1
|
DeLoose M, Clúa J, Cho H, Zheng L, Masmoudi K, Desnos T, Krouk G, Nussaume L, Poirier Y, Rouached H. Recent advances in unraveling the mystery of combined nutrient stress in plants. Plant J 2024; 117:1764-1780. [PMID: 37921230 DOI: 10.1111/tpj.16511] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/07/2023] [Revised: 10/05/2023] [Accepted: 10/11/2023] [Indexed: 11/04/2023]
Abstract
Efficiently regulating growth to adapt to varying resource availability is crucial for organisms, including plants. In particular, the acquisition of essential nutrients is vital for plant development, as a shortage of just one nutrient can significantly decrease crop yield. However, plants constantly experience fluctuations in the presence of multiple essential mineral nutrients, leading to combined nutrient stress conditions. Unfortunately, our understanding of how plants perceive and respond to these multiple stresses remains limited. Unlocking this mystery could provide valuable insights and help enhance plant nutrition strategies. This review focuses specifically on the regulation of phosphorous homeostasis in plants, with a primary emphasis on recent studies that have shed light on the intricate interactions between phosphorous and other essential elements, such as nitrogen, iron, and zinc, as well as non-essential elements like aluminum and sodium. By summarizing and consolidating these findings, this review aims to contribute to a better understanding of how plants respond to and cope with combined nutrient stress.
Collapse
Affiliation(s)
- Megan DeLoose
- The Plant Resilience Institute, Michigan State University, East Lansing, Michigan, 48824, USA
- Department of Plant, Soil, and Microbial Sciences, Michigan State University, East Lansing, Michigan, 48824, USA
| | - Joaquin Clúa
- Department of Plant Molecular Biology, University of Lausanne, Biophore Building, 1015, Lausanne, Switzerland
| | - Huikyong Cho
- The Plant Resilience Institute, Michigan State University, East Lansing, Michigan, 48824, USA
- Department of Plant, Soil, and Microbial Sciences, Michigan State University, East Lansing, Michigan, 48824, USA
| | - Luqing Zheng
- College of Life Sciences, Nanjing Agricultural University, Nanjing, Jiangsu, 210095, China
| | - Khaled Masmoudi
- Department of Integrative Agriculture, College of Agriculture and Veterinary Medicine, United Arab Emirates University, Al-Ain, Abu Dhabi, United Arab Emirates
| | - Thierry Desnos
- Aix Marseille Univ, CEA, CNRS, BIAM, EBMP, UMR7265, Cité des énergies, 13115, Saint-Paul-lez-Durance, France
| | - Gabriel Krouk
- IPSiM, Univ. Montpellier, CNRS, INRAE, Montpellier, France
| | - Laurent Nussaume
- Aix Marseille Univ, CEA, CNRS, BIAM, EBMP, UMR7265, Cité des énergies, 13115, Saint-Paul-lez-Durance, France
| | - Yves Poirier
- Department of Plant Molecular Biology, University of Lausanne, Biophore Building, 1015, Lausanne, Switzerland
| | - Hatem Rouached
- The Plant Resilience Institute, Michigan State University, East Lansing, Michigan, 48824, USA
- Department of Plant, Soil, and Microbial Sciences, Michigan State University, East Lansing, Michigan, 48824, USA
| |
Collapse
|
2
|
Clúa J, Montpetit J, Jimenez-Sandoval P, Naumann C, Santiago J, Poirier Y. A CYBDOM protein impacts iron homeostasis and primary root growth under phosphate deficiency in Arabidopsis. Nat Commun 2024; 15:423. [PMID: 38212368 PMCID: PMC10784552 DOI: 10.1038/s41467-023-43911-x] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2022] [Accepted: 11/23/2023] [Indexed: 01/13/2024] Open
Abstract
Arabidopsis primary root growth response to phosphate (Pi) deficiency is mainly controlled by changes in apoplastic iron (Fe). Upon Pi deficiency, apoplastic Fe deposition in the root apical meristem activates pathways leading to the arrest of meristem maintenance and inhibition of cell elongation. Here, we report that a member of the uncharacterized cytochrome b561 and DOMON domain (CYBDOM) protein family, named CRR, promotes iron reduction in an ascorbate-dependent manner and controls apoplastic iron deposition. Under low Pi, the crr mutant shows an enhanced reduction of primary root growth associated with increased apoplastic Fe in the root meristem and a reduction in meristematic cell division. Conversely, CRR overexpression abolishes apoplastic Fe deposition rendering primary root growth insensitive to low Pi. The crr single mutant and crr hyp1 double mutant, harboring a null allele in another member of the CYDOM family, shows increased tolerance to high-Fe stress upon germination and seedling growth. Conversely, CRR overexpression is associated with increased uptake and translocation of Fe to the shoot and results in plants highly sensitive to Fe excess. Our results identify a ferric reductase implicated in Fe homeostasis and developmental responses to abiotic stress, and reveal a biological role for CYBDOM proteins in plants.
