Gene and enhancer trap tagging of vascular-expressed genes in poplar trees.
Identifieur interne : 004310 ( Main/Corpus ); précédent : 004309; suivant : 004311Gene and enhancer trap tagging of vascular-expressed genes in poplar trees.
Auteurs : Andrew Groover ; Joseph R. Fontana ; Gayle Dupper ; Caiping Ma ; Robert Martienssen ; Steven Strauss ; Richard MeilanSource :
- Plant physiology [ 0032-0889 ] ; 2004.
English descriptors
- KwdEn :
- Amino Acid Sequence (MeSH), Biological Transport (genetics), Biological Transport (physiology), DNA, Complementary (chemistry), DNA, Complementary (genetics), Gene Expression Profiling (methods), Genome, Plant (MeSH), Molecular Sequence Data (MeSH), Plant Leaves (genetics), Plant Leaves (physiology), Plant Proteins (genetics), Plant Proteins (metabolism), Plant Stems (genetics), Plant Stems (physiology), Populus (genetics), Populus (physiology), Sequence Analysis, DNA (MeSH), Sequence Homology, Amino Acid (MeSH), Sequence Tagged Sites (MeSH), Transcription Factors (genetics), Transcription Factors (metabolism).
- MESH :
- chemical , chemistry : DNA, Complementary.
- genetics : Biological Transport, DNA, Complementary, Plant Leaves, Plant Proteins, Plant Stems, Populus, Transcription Factors.
- chemical , metabolism : Plant Proteins, Transcription Factors.
- methods : Gene Expression Profiling.
- physiology : Biological Transport, Plant Leaves, Plant Stems, Populus.
- Amino Acid Sequence, Genome, Plant, Molecular Sequence Data, Sequence Analysis, DNA, Sequence Homology, Amino Acid, Sequence Tagged Sites.
Abstract
We report a gene discovery system for poplar trees based on gene and enhancer traps. Gene and enhancer trap vectors carrying the beta-glucuronidase (GUS) reporter gene were inserted into the poplar genome via Agrobacterium tumefaciens transformation, where they reveal the expression pattern of genes at or near the insertion sites. Because GUS expression phenotypes are dominant and are scored in primary transformants, this system does not require rounds of sexual recombination, a typical barrier to developmental genetic studies in trees. Gene and enhancer trap lines defining genes expressed during primary and secondary vascular development were identified and characterized. Collectively, the vascular gene expression patterns revealed that approximately 40% of genes expressed in leaves were expressed exclusively in the veins, indicating that a large set of genes is required for vascular development and function. Also, significant overlap was found between the sets of genes responsible for development and function of secondary vascular tissues of stems and primary vascular tissues in other organs of the plant, likely reflecting the common evolutionary origin of these tissues. Chromosomal DNA flanking insertion sites was amplified by thermal asymmetric interlaced PCR and sequenced and used to identify insertion sites by reference to the nascent Populus trichocarpa genome sequence. Extension of the system was demonstrated through isolation of full-length cDNAs for five genes of interest, including a new class of vascular-expressed gene tagged by enhancer trap line cET-1-pop1-145. Poplar gene and enhancer traps provide a new resource that allows plant biologists to directly reference the poplar genome sequence and identify novel genes of interest in forest biology.
DOI: 10.1104/pp.103.034330
PubMed: 15051863
PubMed Central: PMC419847
Links to Exploration step
pubmed:15051863Le document en format XML
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<author><name sortKey="Fontana, Joseph R" sort="Fontana, Joseph R" uniqKey="Fontana J" first="Joseph R" last="Fontana">Joseph R. Fontana</name>
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<author><name sortKey="Ma, Caiping" sort="Ma, Caiping" uniqKey="Ma C" first="Caiping" last="Ma">Caiping Ma</name>
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<author><name sortKey="Martienssen, Robert" sort="Martienssen, Robert" uniqKey="Martienssen R" first="Robert" last="Martienssen">Robert Martienssen</name>
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<author><name sortKey="Strauss, Steven" sort="Strauss, Steven" uniqKey="Strauss S" first="Steven" last="Strauss">Steven Strauss</name>
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<term>DNA, Complementary (genetics)</term>
<term>Gene Expression Profiling (methods)</term>
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<term>Plant Leaves (genetics)</term>
<term>Plant Leaves (physiology)</term>
<term>Plant Proteins (genetics)</term>
<term>Plant Proteins (metabolism)</term>
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<term>Plant Stems (physiology)</term>
<term>Populus (genetics)</term>
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<term>Sequence Analysis, DNA (MeSH)</term>
