PoplarV1, Main, Exploration, bibRecord, 002454

The nitrate transporter (NRT) gene family in poplar.

Identifieur interne : 002454 ( Main/Exploration ); précédent : 002453; suivant : 002455

The nitrate transporter (NRT) gene family in poplar.

Auteurs : Hua Bai [Allemagne] ; Dejuan Euring ; Katharina Volmer ; Dennis Janz ; Andrea Polle

Source :

PloS one [ 1932-6203 ] ; 2013.

RBID : pubmed:23977227

Descripteurs français

KwdFr :
- Analyse de regroupements (MeSH), Bois (génétique), Bois (métabolisme), Famille multigénique (MeSH), Feuilles de plante (génétique), Feuilles de plante (métabolisme), Phylogenèse (MeSH), Populus (génétique), Populus (métabolisme), Protéines végétales (génétique), Protéines végétales (métabolisme), Racines de plante (génétique), Racines de plante (métabolisme), Régions promotrices (génétique) (MeSH), Régulation de l'expression des gènes végétaux (MeSH), Spécificité d'organe (MeSH), Transcriptome (MeSH), Transporteurs d'anions (génétique), Transporteurs d'anions (métabolisme), Écorce (génétique), Écorce (métabolisme).
MESH :
- génétique : Bois, Feuilles de plante, Populus, Protéines végétales, Racines de plante, Transporteurs d'anions, Écorce.
- métabolisme : Bois, Feuilles de plante, Populus, Protéines végétales, Racines de plante, Transporteurs d'anions, Écorce.
- Analyse de regroupements, Famille multigénique, Phylogenèse, Régions promotrices (génétique), Régulation de l'expression des gènes végétaux, Spécificité d'organe, Transcriptome.

English descriptors

KwdEn :
- Anion Transport Proteins (genetics), Anion Transport Proteins (metabolism), Cluster Analysis (MeSH), Gene Expression Regulation, Plant (MeSH), Multigene Family (MeSH), Organ Specificity (MeSH), Phylogeny (MeSH), Plant Bark (genetics), Plant Bark (metabolism), Plant Leaves (genetics), Plant Leaves (metabolism), Plant Proteins (genetics), Plant Proteins (metabolism), Plant Roots (genetics), Plant Roots (metabolism), Populus (genetics), Populus (metabolism), Promoter Regions, Genetic (MeSH), Transcriptome (MeSH), Wood (genetics), Wood (metabolism).
MESH :
- chemical , genetics : Anion Transport Proteins, Plant Proteins.
- chemical , metabolism : Anion Transport Proteins, Plant Proteins.
- genetics : Plant Bark, Plant Leaves, Plant Roots, Populus, Wood.
- metabolism : Plant Bark, Plant Leaves, Plant Roots, Populus, Wood.
- Cluster Analysis, Gene Expression Regulation, Plant, Multigene Family, Organ Specificity, Phylogeny, Promoter Regions, Genetic, Transcriptome.

Abstract

Nitrate is an important nutrient required for plant growth. It also acts as a signal regulating plant development. Nitrate is actively taken up and transported by nitrate transporters (NRT), which form a large family with many members and distinct functions. In contrast to Arabidopsis and rice there is little information about the NRT family in woody plants such as Populus. In this study, a comprehensive analysis of the Populus NRT family was performed. Sixty-eight PtNRT1/PTR, 6 PtNRT2, and 5 PtNRT3 genes were identified in the P. trichocarpa genome. Phylogenetic analysis confirmed that the genes of the NRT family are divided into three clades: NRT1/PTR with four subclades, NRT2, and NRT3. Topological analysis indicated that all members of PtNRT1/PTR and PtNRT2 have 8 to 12 trans-membrane domains, whereas the PtNRT3 proteins have no or up to two trans-membrane domains. Four PtNRT3 members were predicted as secreted proteins. Microarray analyses revealed tissue-specific expression patterns of PtNRT genes with distinct clusters of NRTs for roots, for the elongation zone of the apical stem segment and the developing xylem and a further cluster for leaves, bark and wood. A comparison of different poplar species (P. trichocarpa, P. tremula, P. euphratica, P. fremontii x P. angustifolia, and P. x canescens) showed that the tissue-specific patterns of the NRT genes varied to some extent with species. Bioinformatic analysis of putative cis-regulatory elements in the promoter regions of PtNRT family retrieved motifs suggesting the regulation of the NRT genes by N metabolism, by energy and carbon metabolism, and by phytohormones and stress. Multivariate analysis suggested that the combination and abundance of motifs in distinct promoters may lead to tissue-specificity. Our genome wide analysis of the PtNRT genes provides a valuable basis for functional analysis towards understanding the role of nitrate transporters for tree growth.