Collapse
Affiliation(s)
- Joaquín Clúa
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, 1015, Lausanne, Switzerland
| | - Jonatan Montpetit
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, 1015, Lausanne, Switzerland
| | - Pedro Jimenez-Sandoval
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, 1015, Lausanne, Switzerland
| | - Christin Naumann
- Department of Molecular Signal Processing, Leibniz Institute of Plant Biochemistry, Weinberg 3, 06120, Halle, Germany
| | - Julia Santiago
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, 1015, Lausanne, Switzerland
| | - Yves Poirier
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, 1015, Lausanne, Switzerland.
| |
Collapse
|
3
|
Vetal PV, Poirier Y. The Arabidopsis PHOSPHATE 1 exporter undergoes constitutive internalization via clathrin-mediated endocytosis. Plant J 2023; 116:1477-1491. [PMID: 37638714 DOI: 10.1111/tpj.16441] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/04/2023] [Revised: 08/11/2023] [Accepted: 08/16/2023] [Indexed: 08/29/2023]
Abstract
SUMMARYInorganic phosphate (Pi) homeostasis is essential for plant growth and depends on the transport of Pi across cells. In Arabidopsis thaliana, PHOSPHATE 1 (PHO1) is present in the root pericycle and xylem parenchyma where it exports Pi into the xylem apoplast for its transfer to shoots. PHO1 consists of a cytosolic SPX domain followed by membrane‐spanning α‐helices and ends with the EXS domain, which participates in the steady‐state localization of PHO1 to the Golgi and trans‐Golgi network (TGN). However, PHO1 exports Pi across the plasma membrane (PM), making its localization difficult to reconcile with its function. To investigate whether PHO1 transiently associates with the PM, we inhibited clathrin‐mediated endocytosis (CME) by overexpressing AUXILIN‐LIKE 2 or HUB1. Inhibiting CME resulted in PHO1 re‐localization from the Golgi/TGN to the PM when PHO1 was expressed in Arabidopsis root pericycle or epidermis or Nicotiana benthamiana leaf epidermal cells. A fusion protein between the PHO1 EXS region and GFP was stabilized at the PM by CME inhibition, indicating that the EXS domain plays an important role in sorting PHO1 to/from the PM. PHO1 internalization from the PM occurred independently of AP2 and was not influenced by Pi deficiency, the ubiquitin‐conjugating E2 PHO2, or the potential ubiquitination of cytosolic lysines in the EXS domain. PM‐stabilized PHO1 showed reduced root‐to‐shoot Pi export activity, indicating that CME of PHO1 may be important for its optimal Pi export activity and plant Pi homeostasis.
Collapse
Affiliation(s)
- Pallavi V Vetal
- Department of Plant Molecular Biology, University of Lausanne, 1015, Lausanne, Switzerland
| | - Yves Poirier
- Department of Plant Molecular Biology, University of Lausanne, 1015, Lausanne, Switzerland
| |
Collapse
|
4
|
Hsieh YF, Suslov D, Espen L, Schiavone M, Rautengarten C, Griess-Osowski A, Voiniciuc C, Poirier Y. cis-Golgi phosphate transporters harboring an EXS domain are essential for plant growth and development. Plant Physiol 2023; 192:1000-1015. [PMID: 36856724 DOI: 10.1093/plphys/kiad123] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/24/2022] [Revised: 12/15/2022] [Accepted: 01/21/2023] [Indexed: 06/01/2023]
Abstract
Cell wall synthesis and protein glycosylation require the import of nucleotide diphosphate-sugar conjugates into the Golgi that must be counterbalanced by phosphate (Pi) export. Numerous Golgi nucleotide-sugar transporters have been characterized, but transporters mediating Golgi Pi export remain poorly understood. We used plant and yeast genetics to characterize the role of 2 Arabidopsis (Arabidopsis thaliana) proteins possessing an EXS domain, namely ERD1A and ERD1B, in Golgi Pi homeostasis. ERD1A and ERD1B localized in cis-Golgi and were broadly expressed in vegetative and reproductive tissues. We identified ERD1 putative orthologs in algae, bryophytes, and vascular plants. Expressing ERD1A and ERD1B in yeast complemented the erd1 mutant phenotype of cellular Pi loss via exocytosis associated with reduced Golgi Pi export. The Arabidopsis erd1a mutant had a similar phenotype of apoplastic Pi loss dependent on exocytosis. ERD1A overexpression in Nicotiana benthamiana and Arabidopsis led to partial mislocalization of ERD1A to the plasma membrane and specific Pi export to the apoplastic space. Arabidopsis erd1a had defects in cell wall biosynthesis, which were associated with reduced shoot development, hypocotyl growth, cell wall extensibility, root elongation, pollen germination, pollen tube elongation, and fertility. We identified ERD1 proteins as Golgi Pi exporters that are essential for optimal plant growth and fertility.
