Identification of functional single nucleotide polymorphism of Populus trichocarpa PtrEPSP-TF and determination of its transcriptional effect.
Identifieur interne : 000330 ( Main/Exploration ); précédent : 000329; suivant : 000331Identification of functional single nucleotide polymorphism of Populus trichocarpa PtrEPSP-TF and determination of its transcriptional effect.
Auteurs : Meng Xie ; Jin Zhang ; Vasanth R. Singan ; Melissa J. Mcgranahan ; Peter R. Lafayette ; Sara S. Jawdy ; Nancy Engle ; Crissa Doeppke ; Timothy J. Tschaplinski ; Mark F. Davis ; Erika Lindquist ; Kerrie Barry ; Jeremy Schmutz ; Wayne A. Parrott ; Feng Chen ; Gerald A. Tuskan ; Jin-Gui Chen ; Wellington MucheroSource :
- Plant direct [ 2475-4455 ] ; 2020.
Abstract
In plants, the phenylpropanoid pathway is responsible for the synthesis of a diverse array of secondary metabolites that include lignin monomers, flavonoids, and coumarins, many of which are essential for plant structure, biomass recalcitrance, stress defense, and nutritional quality. Our previous studies have demonstrated that Populus trichocarpa PtrEPSP-TF, an isoform of 5-enolpyruvylshikimate 3-phosphate (EPSP) synthase, has transcriptional activity and regulates phenylpropanoid biosynthesis in Populus. In this study, we report the identification of single nucleotide polymorphism (SNP) of PtrEPSP-TF that defines its functionality. Populus natural variants carrying this SNP were shown to have reduced lignin content. Here, we demonstrated that the SNP-induced substitution of 142nd amino acid (PtrEPSP-TFD142E) dramatically impairs the DNA-binding and transcriptional activity of PtrEPSP-TF. When introduced to a monocot species rice (Oryza sativa) in which an EPSP synthase isoform with the DNA-binding helix-turn-helix (HTH) motif is absent, the PtrEPSP-TF, but not PtrEPSP-TFD142E, activated genes in the phenylpropanoid pathway. More importantly, heterologous expression of PtrEPSP-TF uncovered five new transcriptional regulators of phenylpropanoid biosynthesis in rice. Collectively, this study identifies the key amino acid required for PtrEPSP-TF functionality and provides a strategy to uncover new transcriptional regulators in phenylpropanoid biosynthesis.
DOI: 10.1002/pld3.178
PubMed: 31911959
PubMed Central: PMC6941116
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Identification of functional single nucleotide polymorphism of <i>Populus trichocarpa PtrEPSP-TF</i> and determination of its transcriptional effect.</title><author><name sortKey="Xie, Meng" sort="Xie, Meng" uniqKey="Xie M" first="Meng" last="Xie">Meng Xie</name><affiliation><nlm:affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>Department of Plant Sciences University of Tennessee Knoxville TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Department of Plant Sciences University of Tennessee Knoxville TN USA.</wicri:noCountry></affiliation></author><author><name sortKey="Zhang, Jin" sort="Zhang, Jin" uniqKey="Zhang J" first="Jin" last="Zhang">Jin Zhang</name><affiliation><nlm:affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation></author><author><name sortKey="Singan, Vasanth R" sort="Singan, Vasanth R" uniqKey="Singan V" first="Vasanth R" last="Singan">Vasanth R. Singan</name><affiliation><nlm:affiliation>U.S. Department of Energy Joint Genome Institute Walnut Creek CA USA.</nlm:affiliation><wicri:noCountry code="no comma">U.S. Department of Energy Joint Genome Institute Walnut Creek CA USA.</wicri:noCountry></affiliation></author><author><name sortKey="Mcgranahan, Melissa J" sort="Mcgranahan, Melissa J" uniqKey="Mcgranahan M" first="Melissa J" last="Mcgranahan">Melissa J. Mcgranahan</name><affiliation><nlm:affiliation>Department of Crop and Soil Sciences University of Georgia Athens GA USA.</nlm:affiliation><wicri:noCountry code="no comma">Department of Crop and Soil Sciences University of Georgia Athens GA USA.</wicri:noCountry></affiliation></author><author><name sortKey="Lafayette, Peter R" sort="Lafayette, Peter R" uniqKey="Lafayette P" first="Peter R" last="Lafayette">Peter R. Lafayette</name><affiliation><nlm:affiliation>Department of Crop and Soil Sciences University of Georgia Athens GA USA.