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Tarkowski ŁP, Clochard T, Blein-Nicolas M, Zivy M, Baillau T, Abadie C, Morère-Le Paven MC, Limami AM, Tcherkez G, Montrichard F. The nitrate transporter-sensor MtNPF6.8 regulates the branched chain amino acid/pantothenate metabolic pathway in barrel medic (Medicago truncatula Gaertn.) root tip. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2024; 206:108213. [PMID: 38043253 DOI: 10.1016/j.plaphy.2023.108213] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/15/2023] [Revised: 11/02/2023] [Accepted: 11/19/2023] [Indexed: 12/05/2023]
Abstract
Nitrogen is the most limiting nutrient for plants, and it is preferentially absorbed in the form of nitrate by roots, which adapt to nitrate fluctuations by remodelling their architecture. Although core mechanisms of the response to nitrate availability are relatively well-known, signalling events controlling root growth and architecture have not all been identified, in particular in Legumes. However, the developmental effect of nitrate in Legumes is critical since external nitrate not only regulates root architecture but also N2-fixing nodule development. We have previously shown that in barrel medic (Medicago truncatula), the nitrate transporter MtNPF6.8 is required for nitrate sensitivity in root tip. However, uncertainty remains as to whether nitrogen metabolism itself is involved in the MtNPF6.8-mediated response. Here, we examine the metabolic effects of MtNPF6.8-dependent nitrate signalling using metabolomics and proteomics in WT and mtnpf6.8 root tips in presence or absence of nitrate. We found a reorchestration of metabolism due to the mutation, in favour of the branched chain amino acids/pantothenate metabolic pathway, and lipid catabolism via glyoxylate. That is, the mtnpf6.8 mutation was likely associated with a specific rerouting of acetyl-CoA production (glyoxylic cycle) and utilisation (pantothenate and branched chain amino acid synthesis). In agreement with our previous findings, class III peroxidases were confirmed as the main protein class responsive to nitrate, although in an MtNPF6.8-independent fashion. Our data rather suggest the involvement of other pathways within mtnpf6.8 root tips, such as Ca2+ signalling or cell wall methylation.
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Affiliation(s)
| | | | - Mélisande Blein-Nicolas
- GQE - Le Moulon, Université Paris-Saclay, INRAE, CNRS, AgroParisTech, Gif-sur-Yvette, France
| | - Michel Zivy
- GQE - Le Moulon, Université Paris-Saclay, INRAE, CNRS, AgroParisTech, Gif-sur-Yvette, France
| | - Thierry Baillau
- GQE - Le Moulon, Université Paris-Saclay, INRAE, CNRS, AgroParisTech, Gif-sur-Yvette, France
| | - Cyril Abadie
- Univ Angers, Institut Agro, INRAE, IRHS, SFR QUASAV, Angers, France
| | | | - Anis M Limami
- Univ Angers, Institut Agro, INRAE, IRHS, SFR QUASAV, Angers, France
| | - Guillaume Tcherkez
- Univ Angers, Institut Agro, INRAE, IRHS, SFR QUASAV, Angers, France; Research School of Biology, ANU Joint College of Sciences, Australian National University, Canberra, Australia
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Yu YC, Dickstein R, Longo A. Structural Modeling and in planta Complementation Studies Link Mutated Residues of the Medicago truncatula Nitrate Transporter NPF1.7 to Functionality in Root Nodules. FRONTIERS IN PLANT SCIENCE 2021; 12:685334. [PMID: 34276736 PMCID: PMC8282211 DOI: 10.3389/fpls.2021.685334] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/25/2021] [Accepted: 05/17/2021] [Indexed: 05/25/2023]
Abstract
Symbiotic nitrogen fixation is a complex and regulated process that takes place in root nodules of legumes and allows legumes to grow in soils that lack nitrogen. Nitrogen is mostly acquired from the soil as nitrate and its level in the soil affects nodulation and nitrogen fixation. The mechanism(s) by which legumes modulate nitrate uptake to regulate nodule symbiosis remain unclear. In Medicago truncatula, the MtNPF1.7 transporter has been shown to control nodulation, symbiosis, and root architecture. MtNPF1.7 belongs to the nitrate/peptide transporter family and is a symporter with nitrate transport driven by proton(s). In this study we combined in silico structural predictions with in planta complementation of the severely defective mtnip-1 mutant plants to understand the role of a series of distinct amino acids in the transporter's function. Our results support hypotheses about the functional importance of the ExxE(R/K) motif including an essential role for the first glutamic acid of the motif in proton(s) and possibly substrate transport. Results reveal that Motif A, a motif conserved among major facilitator transport (MFS) proteins, is essential for function. We hypothesize that it participates in intradomain packing of transmembrane helices and stabilizing one conformation during transport. Our results also question the existence of a putative TMH4-TMH10 salt bridge. These results are discussed in the context of potential nutrient transport functions for MtNPF1.7. Our findings add to the knowledge of the mechanism of alternative conformational changes as well as symport transport in NPFs and enhance our knowledge of the mechanisms for nitrate signaling.