Collapse
Affiliation(s)
- Yi-Fang Hsieh
- Department of Plant Molecular Biology, University of Lausanne, Lausanne 1015, Switzerland
| | - Dmitry Suslov
- Department of Plant Physiology and Biochemistry, Faculty of Biology, Saint Petersburg State University, Saint Petersburg 199034, Russia
| | - Luca Espen
- Department of Agricultural and Environmental Sciences-Production, Landscape, Agroenergy, Università degli Studi di Milano, Milan 20133, Italy
| | - Marion Schiavone
- CNRS, Toulouse Biotechnology Institute, UMR 5504, Toulouse 31077, France
| | - Carsten Rautengarten
- School of BioSciences, University of Melbourne, Parkville 3010, Victoria, Australia
| | - Annika Griess-Osowski
- Designer Glycans Group, Leibniz Institute of Plant Biochemistry, Halle 06120, Germany
| | - Catalin Voiniciuc
- Designer Glycans Group, Leibniz Institute of Plant Biochemistry, Halle 06120, Germany
| | - Yves Poirier
- Department of Plant Molecular Biology, University of Lausanne, Lausanne 1015, Switzerland
| |
Collapse
|
5
|
Montpetit J, Clúa J, Hsieh YF, Vogiatzaki E, Müller J, Abel S, Strasser R, Poirier Y. Endoplasmic reticulum calnexins participate in the primary root growth response to phosphate deficiency. Plant Physiol 2023; 191:1719-1733. [PMID: 36567484 PMCID: PMC10022610 DOI: 10.1093/plphys/kiac595] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/28/2022] [Accepted: 12/08/2022] [Indexed: 06/17/2023]
Abstract
Accumulation of incompletely folded proteins in the endoplasmic reticulum (ER) leads to ER stress, activates ER protein degradation pathways, and upregulates genes involved in protein folding. This process is known as the unfolded protein response (UPR). The role of ER protein folding in plant responses to nutrient deficiencies is unclear. We analyzed Arabidopsis (Arabidopsis thaliana) mutants affected in ER protein quality control and established that both CALNEXIN (CNX) genes function in the primary root response to phosphate (Pi) deficiency. CNX1 and CNX2 are homologous ER lectins promoting protein folding of N-glycosylated proteins via the recognition of the GlcMan9GlcNAc2 glycan. Growth of cnx1-1 and cnx2-2 single mutants was similar to that of the wild type under high and low Pi conditions, but the cnx1-1 cnx2-2 double mutant showed decreased primary root growth under low Pi conditions due to reduced meristematic cell division. This phenotype was specific to Pi deficiency; the double mutant responded normally to osmotic and salt stress. Expression of CNX2 mutated in amino acids involved in binding the GlcMan9GlcNAc2 glycan failed to complement the cnx1-1 cnx2-2 mutant. The root growth phenotype was Fe-dependent and was associated with root apoplastic Fe accumulation. Two genes involved in Fe-dependent inhibition of primary root growth under Pi deficiency, the ferroxidase LOW PHOSPHATE 1 (LPR1) and P5-type ATPase PLEIOTROPIC DRUG RESISTANCE 2 (PDR2) were epistatic to CNX1/CNX2. Overexpressing PDR2 failed to complement the cnx1-1 cnx2-2 root phenotype. The cnx1-1 cnx2-2 mutant showed no evidence of UPR activation, indicating a limited effect on ER protein folding. CNX might process a set of N-glycosylated proteins specifically involved in the response to Pi deficiency.
Collapse
Affiliation(s)
- Jonatan Montpetit
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, 1015 Lausanne, Switzerland
| | - Joaquín Clúa
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, 1015 Lausanne, Switzerland
| | - Yi-Fang Hsieh
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, 1015 Lausanne, Switzerland
| | - Evangelia Vogiatzaki
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, 1015 Lausanne, Switzerland
| | - Jens Müller
- Department of Molecular Signal Processing, Leibniz Institute of Plant Biochemistry, 06120 Halle, Germany
| | - Steffen Abel
- Department of Molecular Signal Processing, Leibniz Institute of Plant Biochemistry, 06120 Halle, Germany
| | - Richard Strasser
- Department of Applied Genetics and Cell Biology, University of Natural Resources and Life Sciences, Vienna, Muthgasse 18, A-1190 Vienna, Austria
| | - Yves Poirier
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, 1015 Lausanne, Switzerland
| |
Collapse
|
6
|
Abstract
Plants need at least 13 different nutrients to maintain optimal growth. Nitrogen and phosphorus, from the Greek 'phôs' (meaning 'light') and 'phoros' (meaning 'bearer'), are the main nutrients limiting plant growth in both agricultural and natural ecosystems. Agriculture has relied heavily since the mid 1950s on the use of synthetic ammonium- and phosphorus-based fertilizers to increase crop productivity. While industrial synthesis of ammonium relies on the chemical conversion of atmospheric nitrogen, phosphorus is mined from finite reserves concentrated in a few countries. Considering our current dependence on phosphorus fertilizers for food production and the geopolitical aspects associated with current resources, it will be important to develop technologies enabling the maintenance of high crop yield with reduced fertilizer input. This will require an in-depth knowledge on the various pathways that enable plants to acquire phosphorus from the soil and maximize its economical use for growth and reproduction. In this primer, we give an overview of the factors limiting phosphorus acquisition by plants and highlight various pathways and strategies plants have evolved at the level of development, metabolism and signal transduction to adapt to phosphorus deficiency.