</nlm:affiliation><wicri:noCountry code="no comma">Department of Crop and Soil Sciences University of Georgia Athens GA USA.</wicri:noCountry></affiliation></author><author><name sortKey="Jawdy, Sara S" sort="Jawdy, Sara S" uniqKey="Jawdy S" first="Sara S" last="Jawdy">Sara S. Jawdy</name><affiliation><nlm:affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation></author><author><name sortKey="Engle, Nancy" sort="Engle, Nancy" uniqKey="Engle N" first="Nancy" last="Engle">Nancy Engle</name><affiliation><nlm:affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation></author><author><name sortKey="Doeppke, Crissa" sort="Doeppke, Crissa" uniqKey="Doeppke C" first="Crissa" last="Doeppke">Crissa Doeppke</name><affiliation><nlm:affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>National Renewable Energy Laboratory Golden CO USA.</nlm:affiliation><wicri:noCountry code="no comma">National Renewable Energy Laboratory Golden CO USA.</wicri:noCountry></affiliation></author><author><name sortKey="Tschaplinski, Timothy J" sort="Tschaplinski, Timothy J" uniqKey="Tschaplinski T" first="Timothy J" last="Tschaplinski">Timothy J. Tschaplinski</name><affiliation><nlm:affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation></author><author><name sortKey="Davis, Mark F" sort="Davis, Mark F" uniqKey="Davis M" first="Mark F" last="Davis">Mark F. Davis</name><affiliation><nlm:affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>National Renewable Energy Laboratory Golden CO USA.</nlm:affiliation><wicri:noCountry code="no comma">National Renewable Energy Laboratory Golden CO USA.</wicri:noCountry></affiliation></author><author><name sortKey="Lindquist, Erika" sort="Lindquist, Erika" uniqKey="Lindquist E" first="Erika" last="Lindquist">Erika Lindquist</name><affiliation><nlm:affiliation>U.S. Department of Energy Joint Genome Institute Walnut Creek CA USA.</nlm:affiliation><wicri:noCountry code="no comma">U.S. Department of Energy Joint Genome Institute Walnut Creek CA USA.</wicri:noCountry></affiliation></author><author><name sortKey="Barry, Kerrie" sort="Barry, Kerrie" uniqKey="Barry K" first="Kerrie" last="Barry">Kerrie Barry</name><affiliation><nlm:affiliation>U.S. Department of Energy Joint Genome Institute Walnut Creek CA USA.</nlm:affiliation><wicri:noCountry code="no comma">U.S. Department of Energy Joint Genome Institute Walnut Creek CA USA.</wicri:noCountry></affiliation></author><author><name sortKey="Schmutz, Jeremy" sort="Schmutz, Jeremy" uniqKey="Schmutz J" first="Jeremy" last="Schmutz">Jeremy Schmutz</name><affiliation><nlm:affiliation>U.S. Department of Energy Joint Genome Institute Walnut Creek CA USA.</nlm:affiliation><wicri:noCountry code="no comma">U.S. Department of Energy Joint Genome Institute Walnut Creek CA USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>HudsonAlpha Institute for Biotechnology Huntsville AL USA.</nlm:affiliation><wicri:noCountry code="no comma">HudsonAlpha Institute for Biotechnology Huntsville AL USA.</wicri:noCountry></affiliation></author><author><name sortKey="Parrott, Wayne A" sort="Parrott, Wayne A" uniqKey="Parrott W" first="Wayne A" last="Parrott">Wayne A. Parrott</name><affiliation><nlm:affiliation>Department of Crop and Soil Sciences University of Georgia Athens GA USA.</nlm:affiliation><wicri:noCountry code="no comma">Department of Crop and Soil Sciences University of Georgia Athens GA USA.</wicri:noCountry></affiliation></author><author><name sortKey="Chen, Feng" sort="Chen, Feng" uniqKey="Chen F" first="Feng" last="Chen">Feng Chen</name><affiliation><nlm:affiliation>Department of Plant Sciences University of Tennessee Knoxville TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Department of Plant Sciences University of Tennessee Knoxville TN USA.