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The Expression Characteristics of NPF Genes and Their Response to Vernalization and Nitrogen Deficiency in Rapeseed. Int J Mol Sci 2021; 22:ijms22094944. [PMID: 34066572 PMCID: PMC8125141 DOI: 10.3390/ijms22094944] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2021] [Revised: 05/01/2021] [Accepted: 05/03/2021] [Indexed: 11/24/2022] Open
Abstract
The NITRATE TRANSPORTER 1/PEPTIDE TRANSPORTER FAMILY (NPF) genes, initially characterized as nitrate or peptide transporters in plants, are involved in the transport of a large variety of substrates, including amino acids, nitrate, auxin (IAA), jasmonates (JAs), abscisic acid (ABA) and gibberellins (GAs) and glucosinolates. A total of 169 potential functional NPF genes were excavated in Brassica napus, and they showed diversified expression patterns in 90 different organs or tissues based on transcriptome profile data. The complex time-serial expression changes were found for most functional NPF genes in the development process of leaves, silique walls and seeds, which indicated that the expression of Brassica napus NPF (BnaNPF) genes may respond to altered phytohormone and secondary metabolite content through combining with promoter element enrichment analysis. Furthermore, many BnaNPF genes were detected to respond to vernalization with two different patterns, and 20 BnaNPF genes responded to nitrate deficiency. These results will provide useful information for further investigation of the biological function of BnaNPF genes for growth and development in rapeseed.
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Pellizzaro A, Alibert B, Planchet E, Limami AM, Morère-Le Paven MC. Nitrate transporters: an overview in legumes. PLANTA 2017; 246:585-595. [PMID: 28653185 DOI: 10.1007/s00425-017-2724-6] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/21/2017] [Accepted: 06/19/2017] [Indexed: 05/02/2023]
Abstract
The nitrate transporters, belonging to NPF and NRT2 families, play critical roles in nitrate signaling, root growth and nodule development in legumes. Nitrate plays an essential role during plant development as nutrient and also as signal molecule, in both cases working via the activity of nitrate transporters. To date, few studies on NRT2 or NPF nitrate transporters in legumes have been reported, and most of those concern Lotus japonicus and Medicago truncatula. A molecular characterization led to the identification of 4 putative LjNRT2 and 37 putative LjNPF gene sequences in L. japonicus. In M. truncatula, the NRT2 family is composed of 3 putative members. Using the new genome annotation of M. truncatula (Mt4.0), we identified, for this review, 97 putative MtNPF sequences, including 32 new sequences relative to previous studies. Functional characterization has been published for only two MtNPF genes, encoding nitrate transporters of M. truncatula. Both transporters have a role in root system development via abscisic acid signaling: MtNPF6.8 acts as a nitrate sensor during the cell elongation of the primary root, while MtNPF1.7 contributes to the cellular organization of the root tip and nodule formation. An in silico expression study of MtNPF genes confirmed that NPF genes are expressed in nodules, as previously shown for L. japonicus, suggesting a role for the corresponding proteins in nitrate transport, or signal perception in nodules. This review summarizes our knowledge of legume nitrate transporters and discusses new roles for these proteins based on recent discoveries.