DOI: 10.1371/journal.pone.0072126
PubMed: 23977227
PubMed Central: PMC3747271

Affiliations:

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Le document en format XML

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<front><div type="abstract" xml:lang="en">Nitrate is an important nutrient required for plant growth. It also acts as a signal regulating plant development. Nitrate is actively taken up and transported by nitrate transporters (NRT), which form a large family with many members and distinct functions. In contrast to Arabidopsis and rice there is little information about the NRT family in woody plants such as Populus. In this study, a comprehensive analysis of the Populus NRT family was performed. Sixty-eight PtNRT1/PTR, 6 PtNRT2, and 5 PtNRT3 genes were identified in the P. trichocarpa genome. Phylogenetic analysis confirmed that the genes of the NRT family are divided into three clades: NRT1/PTR with four subclades, NRT2, and NRT3. Topological analysis indicated that all members of PtNRT1/PTR and PtNRT2 have 8 to 12 trans-membrane domains, whereas the PtNRT3 proteins have no or up to two trans-membrane domains. Four PtNRT3 members were predicted as secreted proteins. Microarray analyses revealed tissue-specific expression patterns of PtNRT genes with distinct clusters of NRTs for roots, for the elongation zone of the apical stem segment and the developing xylem and a further cluster for leaves, bark and wood. A comparison of different poplar species (P. trichocarpa, P. tremula, P. euphratica, P. fremontii x P. angustifolia, and P. x canescens) showed that the tissue-specific patterns of the NRT genes varied to some extent with species. Bioinformatic analysis of putative cis-regulatory elements in the promoter regions of PtNRT family retrieved motifs suggesting the regulation of the NRT genes by N metabolism, by energy and carbon metabolism, and by phytohormones and stress. Multivariate analysis suggested that the combination and abundance of motifs in distinct promoters may lead to tissue-specificity. Our genome wide analysis of the PtNRT genes provides a valuable basis for functional analysis towards understanding the role of nitrate transporters for tree growth. </div>
</front>
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<Abstract><AbstractText>Nitrate is an important nutrient required for plant growth. It also acts as a signal regulating plant development. Nitrate is actively taken up and transported by nitrate transporters (NRT), which form a large family with many members and distinct functions. In contrast to Arabidopsis and rice there is little information about the NRT family in woody plants such as Populus. In this study, a comprehensive analysis of the Populus NRT family was performed. Sixty-eight PtNRT1/PTR, 6 PtNRT2, and 5 PtNRT3 genes were identified in the P. trichocarpa genome. Phylogenetic analysis confirmed that the genes of the NRT family are divided into three clades: NRT1/PTR with four subclades, NRT2, and NRT3. Topological analysis indicated that all members of PtNRT1/PTR and PtNRT2 have 8 to 12 trans-membrane domains, whereas the PtNRT3 proteins have no or up to two trans-membrane domains. Four PtNRT3 members were predicted as secreted proteins. Microarray analyses revealed tissue-specific expression patterns of PtNRT genes with distinct clusters of NRTs for roots, for the elongation zone of the apical stem segment and the developing xylem and a further cluster for leaves, bark and wood. A comparison of different poplar species (P. trichocarpa, P. tremula, P. euphratica, P. fremontii x P. angustifolia, and P. x canescens) showed that the tissue-specific patterns of the NRT genes varied to some extent with species. Bioinformatic analysis of putative cis-regulatory elements in the promoter regions of PtNRT family retrieved motifs suggesting the regulation of the NRT genes by N metabolism, by energy and carbon metabolism, and by phytohormones and stress. Multivariate analysis suggested that the combination and abundance of motifs in distinct promoters may lead to tissue-specificity. Our genome wide analysis of the PtNRT genes provides a valuable basis for functional analysis towards understanding the role of nitrate transporters for tree growth. </AbstractText>
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<ForeName>Hua</ForeName>
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<AffiliationInfo><Affiliation>Forstbotanik und Baumphysiologie, Georg-August Universität Göttingen, Göttingen, Germany.</Affiliation>
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<Author ValidYN="Y"><LastName>Volmer</LastName>
<ForeName>Katharina</ForeName>
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<Author ValidYN="Y"><LastName>Janz</LastName>
<ForeName>Dennis</ForeName>
<Initials>D</Initials>
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<Author ValidYN="Y"><LastName>Polle</LastName>
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<MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName>
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The nitrate transporter (NRT) gene family in poplar.

The nitrate transporter (NRT) gene family in poplar.

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