</wicri:noCountry></affiliation></author><author><name sortKey="Tuskan, Gerald A" sort="Tuskan, Gerald A" uniqKey="Tuskan G" first="Gerald A" last="Tuskan">Gerald A. Tuskan</name><affiliation><nlm:affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation></author><author><name sortKey="Chen, Jin Gui" sort="Chen, Jin Gui" uniqKey="Chen J" first="Jin-Gui" last="Chen">Jin-Gui Chen</name><affiliation><nlm:affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation></author><author><name sortKey="Muchero, Wellington" sort="Muchero, Wellington" uniqKey="Muchero W" first="Wellington" last="Muchero">Wellington Muchero</name><affiliation><nlm:affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2020">2020</date><idno type="RBID">pubmed:31911959</idno><idno type="pmid">31911959</idno><idno type="doi">10.1002/pld3.178</idno><idno type="pmc">PMC6941116</idno><idno type="wicri:Area/Main/Corpus">000523</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">000523</idno><idno type="wicri:Area/Main/Curation">000523</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Curation">000523</idno><idno type="wicri:Area/Main/Exploration">000523</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Identification of functional single nucleotide polymorphism of <i>Populus trichocarpa PtrEPSP-TF</i> and determination of its transcriptional effect.</title><author><name sortKey="Xie, Meng" sort="Xie, Meng" uniqKey="Xie M" first="Meng" last="Xie">Meng Xie</name><affiliation><nlm:affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>Department of Plant Sciences University of Tennessee Knoxville TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Department of Plant Sciences University of Tennessee Knoxville TN USA.</wicri:noCountry></affiliation></author><author><name sortKey="Zhang, Jin" sort="Zhang, Jin" uniqKey="Zhang J" first="Jin" last="Zhang">Jin Zhang</name><affiliation><nlm:affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation></author><author><name sortKey="Singan, Vasanth R" sort="Singan, Vasanth R" uniqKey="Singan V" first="Vasanth R" last="Singan">Vasanth R. Singan</name><affiliation><nlm:affiliation>U.S. Department of Energy Joint Genome Institute Walnut Creek CA USA.</nlm:affiliation><wicri:noCountry code="no comma">U.S. Department of Energy Joint Genome Institute Walnut Creek CA USA.</wicri:noCountry></affiliation></author><author><name sortKey="Mcgranahan, Melissa J" sort="Mcgranahan, Melissa J" uniqKey="Mcgranahan M" first="Melissa J" last="Mcgranahan">Melissa J. Mcgranahan</name><affiliation><nlm:affiliation>Department of Crop and Soil Sciences University of Georgia Athens GA USA.</nlm:affiliation><wicri:noCountry code="no comma">Department of Crop and Soil Sciences University of Georgia Athens GA USA.</wicri:noCountry></affiliation></author><author><name sortKey="Lafayette, Peter R" sort="Lafayette, Peter R" uniqKey="Lafayette P" first="Peter R" last="Lafayette">Peter R. Lafayette</name><affiliation><nlm:affiliation>Department of Crop and Soil Sciences University of Georgia Athens GA USA.</nlm:affiliation><wicri:noCountry code="no comma">Department of Crop and Soil Sciences University of Georgia Athens GA USA.</wicri:noCountry></affiliation></author><author><name sortKey="Jawdy, Sara S" sort="Jawdy, Sara S" uniqKey="Jawdy S" first="Sara S" last="Jawdy">Sara S. Jawdy</name><affiliation><nlm:affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation></author><author><name sortKey="Engle, Nancy" sort="Engle, Nancy" uniqKey="Engle N" first="Nancy" last="Engle">Nancy Engle</name><affiliation><nlm:affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation></author><author><name sortKey="Doeppke, Crissa" sort="Doeppke, Crissa" uniqKey="Doeppke C" first="Crissa" last="Doeppke">Crissa Doeppke</name><affiliation><nlm:affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>National Renewable Energy Laboratory Golden CO USA.</nlm:affiliation><wicri:noCountry code="no comma">National Renewable Energy Laboratory Golden CO USA.</wicri:noCountry></affiliation></author><author><name sortKey="Tschaplinski, Timothy J" sort="Tschaplinski, Timothy J" uniqKey="Tschaplinski T" first="Timothy J" last="Tschaplinski">Timothy J. Tschaplinski</name><affiliation><nlm:affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation></author><author><name sortKey="Davis, Mark F" sort="Davis, Mark F" uniqKey="Davis M" first="Mark F" last="Davis">Mark F. Davis</name><affiliation><nlm:affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>National Renewable Energy Laboratory Golden CO USA.</nlm:affiliation><wicri:noCountry code="no comma">National Renewable Energy Laboratory Golden CO USA.