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Affiliation(s)
- Anthoni Pellizzaro
- IRHS, Agrocampus Ouest, INRA, Université d'Angers, SFR 4207 QUASAV, 42 rue Georges Morel, 49071, Beaucouzé Cedex, France
| | - Bénédicte Alibert
- IRHS, Agrocampus Ouest, INRA, Université d'Angers, SFR 4207 QUASAV, 42 rue Georges Morel, 49071, Beaucouzé Cedex, France
| | - Elisabeth Planchet
- IRHS, Agrocampus Ouest, INRA, Université d'Angers, SFR 4207 QUASAV, 42 rue Georges Morel, 49071, Beaucouzé Cedex, France
| | - Anis M Limami
- IRHS, Agrocampus Ouest, INRA, Université d'Angers, SFR 4207 QUASAV, 42 rue Georges Morel, 49071, Beaucouzé Cedex, France
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Almeida P, de Boer GJ, de Boer AH. Differences in shoot Na+ accumulation between two tomato species are due to differences in ion affinity of HKT1;2. JOURNAL OF PLANT PHYSIOLOGY 2014; 171:438-47. [PMID: 24594396 DOI: 10.1016/j.jplph.2013.12.001] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/09/2013] [Revised: 12/02/2013] [Accepted: 12/02/2013] [Indexed: 05/21/2023]
Abstract
HKT1 has been shown to be essential in Na(+) homeostasis in plants. In this paper, we report the analysis of Na(+) accumulation in different plant organs of two tomato species with contrasting salt tolerances: Solanum lycopersicum and Solanum pennellii. Furthermore, we relate these differences in Na(+) accumulation between the two species to the differences in HKT1;2 transport kinetics and HKT1;2 expression. S. lycopersicum showed "Na(+) excluder" behaviour, whereas S. pennellii showed "Na(+) includer" behaviour. SlHKT1;2 expression, in contrast to SpHKT1;2 expression showed a significant effect of NaCl treatment, especially stems had a high increase in SlHKT1;2 expression. SlHKT1;2 promoter-GUS reporter gene analysis showed that SlHKT1;2 is expressed in the vasculature surrounding the roots and shoots of transformed Arabidopsis plants. In this paper, we present HKT1;2 protein sequences of both tomato species and provide evidence that both SlHKT1;2 and SpHKT1;2 are Na(+) transporters. Our kinetic studies showed that SpHKT1;2, in comparison with SlHKT1;2, had a lower affinity for Na(+). This low affinity of SpHKT1;2 correlated with higher xylem Na(+) and higher accumulation of Na(+) in stems and leaves of S. pennellii. Our findings demonstrate the importance of the understanding of transport characteristics of HKT1;2 transporters to improve the understanding of Na(+) homeostasis in plants.
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Affiliation(s)
- Pedro Almeida
- Vrije Universiteit, Faculty of Earth and Life Sciences, Department of Structural Biology, Room H057, De Boelelaan 1081-1087, 1081 HV Amsterdam, The Netherlands.
| | - Gert-Jan de Boer
- Enza Zaden, Oosterdijk Gebouw, P.O. Box 7, 1600 AA Enkhuizen, The Netherlands
| | - Albertus H de Boer
- Vrije Universiteit, Faculty of Earth and Life Sciences, Department of Structural Biology, Room H057, De Boelelaan 1081-1087, 1081 HV Amsterdam, The Netherlands
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Léran S, Varala K, Boyer JC, Chiurazzi M, Crawford N, Daniel-Vedele F, David L, Dickstein R, Fernandez E, Forde B, Gassmann W, Geiger D, Gojon A, Gong JM, Halkier BA, Harris JM, Hedrich R, Limami AM, Rentsch D, Seo M, Tsay YF, Zhang M, Coruzzi G, Lacombe B. A unified nomenclature of NITRATE TRANSPORTER 1/PEPTIDE TRANSPORTER family members in plants. TRENDS IN PLANT SCIENCE 2014; 19:5-9. [PMID: 24055139 DOI: 10.1016/j.tplants.2013.08.008] [Citation(s) in RCA: 365] [Impact Index Per Article: 36.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/29/2013] [Revised: 08/16/2013] [Accepted: 08/22/2013] [Indexed: 05/18/2023]
Abstract
Members of the plant NITRATE TRANSPORTER 1/PEPTIDE TRANSPORTER (NRT1/PTR) family display protein sequence homology with the SLC15/PepT/PTR/POT family of peptide transporters in animals. In comparison to their animal and bacterial counterparts, these plant proteins transport a wide variety of substrates: nitrate, peptides, amino acids, dicarboxylates, glucosinolates, IAA, and ABA. The phylogenetic relationship of the members of the NRT1/PTR family in 31 fully sequenced plant genomes allowed the identification of unambiguous clades, defining eight subfamilies. The phylogenetic tree was used to determine a unified nomenclature of this family named NPF, for NRT1/PTR FAMILY. We propose that the members should be named accordingly: NPFX.Y, where X denotes the subfamily and Y the individual member within the species.