Collapse
Affiliation(s)
- Yves Poirier
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, CH-1015 Lausanne, Switzerland.
| | - Aime Jaskolowski
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, CH-1015 Lausanne, Switzerland
| | - Joaquín Clúa
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, CH-1015 Lausanne, Switzerland
| |
Collapse
|
7
|
Mossahebi S, Poirier Y, Gerry A, Repetto C, Vujaskovic Z, Jackson I, Sawant A. FLASH in the Clinic Track (Oral Presentations) DOSIMETRIC EVALUATION OF A NOVEL COLLIMATOR DESIGN FOR CONCURRENT MURINE HEMITHORAX IRRADIATIONS USING PROTON FLASH-RT. Phys Med 2022. [DOI: 10.1016/s1120-1797(22)01554-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/19/2022] Open
|
8
|
Reis RS, Poirier Y. Making sense of the natural antisense transcript puzzle. Trends Plant Sci 2021; 26:1104-1115. [PMID: 34303604 DOI: 10.1016/j.tplants.2021.07.004] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/13/2021] [Revised: 06/29/2021] [Accepted: 07/01/2021] [Indexed: 06/13/2023]
Abstract
In plants, thousands of genes are associated with antisense transcription, which often produces noncoding RNAs. Although widespread, sense-antisense pairs have been implicated in a limited variety of functions in plants and are often thought to form extensive dsRNA stretches triggering gene silencing. In this opinion, we show that evidence does not support gene silencing as a major role for antisense transcription. In fact, it is more likely that antisense transcripts play diverse functions in gene regulation. We propose a general framework for the initial functional dissection of antisense transcripts, suggesting testable hypotheses relying on an experiment-based decision tree. By moving beyond the gene silencing paradigm, we argue that a broad and diverse role for natural antisense transcription will emerge.
Collapse
Affiliation(s)
- Rodrigo Siqueira Reis
- Department of Plant Molecular Biology, University of Lausanne, 1015 Lausanne, Switzerland.
| | - Yves Poirier
- Department of Plant Molecular Biology, University of Lausanne, 1015 Lausanne, Switzerland.
| |
Collapse
|
9
|
Reis RS, Deforges J, Schmidt RR, Schippers JHM, Poirier Y. An antisense noncoding RNA enhances translation via localized structural rearrangements of its cognate mRNA. Plant Cell 2021; 33:1381-1397. [PMID: 33793857 DOI: 10.1093/plcell/koab010] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/24/2020] [Accepted: 12/22/2020] [Indexed: 05/20/2023]
Abstract
A large portion of eukaryotic genes are associated with noncoding, natural antisense transcripts (NATs). Despite sharing extensive sequence complementarity with their sense mRNAs, mRNA-NAT pairs elusively often evade dsRNA-cleavage and siRNA-triggered silencing. More surprisingly, some NATs enhance translation of their sense mRNAs by yet unknown mechanism(s). Here, we show that translation enhancement of the rice (Oryza sativa) PHOSPHATE1.2 (PHO1.2) mRNA is enabled by specific structural rearrangements guided by its noncoding antisense RNA (cis-NATpho1.2). Their interaction in vitro revealed no evidence of widespread intermolecular dsRNA formation, but rather specific local changes in nucleotide base pairing, leading to higher flexibility of PHO1.2 mRNA at a key high guanine-cytosine�(GC) regulatory region inhibiting translation, ∼350-nt downstream of the start codon. Sense-antisense RNA interaction increased formation of the 80S complex in PHO1.2, possibly by inducing structural rearrangement within this inhibitory region, thus making this mRNA more accessible to 60S. This work presents a framework for nucleotide resolution studies of functional mRNA-antisense pairs.
Collapse
Affiliation(s)
- Rodrigo S Reis
- Department of Plant Molecular Biology, University of Lausanne, 1015 Lausanne, Switzerland
| | - Jules Deforges
- Department of Plant Molecular Biology, University of Lausanne, 1015 Lausanne, Switzerland
| | - Romy R Schmidt
- Institute of Biology I, RWTH Aachen University, 52074 Aachen, Germany
| | - Jos H M Schippers
- Department of Molecular Genetics, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), 06466 Gatersleben, Germany
| | - Yves Poirier
- Department of Plant Molecular Biology, University of Lausanne, 1015 Lausanne, Switzerland
| |
Collapse
|
10
|
Nguyen NNT, Clua J, Vetal PV, Vuarambon DJ, De Bellis D, Pervent M, Lepetit M, Udvardi M, Valentine AJ, Poirier Y. PHO1 family members transport phosphate from infected nodule cells to bacteroids in Medicago truncatula. Plant Physiol 2021; 185:196-209. [PMID: 33631809 PMCID: PMC8133656 DOI: 10.1093/plphys/kiaa016] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/24/2020] [Accepted: 10/14/2020] [Indexed: 05/20/2023]
Abstract
Legumes play an important role in the soil nitrogen availability via symbiotic nitrogen fixation (SNF). Phosphate (Pi) deficiency severely impacts SNF because of the high Pi requirement of symbiosis. Whereas PHT1 transporters are involved in Pi uptake into nodules, it is unknown how Pi is transferred from the plant infected cells to nitrogen-fixing bacteroids. We hypothesized that Medicago truncatula genes homologous to Arabidopsis PHO1, encoding a vascular apoplastic Pi exporter, are involved in Pi transfer to bacteroids. Among the seven MtPHO1 genes present in M. truncatula, we found that two genes, namely MtPHO1.1 and MtPHO1.2, were broadly expressed across the various nodule zones in addition to the root vascular system. Expressions of MtPHO1.1 and MtPHO1.2 in Nicotiana benthamiana mediated specific Pi export. Plants with nodule-specific downregulation of both MtPHO1.1 and MtPHO1.2 were generated by RNA interference (RNAi) to examine their roles in nodule Pi homeostasis. Nodules of RNAi plants had lower Pi content and a three-fold reduction in SNF, resulting in reduced shoot growth. Whereas the rate of 33Pi uptake into nodules of RNAi plants was similar to control, transfer of 33Pi from nodule cells into bacteroids was reduced and bacteroids activated their Pi-deficiency response. Our results implicate plant MtPHO1 genes in bacteroid Pi homeostasis and SNF via the transfer of Pi from nodule infected cells to bacteroids.