</wicri:noCountry></affiliation></author><author><name sortKey="Lindquist, Erika" sort="Lindquist, Erika" uniqKey="Lindquist E" first="Erika" last="Lindquist">Erika Lindquist</name><affiliation><nlm:affiliation>U.S. Department of Energy Joint Genome Institute Walnut Creek CA USA.</nlm:affiliation><wicri:noCountry code="no comma">U.S. Department of Energy Joint Genome Institute Walnut Creek CA USA.</wicri:noCountry></affiliation></author><author><name sortKey="Barry, Kerrie" sort="Barry, Kerrie" uniqKey="Barry K" first="Kerrie" last="Barry">Kerrie Barry</name><affiliation><nlm:affiliation>U.S. Department of Energy Joint Genome Institute Walnut Creek CA USA.</nlm:affiliation><wicri:noCountry code="no comma">U.S. Department of Energy Joint Genome Institute Walnut Creek CA USA.</wicri:noCountry></affiliation></author><author><name sortKey="Schmutz, Jeremy" sort="Schmutz, Jeremy" uniqKey="Schmutz J" first="Jeremy" last="Schmutz">Jeremy Schmutz</name><affiliation><nlm:affiliation>U.S. Department of Energy Joint Genome Institute Walnut Creek CA USA.</nlm:affiliation><wicri:noCountry code="no comma">U.S. Department of Energy Joint Genome Institute Walnut Creek CA USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>HudsonAlpha Institute for Biotechnology Huntsville AL USA.</nlm:affiliation><wicri:noCountry code="no comma">HudsonAlpha Institute for Biotechnology Huntsville AL USA.</wicri:noCountry></affiliation></author><author><name sortKey="Parrott, Wayne A" sort="Parrott, Wayne A" uniqKey="Parrott W" first="Wayne A" last="Parrott">Wayne A. Parrott</name><affiliation><nlm:affiliation>Department of Crop and Soil Sciences University of Georgia Athens GA USA.</nlm:affiliation><wicri:noCountry code="no comma">Department of Crop and Soil Sciences University of Georgia Athens GA USA.</wicri:noCountry></affiliation></author><author><name sortKey="Chen, Feng" sort="Chen, Feng" uniqKey="Chen F" first="Feng" last="Chen">Feng Chen</name><affiliation><nlm:affiliation>Department of Plant Sciences University of Tennessee Knoxville TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Department of Plant Sciences University of Tennessee Knoxville TN USA.</wicri:noCountry></affiliation></author><author><name sortKey="Tuskan, Gerald A" sort="Tuskan, Gerald A" uniqKey="Tuskan G" first="Gerald A" last="Tuskan">Gerald A. Tuskan</name><affiliation><nlm:affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation></author><author><name sortKey="Chen, Jin Gui" sort="Chen, Jin Gui" uniqKey="Chen J" first="Jin-Gui" last="Chen">Jin-Gui Chen</name><affiliation><nlm:affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation></author><author><name sortKey="Muchero, Wellington" sort="Muchero, Wellington" uniqKey="Muchero W" first="Wellington" last="Muchero">Wellington Muchero</name><affiliation><nlm:affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation><affiliation><nlm:affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</nlm:affiliation><wicri:noCountry code="no comma">Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</wicri:noCountry></affiliation></author></analytic><series><title level="j">Plant direct</title><idno type="eISSN">2475-4455</idno><imprint><date when="2020" type="published">2020</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">In plants, the phenylpropanoid pathway is responsible for the synthesis of a diverse array of secondary metabolites that include lignin monomers, flavonoids, and coumarins, many of which are essential for plant structure, biomass recalcitrance, stress defense, and nutritional quality. Our previous studies have demonstrated that <i>Populus trichocarpa</i> PtrEPSP-TF, an isoform of 5-enolpyruvylshikimate 3-phosphate (EPSP) synthase, has transcriptional activity and regulates phenylpropanoid biosynthesis in <i>Populus</i>. In this study, we report the identification of single nucleotide polymorphism (SNP) of <i>PtrEPSP-TF</i> that defines its functionality. <i>Populus</i> natural variants carrying this SNP were shown to have reduced lignin content. Here, we demonstrated that the SNP-induced substitution of 142nd amino acid (PtrEPSP-TF<sup>D142E</sup>) dramatically impairs the DNA-binding and transcriptional activity of PtrEPSP-TF. When introduced to a monocot species rice (<i>Oryza sativa</i>) in which an EPSP synthase isoform with the DNA-binding helix-turn-helix (HTH) motif is absent, the PtrEPSP-TF, but not PtrEPSP-TF<sup>D142E</sup>, activated genes in the phenylpropanoid pathway. More importantly, heterologous expression of <i>PtrEPSP-TF</i> uncovered five new transcriptional regulators of phenylpropanoid biosynthesis in rice. Collectively, this study identifies the key amino acid required for PtrEPSP-TF functionality and provides a strategy to uncover new transcriptional regulators in phenylpropanoid biosynthesis.