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Affiliation(s)
- Sophie Léran
- Biochimie et Physiologie Moléculaire des Plantes, UMR CNRS/INRA/UM2/SupAgro, Institut de Biologie Intégrative des Plantes 'Claude Grignon', Place Viala, 34060 Montpellier, France
| | - Kranthi Varala
- Department of Biology, Center for Genomics and Systems Biology, New York University, 12 Waverly Place, New York, NY 10003, USA
| | - Jean-Christophe Boyer
- Biochimie et Physiologie Moléculaire des Plantes, UMR CNRS/INRA/UM2/SupAgro, Institut de Biologie Intégrative des Plantes 'Claude Grignon', Place Viala, 34060 Montpellier, France
| | - Maurizio Chiurazzi
- Institute of Genetics and Biophysics 'Adriano Buzzati-Traverso', CNR, Via Pietro Castellino 111, 80131 Naples, Italy
| | - Nigel Crawford
- Section of Cell and Developmental Biology, UC San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
| | - Françoise Daniel-Vedele
- INRA AgroParisTech, UMR1318 Institut Jean-Pierre Bourgin, RD10, 78026 Versailles Cedex, France
| | - Laure David
- INRA AgroParisTech, UMR1318 Institut Jean-Pierre Bourgin, RD10, 78026 Versailles Cedex, France
| | - Rebecca Dickstein
- Department of Biological Sciences, University of North Texas, 1155 Union Circle #305220, Denton, TX 76203, USA
| | - Emilio Fernandez
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa Baja E, Campus de Rabanales, E-14071, Córdoba, Spain
| | - Brian Forde
- Centre for Sustainable Agriculture, Lancaster Environment Centre, Lancaster University, Lancaster, LA1 4YQ, UK
| | - Walter Gassmann
- Division of Plant Sciences, CS Bond Life Sciences Center and Interdisciplinary Plant Group, University of Missouri, Columbia, MO 65211, USA
| | - Dietmar Geiger
- Universität Würzburg, Julius-von-Sachs-Institut für Biowissenschaften, Lehrstuhl für Molekulare Pflanzenphysiologie und Biophysik, Julius-von-Sachs-Platz 2, 97082 Würzburg, Germany
| | - Alain Gojon
- Biochimie et Physiologie Moléculaire des Plantes, UMR CNRS/INRA/UM2/SupAgro, Institut de Biologie Intégrative des Plantes 'Claude Grignon', Place Viala, 34060 Montpellier, France
| | - Ji-Ming Gong
- National Key Laboratory of Plant Molecular Genetics and National Center for Plant Gene Research (Shanghai), Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200032, China
| | - Barbara A Halkier
- DynaMo Centre of Excellence, Department of Plant and Environmental Sciences, Faculty of Science, University of Copenhagen, Thorvaldsensvej 40, 1871 Frederiksberg C, Denmark
| | - Jeanne M Harris
- Department of Plant Biology, 315 Jeffords Hall, 63 Carrigan Drive, University of Vermont, Burlington, VT 05405, USA
| | - Rainer Hedrich
- Universität Würzburg, Julius-von-Sachs-Institut für Biowissenschaften, Lehrstuhl für Molekulare Pflanzenphysiologie und Biophysik, Julius-von-Sachs-Platz 2, 97082 Würzburg, Germany
| | - Anis M Limami
- UMR 1345 Research Institute of Horticulture and Seeds (INRA, Agrocampus-Ouest, University of Angers), SFR 4207 Quasav, 2 Bd Lavoisier, 49045 Angers Cedex, France
| | - Doris Rentsch
- Institute of Plant Sciences, University of Bern, Altenbergrain 21, 3013 Bern, Switzerland
| | - Mitsunori Seo
- RIKEN Center for Sustainable Resource Science, Yokohama, Kanagawa 230-0045, Japan
| | - Yi-Fang Tsay
- Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan
| | - Mingyong Zhang
- Key Laboratory of Plant Resources Conservation and Sustainable Utilization, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou 510650, China
| | - Gloria Coruzzi
- Department of Biology, Center for Genomics and Systems Biology, New York University, 12 Waverly Place, New York, NY 10003, USA
| | - Benoît Lacombe
- Biochimie et Physiologie Moléculaire des Plantes, UMR CNRS/INRA/UM2/SupAgro, Institut de Biologie Intégrative des Plantes 'Claude Grignon', Place Viala, 34060 Montpellier, France.
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Łotocka B, Kopcińska J, Skalniak M. Review article: The meristem in indeterminate root nodules of Faboideae. Symbiosis 2012; 58:63-72. [PMID: 23482442 PMCID: PMC3589660 DOI: 10.1007/s13199-013-0225-3] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2012] [Accepted: 01/14/2013] [Indexed: 11/30/2022]
Abstract
In this review, the anatomy of indeterminate legume root nodule is briefly summarized. Next, the indeterminate nodule meristem activity, organization and cell ultrastructure are described in species with a distinct nodule meristem zonation. Finally, the putative primary endogenous factors controlling nodule meristem maintenance are discussed in the context of the well-studied root apical meristem (RAM) of Arabidopsis thaliana.
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Affiliation(s)
- Barbara Łotocka
- Department of Botany, Faculty of Agriculture and Biology, Warsaw University of Life Sciences – SGGW, Nowoursynowska 159, 02-776 Warsaw, Poland
| | - Joanna Kopcińska
- Department of Botany, Faculty of Agriculture and Biology, Warsaw University of Life Sciences – SGGW, Nowoursynowska 159, 02-776 Warsaw, Poland
| | - Monika Skalniak
- Department of Botany, Faculty of Agriculture and Biology, Warsaw University of Life Sciences – SGGW, Nowoursynowska 159, 02-776 Warsaw, Poland
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