Collapse
Affiliation(s)
- Nga N T Nguyen
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, Lausanne 1015, Switzerland
| | - Joaquin Clua
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, Lausanne 1015, Switzerland
| | - Pallavi V Vetal
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, Lausanne 1015, Switzerland
| | - Dominique Jacques Vuarambon
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, Lausanne 1015, Switzerland
| | - Damien De Bellis
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, Lausanne 1015, Switzerland
- Electron Microscopy Facility, Biophore Building, University of Lausanne, Lausanne 1015, Switzerland
| | - Marjorie Pervent
- Laboratoire des Symbioses Tropicales et Méditerranéennes UMR 1342 INRAE-IRD-CIRAD-UM-Montpellier SupAgro, Montpellier, France
| | - Marc Lepetit
- Laboratoire des Symbioses Tropicales et Méditerranéennes UMR 1342 INRAE-IRD-CIRAD-UM-Montpellier SupAgro, Montpellier, France
| | - Michael Udvardi
- The Noble Research Institute, 2510 Sam Noble Parkway, Ardmore, OK, USA
| | - Alexander J Valentine
- Botany & Zoology Department, University of Stellenbosch, Matieland 7602, South Africa
| | - Yves Poirier
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, Lausanne 1015, Switzerland
- Author for communication:
| |
Collapse
|
11
|
Samanta S, Damron P, Poirier Y, Mao S, Lamichhane N, Dahiya S, Yared J, Rapoport A, Hardy N, Molitoris J, Kaiser A, Yi B, Mohindra P. Dose To Lungs And Kidneys During Total Body Irradiation: Are We Delivering The Expected Dose? Int J Radiat Oncol Biol Phys 2020. [DOI: 10.1016/j.ijrobp.2020.07.190] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
|
12
|
Alexander G, Remick J, Kowalski E, Sun K, Poirier Y, Becker S, Lamichhane N, Howard E, Slawson R, Woodworth G, Regine W, Mishra M. Frame Based Versus Linac-Based Stereotactic Radiosurgery For The Treatment Of Brain Metastases: Clinical Outcomes And Toxicity Analysis. Int J Radiat Oncol Biol Phys 2020. [DOI: 10.1016/j.ijrobp.2020.07.067] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
|
13
|
Reis RS, Deforges J, Sokoloff T, Poirier Y. Modulation of Shoot Phosphate Level and Growth by PHOSPHATE1 Upstream Open Reading Frame. Plant Physiol 2020; 183:1145-1156. [PMID: 32327548 PMCID: PMC7333697 DOI: 10.1104/pp.19.01549] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/16/2019] [Accepted: 04/02/2020] [Indexed: 05/19/2023]
Abstract
Inorganic orthophosphate (Pi) is an essential nutrient for plant growth, and its availability strongly impacts crop yield. PHOSPHATE1 (PHO1) transfers Pi from root to shoot via Pi export into root xylem vessels. In this work, we demonstrate that an upstream open reading frame (uORF) present in the 5' untranslated region of the Arabidopsis (Arabidopsis thaliana) PHO1 inhibits its translation and influences Pi homeostasis. The presence of the uORF strongly inhibited the translation of a PHO1 5'UTR-luciferase construct in protoplasts. A point mutation removing the PHO1 uORF (ΔuORF) in transgenic Arabidopsis resulted in increased association of its mRNA with polysomes and led to higher PHO1 protein levels, independent of Pi availability. Interestingly, deletion of the uORF led to higher shoot Pi content and was associated with improved shoot growth under low external Pi supply and no deleterious effects under Pi-sufficient conditions. We further show that natural accessions lacking the PHO1 uORF exhibit higher PHO1 protein levels and shoot Pi content. Increased shoot Pi content was linked to the absence of the PHO1 uORF in a population of F2 segregants. We identified the PHO1 uORF in genomes of crops such as rice (Oryza sativa), maize (Zea mays), barley (Hordeum vulgare), and wheat (Triticum aesativum), and we verified the inhibitory effect of the rice PHO1 uORF on translation in protoplasts. Our work suggests that regulation of PHO1 expression via its uORF might be a genetic resource useful-both in natural populations and in the context of genome editing-toward improving plant growth under Pi-deficient conditions.