</div></front></TEI><pubmed><MedlineCitation Status="PubMed-not-MEDLINE" Owner="NLM"><PMID Version="1">31911959</PMID><DateRevised><Year>2020</Year><Month>10</Month><Day>01</Day></DateRevised><Article PubModel="Electronic-eCollection"><Journal><ISSN IssnType="Electronic">2475-4455</ISSN><JournalIssue CitedMedium="Internet"><Volume>4</Volume><Issue>1</Issue><PubDate><Year>2020</Year><Month>Jan</Month></PubDate></JournalIssue><Title>Plant direct</Title><ISOAbbreviation>Plant Direct</ISOAbbreviation></Journal><ArticleTitle>Identification of functional single nucleotide polymorphism of <i>Populus trichocarpa PtrEPSP-TF</i> and determination of its transcriptional effect.</ArticleTitle><Pagination><MedlinePgn>e00178</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1002/pld3.178</ELocationID><Abstract><AbstractText>In plants, the phenylpropanoid pathway is responsible for the synthesis of a diverse array of secondary metabolites that include lignin monomers, flavonoids, and coumarins, many of which are essential for plant structure, biomass recalcitrance, stress defense, and nutritional quality. Our previous studies have demonstrated that <i>Populus trichocarpa</i> PtrEPSP-TF, an isoform of 5-enolpyruvylshikimate 3-phosphate (EPSP) synthase, has transcriptional activity and regulates phenylpropanoid biosynthesis in <i>Populus</i>. In this study, we report the identification of single nucleotide polymorphism (SNP) of <i>PtrEPSP-TF</i> that defines its functionality. <i>Populus</i> natural variants carrying this SNP were shown to have reduced lignin content. Here, we demonstrated that the SNP-induced substitution of 142nd amino acid (PtrEPSP-TF<sup>D142E</sup>) dramatically impairs the DNA-binding and transcriptional activity of PtrEPSP-TF. When introduced to a monocot species rice (<i>Oryza sativa</i>) in which an EPSP synthase isoform with the DNA-binding helix-turn-helix (HTH) motif is absent, the PtrEPSP-TF, but not PtrEPSP-TF<sup>D142E</sup>, activated genes in the phenylpropanoid pathway. More importantly, heterologous expression of <i>PtrEPSP-TF</i> uncovered five new transcriptional regulators of phenylpropanoid biosynthesis in rice. Collectively, this study identifies the key amino acid required for PtrEPSP-TF functionality and provides a strategy to uncover new transcriptional regulators in phenylpropanoid biosynthesis.</AbstractText><CopyrightInformation>© 2020 The Authors. Plant Direct published by American Society of Plant Biologists, Society for Experimental Biology and John Wiley & Sons Ltd.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Xie</LastName><ForeName>Meng</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Department of Plant Sciences University of Tennessee Knoxville TN USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Jin</ForeName><Initials>J</Initials><AffiliationInfo><Affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Singan</LastName><ForeName>Vasanth R</ForeName><Initials>VR</Initials><AffiliationInfo><Affiliation>U.S. Department of Energy Joint Genome Institute Walnut Creek CA USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>McGranahan</LastName><ForeName>Melissa J</ForeName><Initials>MJ</Initials><AffiliationInfo><Affiliation>Department of Crop and Soil Sciences University of Georgia Athens GA USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>LaFayette</LastName><ForeName>Peter R</ForeName><Initials>PR</Initials><AffiliationInfo><Affiliation>Department of Crop and Soil Sciences University of Georgia Athens GA USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Jawdy</LastName><ForeName>Sara