blackwell Publishing Ltd.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Ko</LastName><ForeName>Jae-Heung</ForeName><Initials>JH</Initials><AffiliationInfo><Affiliation>Department of Plant and Environmental New Resources, Kyung Hee University, Giheung-Gu, Yongin-Si, Gyeonggi-Do, Korea. hanky@msu.edu</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Kim</LastName><ForeName>Hyun-Tae</ForeName><Initials>HT</Initials></Author><Author ValidYN="Y"><LastName>Hwang</LastName><ForeName>Ildoo</ForeName><Initials>I</Initials></Author><Author ValidYN="Y"><LastName>Han</LastName><ForeName>Kyung-Hwan</ForeName><Initials>KH</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><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>2012</Year><Month>03</Month><Day>07</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Plant Biotechnol J</MedlineTA><NlmUniqueID>101201889</NlmUniqueID><ISSNLinking>1467-7644</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D018749">RNA, Plant</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D060054" MajorTopicYN="N">Agrobacterium</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018533" MajorTopicYN="N">Biomass</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D019295" MajorTopicYN="N">Computational Biology</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D020869" MajorTopicYN="Y">Gene Expression Profiling</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018506" MajorTopicYN="N">Gene Expression Regulation, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017343" MajorTopicYN="N">Genes, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D005822" MajorTopicYN="N">Genetic Vectors</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D030821" MajorTopicYN="N">Plants, Genetically Modified</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="D011401" MajorTopicYN="Y">Promoter Regions, Genetic</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018749" MajorTopicYN="N">RNA, Plant</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D059467" MajorTopicYN="N">Transcriptome</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D014170" MajorTopicYN="N">Transformation, Genetic</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D052584" MajorTopicYN="N">Xylem</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="entrez"><Year>2012</Year><Month>3</Month><Day>13</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2012</Year><Month>3</Month><Day>13</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2012</Year><Month>9</Month><Day>15</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">22405574</ArticleId><ArticleId IdType="doi">10.1111/j.1467-7652.2012.00690.x</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>Corée du Sud</li></country></list><tree><noCountry><name sortKey="Han, Kyung Hwan" sort="Han, Kyung Hwan" uniqKey="Han K" first="Kyung-Hwan" last="Han">Kyung-Hwan Han</name><name sortKey="Hwang, Ildoo" sort="Hwang, Ildoo" uniqKey="Hwang I" first="Ildoo" last="Hwang">Ildoo Hwang</name><name sortKey="Kim, Hyun Tae" sort="Kim, Hyun Tae" uniqKey="Kim H" first="Hyun-Tae" last="Kim">Hyun-Tae Kim</name></noCountry><country name="Corée du Sud"><noRegion><name sortKey="Ko, Jae Heung" sort="Ko, Jae Heung" uniqKey="Ko J" first="Jae-Heung" last="Ko">Jae-Heung Ko</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Bois/explor/PoplarV1/Data/Main/Exploration
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 002870 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd -nk 002870 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien
|wiki= Bois
|area= PoplarV1
|flux= Main
|étape= Exploration
|type= RBID
|clé= pubmed:22405574
|texte= Tissue-type-specific transcriptome analysis identifies developing xylem-specific promoters in poplar.
}}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Exploration/RBID.i -Sk "pubmed:22405574" \
| HfdSelect -Kh $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd \
| NlmPubMed2Wicri -a PoplarV1
| This area was generated with Dilib version V0.6.37. |  |