Collapse
Affiliation(s)
- Rodrigo S Reis
- Department of Plant Molecular Biology, University of Lausanne, 1015 Lausanne, Switzerland
| | - Jules Deforges
- Department of Plant Molecular Biology, University of Lausanne, 1015 Lausanne, Switzerland
| | - Tatiana Sokoloff
- Department of Plant Molecular Biology, University of Lausanne, 1015 Lausanne, Switzerland
| | - Yves Poirier
- Department of Plant Molecular Biology, University of Lausanne, 1015 Lausanne, Switzerland
| |
Collapse
|
14
|
Antosz W, Deforges J, Begcy K, Bruckmann A, Poirier Y, Dresselhaus T, Grasser KD. Critical Role of Transcript Cleavage in Arabidopsis RNA Polymerase II Transcriptional Elongation. Plant Cell 2020; 32:1449-1463. [PMID: 32152189 PMCID: PMC7203918 DOI: 10.1105/tpc.19.00891] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/14/2019] [Revised: 02/10/2020] [Accepted: 03/05/2020] [Indexed: 05/14/2023]
Abstract
Transcript elongation factors associate with elongating RNA polymerase II (RNAPII) to control the efficiency of mRNA synthesis and consequently modulate plant growth and development. Encountering obstacles during transcription such as nucleosomes or particular DNA sequences may cause backtracking and transcriptional arrest of RNAPII. The elongation factor TFIIS stimulates the intrinsic transcript cleavage activity of the polymerase, which is required for efficient rescue of backtracked/arrested RNAPII. A TFIIS mutant variant (TFIISmut) lacks the stimulatory activity to promote RNA cleavage, but instead efficiently inhibits unstimulated transcript cleavage by RNAPII. We could not recover viable Arabidopsis (Arabidopsis thaliana) tfIIs plants constitutively expressing TFIISmut. Induced, transient expression of TFIISmut in tfIIs plants provoked severe growth defects, transcriptomic changes and massive, transcription-related redistribution of elongating RNAPII within transcribed regions toward the transcriptional start site. The predominant site of RNAPII accumulation overlapped with the +1 nucleosome, suggesting that upon inhibition of RNA cleavage activity, RNAPII arrest prevalently occurs at this position. In the presence of TFIISmut, the amount of RNAPII was reduced, which could be reverted by inhibiting the proteasome, indicating proteasomal degradation of arrested RNAPII. Our findings suggest that polymerase backtracking/arrest frequently occurs in plant cells, and RNAPII-reactivation is essential for correct transcriptional output and proper growth/development.
Collapse
Affiliation(s)
- Wojciech Antosz
- Department of Cell Biology & Plant Biochemistry, Biochemistry Centre, University of Regensburg, D-93040 Regensburg, Germany
| | - Jules Deforges
- Department of Plant Molecular Biology, University of Lausanne, CH-1015 Lausanne, Switzerland
| | - Kevin Begcy
- Environmental Horticulture Department, University of Florida, Gainesville, Florida 32611
| | - Astrid Bruckmann
- Department for Biochemistry I, Biochemistry Centre, University of Regensburg, D-93040 Regensburg, Germany
| | - Yves Poirier
- Department of Plant Molecular Biology, University of Lausanne, CH-1015 Lausanne, Switzerland
| | - Thomas Dresselhaus
- Department of Cell Biology & Plant Biochemistry, Biochemistry Centre, University of Regensburg, D-93040 Regensburg, Germany
| | - Klaus D Grasser
- Department of Cell Biology & Plant Biochemistry, Biochemistry Centre, University of Regensburg, D-93040 Regensburg, Germany
| |
Collapse
|
15
|
Kowalski E, Remick J, Khairnar R, Morse E, Poirier Y, Lamichhane N, Becker S, Mishra M. Immune Checkpoint Inhibition and the Risk of Radionecrosis in Patients Treated with SRS for Brain Metastases. Int J Radiat Oncol Biol Phys 2019. [DOI: 10.1016/j.ijrobp.2019.06.2219] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
|
16
|
Chen S, Agyepong B, Poirier Y, Lamichhane N, Becker S, Zhang B, Gopal A, Yi B, Mohindra P, Nichols E, Molitoris J, Mishra M. Intra-Fraction Motion Analysis for Frameless Linac-Based Stereotactic Radiosurgery with Three-Dimension (3D) Optical Surface Imaging for Intra-Fractional Motion Management. Int J Radiat Oncol Biol Phys 2019. [DOI: 10.1016/j.ijrobp.2019.06.789] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
|
17
|
Poirier Y. Post-translational Regulation of SPX Proteins for Coordinated Nutrient Signaling. Mol Plant 2019; 12:1041-1043. [PMID: 31228580 DOI: 10.1016/j.molp.2019.06.005] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/03/2019] [Revised: 06/14/2019] [Accepted: 06/14/2019] [Indexed: 06/09/2023]
Affiliation(s)
- Yves Poirier
- Department of Plant Molecular Biology, University of Lausanne, 1015 Lausanne, Switzerland.