S</ForeName><Initials>SS</Initials><AffiliationInfo><Affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Engle</LastName><ForeName>Nancy</ForeName><Initials>N</Initials><AffiliationInfo><Affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Doeppke</LastName><ForeName>Crissa</ForeName><Initials>C</Initials><AffiliationInfo><Affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>National Renewable Energy Laboratory Golden CO USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Tschaplinski</LastName><ForeName>Timothy J</ForeName><Initials>TJ</Initials><AffiliationInfo><Affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Davis</LastName><ForeName>Mark F</ForeName><Initials>MF</Initials><AffiliationInfo><Affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>National Renewable Energy Laboratory Golden CO USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Lindquist</LastName><ForeName>Erika</ForeName><Initials>E</Initials><AffiliationInfo><Affiliation>U.S. Department of Energy Joint Genome Institute Walnut Creek CA USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Barry</LastName><ForeName>Kerrie</ForeName><Initials>K</Initials><AffiliationInfo><Affiliation>U.S. Department of Energy Joint Genome Institute Walnut Creek CA USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Schmutz</LastName><ForeName>Jeremy</ForeName><Initials>J</Initials><AffiliationInfo><Affiliation>U.S. Department of Energy Joint Genome Institute Walnut Creek CA USA.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>HudsonAlpha Institute for Biotechnology Huntsville AL USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Parrott</LastName><ForeName>Wayne A</ForeName><Initials>WA</Initials><AffiliationInfo><Affiliation>Department of Crop and Soil Sciences University of Georgia Athens GA USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Chen</LastName><ForeName>Feng</ForeName><Initials>F</Initials><AffiliationInfo><Affiliation>Department of Plant Sciences University of Tennessee Knoxville TN USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Tuskan</LastName><ForeName>Gerald A</ForeName><Initials>GA</Initials><AffiliationInfo><Affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Chen</LastName><ForeName>Jin-Gui</ForeName><Initials>JG</Initials><AffiliationInfo><Affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Muchero</LastName><ForeName>Wellington</ForeName><Initials>W</Initials><AffiliationInfo><Affiliation>Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN USA.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Biosciences Division Oak Ridge National Laboratory Oak Ridge TN USA.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2020</Year><Month>01</Month><Day>03</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Plant Direct</MedlineTA><NlmUniqueID>101716131</NlmUniqueID><ISSNLinking>2475-4455</ISSNLinking></MedlineJournalInfo><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">DNA binding</Keyword><Keyword MajorTopicYN="N">EPSP synthase</Keyword><Keyword MajorTopicYN="N">phenylpropanoid</Keyword><Keyword MajorTopicYN="N">rice</Keyword><Keyword MajorTopicYN="N">transcriptional regulation</Keyword></KeywordList><CoiStatement>The authors declare no conflict of interest associated with the work described in this manuscript.</CoiStatement></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2019</Year><Month>05</Month><Day>21</Day></PubMedPubDate><PubMedPubDate PubStatus="revised"><Year>2019</Year><Month>09</Month><Day>17</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2019</Year><Month>10</Month><Day>02</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2020</Year><Month>1</Month><Day>9</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2020</Year><Month>1</Month><Day>9</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2020</Year><Month>1</Month><Day>9</Day><Hour>6</Hour><Minute>1</Minute></PubMedPubDate></History><PublicationStatus>epublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">31911959</ArticleId><ArticleId IdType="doi">10.1002/pld3.178</ArticleId><ArticleId IdType="pii">PLD3178</ArticleId><ArticleId 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