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<front><div type="abstract" xml:lang="en">We report a gene discovery system for poplar trees based on gene and enhancer traps. Gene and enhancer trap vectors carrying the beta-glucuronidase (GUS) reporter gene were inserted into the poplar genome via Agrobacterium tumefaciens transformation, where they reveal the expression pattern of genes at or near the insertion sites. Because GUS expression phenotypes are dominant and are scored in primary transformants, this system does not require rounds of sexual recombination, a typical barrier to developmental genetic studies in trees. Gene and enhancer trap lines defining genes expressed during primary and secondary vascular development were identified and characterized. Collectively, the vascular gene expression patterns revealed that approximately 40% of genes expressed in leaves were expressed exclusively in the veins, indicating that a large set of genes is required for vascular development and function. Also, significant overlap was found between the sets of genes responsible for development and function of secondary vascular tissues of stems and primary vascular tissues in other organs of the plant, likely reflecting the common evolutionary origin of these tissues. Chromosomal DNA flanking insertion sites was amplified by thermal asymmetric interlaced PCR and sequenced and used to identify insertion sites by reference to the nascent Populus trichocarpa genome sequence. Extension of the system was demonstrated through isolation of full-length cDNAs for five genes of interest, including a new class of vascular-expressed gene tagged by enhancer trap line cET-1-pop1-145. Poplar gene and enhancer traps provide a new resource that allows plant biologists to directly reference the poplar genome sequence and identify novel genes of interest in forest biology.</div>
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<Abstract><AbstractText>We report a gene discovery system for poplar trees based on gene and enhancer traps. Gene and enhancer trap vectors carrying the beta-glucuronidase (GUS) reporter gene were inserted into the poplar genome via Agrobacterium tumefaciens transformation, where they reveal the expression pattern of genes at or near the insertion sites. Because GUS expression phenotypes are dominant and are scored in primary transformants, this system does not require rounds of sexual recombination, a typical barrier to developmental genetic studies in trees. Gene and enhancer trap lines defining genes expressed during primary and secondary vascular development were identified and characterized. Collectively, the vascular gene expression patterns revealed that approximately 40% of genes expressed in leaves were expressed exclusively in the veins, indicating that a large set of genes is required for vascular development and function. Also, significant overlap was found between the sets of genes responsible for development and function of secondary vascular tissues of stems and primary vascular tissues in other organs of the plant, likely reflecting the common evolutionary origin of these tissues. Chromosomal DNA flanking insertion sites was amplified by thermal asymmetric interlaced PCR and sequenced and used to identify insertion sites by reference to the nascent Populus trichocarpa genome sequence. Extension of the system was demonstrated through isolation of full-length cDNAs for five genes of interest, including a new class of vascular-expressed gene tagged by enhancer trap line cET-1-pop1-145. Poplar gene and enhancer traps provide a new resource that allows plant biologists to directly reference the poplar genome sequence and identify novel genes of interest in forest biology.</AbstractText>
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<ReferenceList><Reference><Citation>Curr Opin Plant Biol. 2001 Apr;4(2):111-7</Citation>
<ArticleIdList><ArticleId IdType="pubmed">11228432</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Plant Cell. 1997 Jul;9(7):1121-1135</Citation>
<ArticleIdList><ArticleId IdType="pubmed">12237378</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Plant Cell. 2002 Dec;14(12):2985-94</Citation>
<ArticleIdList><ArticleId IdType="pubmed">12468722</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Science. 1995 May 12;268(5212):877-80</Citation>
<ArticleIdList><ArticleId IdType="pubmed">7754372</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Plant Physiol. 2003 Jun;132(2):698-708</Citation>
<ArticleIdList><ArticleId IdType="pubmed">12805598</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Proc Natl Acad Sci U S A. 2000 Feb 1;97(3):1311-6</Citation>
<ArticleIdList><ArticleId IdType="pubmed">10655527</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Plant Physiol. 2003 Jul;132(3):1283-91</Citation>
<ArticleIdList><ArticleId IdType="pubmed">12857810</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Plant Mol Biol. 2003 May;52(2):317-29</Citation>
<ArticleIdList><ArticleId IdType="pubmed">12856939</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Plant Cell. 2000 Jul;12(7):1007-20</Citation>
<ArticleIdList><ArticleId IdType="pubmed">10899970</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Science. 1999 Dec 3;286(5446):1962-5</Citation>
<ArticleIdList><ArticleId IdType="pubmed">10583961</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Development. 1998 Apr;125(8):1509-17</Citation>
<ArticleIdList><ArticleId IdType="pubmed">9502732</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Plant Cell. 1999 Dec;11(12):2283-90</Citation>
<ArticleIdList><ArticleId IdType="pubmed">10590158</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Genes Dev. 1995 Jul 15;9(14):1797-810</Citation>
<ArticleIdList><ArticleId IdType="pubmed">7622040</ArticleId>
</ArticleIdList>
</Reference>
</ReferenceList>
</PubmedData>
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