| |
Collapse
|
18
|
Deforges J, Reis RS, Jacquet P, Vuarambon DJ, Poirier Y. Prediction of regulatory long intergenic non-coding RNAs acting in trans through base-pairing interactions. BMC Genomics 2019; 20:601. [PMID: 31331261 PMCID: PMC6647327 DOI: 10.1186/s12864-019-5946-0] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2019] [Accepted: 06/30/2019] [Indexed: 12/13/2022] Open
Abstract
Background Long intergenic non-coding RNAs (lincRNAs) can act as regulators of expression of protein-coding genes. Trans-natural antisense transcripts (trans-NATs) are a type of lincRNAs that contain sequence complementary to mRNA from other loci. The regulatory potential of trans-NATs has been poorly studied in eukaryotes and no example of trans-NATs regulating gene expression in plants are reported. The goal of this study was to identify lincRNAs, and particularly trans-NATs, in Arabidopsis thaliana that have a potential to regulate expression of target genes in trans at the transcriptional or translational level. Results We identified 1001 lincRNAs using an RNAseq dataset from total polyA+ and polysome-associated RNA of seedlings grown under high and low phosphate, or shoots and roots treated with different phytohormones, of which 550 were differentially regulated. Approximately 30% of lincRNAs showed conservation amongst Brassicaceae and 25% harbored transposon element (TE) sequences. Gene co-expression network analysis highlighted a group of lincRNAs associated with the response of roots to low phosphate. A total of 129 trans-NATs were predicted, of which 88 were significantly differentially expressed under at least one pairwise comparison. Five trans-NATs showed a positive correlation between their expression and target mRNA steady-state levels, and three showed a negative correlation. Expression of four trans-NATs positively correlated with a change in target mRNA polysome association. The regulatory potential of these trans-NATs did not implicate miRNA mimics nor siRNAs. We also looked for lincRNAs that could regulate gene expression in trans by Watson-Crick DNA:RNA base pairing with target protein-encoding loci. We identified 100 and 81 with a positive or negative correlation, respectively, with steady-state level of their predicted target. The regulatory potential of one such candidate lincRNA harboring a SINE TE sequence was validated in a protoplast assay on three distinct genes containing homologous TE sequence in their promoters. Construction of networks highlighted other putative lincRNAs with multiple predicted target loci for which expression was positively correlated with target gene expression. Conclusions This study identified lincRNAs in Arabidopsis with potential in regulating target gene expression in trans by both RNA:RNA and RNA:DNA base pairing and highlights lincRNAs harboring TE sequences in such activity. Electronic supplementary material The online version of this article (10.1186/s12864-019-5946-0) contains supplementary material, which is available to authorized users.
Collapse
Affiliation(s)
- Jules Deforges
- Department of Plant Molecular Biology, University of Lausanne, Biophore Building, CH-1015, Lausanne, Switzerland
| | - Rodrigo S Reis
- Department of Plant Molecular Biology, University of Lausanne, Biophore Building, CH-1015, Lausanne, Switzerland
| | - Philippe Jacquet
- Department of Plant Molecular Biology, University of Lausanne, Biophore Building, CH-1015, Lausanne, Switzerland
| | - Dominique Jacques Vuarambon
- Department of Plant Molecular Biology, University of Lausanne, Biophore Building, CH-1015, Lausanne, Switzerland
| | - Yves Poirier
- Department of Plant Molecular Biology, University of Lausanne, Biophore Building, CH-1015, Lausanne, Switzerland.
| |
Collapse
|
19
|
Deforges J, Reis RS, Jacquet P, Sheppard S, Gadekar VP, Hart-Smith G, Tanzer A, Hofacker IL, Iseli C, Xenarios I, Poirier Y. Control of Cognate Sense mRNA Translation by cis-Natural Antisense RNAs. Plant Physiol 2019; 180:305-322. [PMID: 30760640 PMCID: PMC6501089 DOI: 10.1104/pp.19.00043] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/15/2019] [Accepted: 02/03/2019] [Indexed: 05/06/2023]
Abstract
Cis-Natural Antisense Transcripts (cis-NATs), which overlap protein coding genes and are transcribed from the opposite DNA strand, constitute an important group of noncoding RNAs. Whereas several examples of cis-NATs regulating the expression of their cognate sense gene are known, most cis-NATs function by altering the steady-state level or structure of mRNA via changes in transcription, mRNA stability, or splicing, and very few cases involve the regulation of sense mRNA translation. This study was designed to systematically search for cis-NATs influencing cognate sense mRNA translation in Arabidopsis (Arabidopsis thaliana). Establishment of a pipeline relying on sequencing of total polyA+ and polysomal RNA from Arabidopsis grown under various conditions (i.e. nutrient deprivation and phytohormone treatments) allowed the identification of 14 cis-NATs whose expression correlated either positively or negatively with cognate sense mRNA translation. With use of a combination of cis-NAT stable over-expression in transgenic plants and transient expression in protoplasts, the impact of cis-NAT expression on mRNA translation was confirmed for 4 out of 5 tested cis-NAT:sense mRNA pairs. These results expand the number of cis-NATs known to regulate cognate sense mRNA translation and provide a foundation for future studies of their mode of action. Moreover, this study highlights the role of this class of noncoding RNAs in translation regulation.
Collapse
Affiliation(s)
- Jules Deforges
- Department of Plant Molecular Biology, University of Lausanne, Biophore Building, CH-1015 Lausanne, Switzerland
| | - Rodrigo S Reis
- Department of Plant Molecular Biology, University of Lausanne, Biophore Building, CH-1015 Lausanne, Switzerland
| | - Philippe Jacquet
- Department of Plant Molecular Biology, University of Lausanne, Biophore Building, CH-1015 Lausanne, Switzerland
| | - Shaoline Sheppard
- Department of Plant Molecular Biology, University of Lausanne, Biophore Building, CH-1015 Lausanne, Switzerland
| | - Veerendra P Gadekar
- Institute of Theoretical Chemistry, University of Vienna, Wahringer Str 17, A-1090 Vienna, Austria
| | - Gene Hart-Smith
- School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney NSW 2052, Australia
| | - Andrea Tanzer
- Institute of Theoretical Chemistry, University of Vienna, Wahringer Str 17, A-1090 Vienna, Austria
| | - Ivo L Hofacker
- Institute of Theoretical Chemistry, University of Vienna, Wahringer Str 17, A-1090 Vienna, Austria
| | - Christian Iseli
- Swiss Institute of Bioinformatics, CH-1015 Lausanne, Switzerland
| | - Ioannis Xenarios
- Swiss Institute of Bioinformatics, CH-1015 Lausanne, Switzerland
| | - Yves Poirier
- Department of Plant Molecular Biology, University of Lausanne, Biophore Building, CH-1015 Lausanne, Switzerland
| |
Collapse
|
20
|
Lorenzo-Orts L, Witthoeft J, Deforges J, Martinez J, Loubéry S, Placzek A, Poirier Y, Hothorn LA, Jaillais Y, Hothorn M. Concerted expression of a cell cycle regulator and a metabolic enzyme from a bicistronic transcript in plants. Nat Plants 2019; 5:184-193. [PMID: 30737513 DOI: 10.1038/s41477-019-0358-3] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/10/2018] [Accepted: 01/04/2019] [Indexed: 05/15/2023]
Abstract
Eukaryotic mRNAs frequently contain upstream open reading frames (uORFs), encoding small peptides that may control translation of the main ORF (mORF). Here, we report the characterization of a distinct bicistronic transcript in Arabidopsis. We analysed loss-of-function phenotypes of the inorganic polyphosphatase TRIPHOSPHATE TUNNEL METALLOENZYME 3 (AtTTM3), and found that catalytically inactive versions of the enzyme could fully complement embryo and growth-related phenotypes. We could rationalize these puzzling findings by characterizing a uORF in the AtTTM3 locus encoding CELL DIVISION CYCLE PROTEIN 26 (CDC26), an orthologue of the cell cycle regulator. We demonstrate that AtCDC26 is part of the plant anaphase promoting complex/cyclosome (APC/C), regulates accumulation of APC/C target proteins and controls cell division, growth and embryo development. AtCDC26 and AtTTM3 are translated from a single transcript conserved across the plant lineage. While there is no apparent biochemical connection between the two gene products, AtTTM3 coordinates AtCDC26 translation by recruiting the transcript into polysomes. Our work highlights that uORFs may encode functional proteins in plant genomes.
Collapse
Affiliation(s)
- Laura Lorenzo-Orts
- Structural Plant Biology Laboratory, Department of Botany and Plant Biology, University of Geneva, Geneva, Switzerland.
| | - Janika Witthoeft
- Friedrich Miescher Laboratory of the Max Planck Society, Tübingen, Germany
| | - Jules Deforges
- Department of Plant Molecular Biology, University of Lausanne, Lausanne, Switzerland
| | - Jacobo Martinez
- Structural Plant Biology Laboratory, Department of Botany and Plant Biology, University of Geneva, Geneva, Switzerland
- Friedrich Miescher Laboratory of the Max Planck Society, Tübingen, Germany
| | - Sylvain Loubéry
- Department of Botany and Plant Biology, University of Geneva, Geneva, Switzerland
| | - Aleksandra Placzek
- Friedrich Miescher Laboratory of the Max Planck Society, Tübingen, Germany
- Max Planck Institute for Biology of Ageing, Cologne, Germany
| | - Yves Poirier
- Department of Plant Molecular Biology, University of Lausanne, Lausanne, Switzerland
| | - Ludwig A Hothorn
- Institute of Biostatistics, Leibniz University, Hannover, Germany
| | - Yvon Jaillais
- Laboratoire Reproduction et Développement des Plantes, Université de Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRA, Lyon, France
| | - Michael Hothorn
- Structural Plant Biology Laboratory, Department of Botany and Plant Biology, University of Geneva, Geneva, Switzerland.
- Friedrich Miescher Laboratory of the Max Planck Society, Tübingen, Germany.
| |
Collapse
|
21
|
Vogiatzaki E, Baroux C, Jung JY, Poirier Y. PHO1 Exports Phosphate from the Chalazal Seed Coat to the Embryo in Developing Arabidopsis Seeds. Curr Biol 2017; 27:2893-2900.e3. [DOI: 10.1016/j.cub.2017.08.026] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2017] [Revised: 06/29/2017] [Accepted: 08/14/2017] [Indexed: 10/18/2022]
|
22
|
Zhao H, Frank T, Tan Y, Zhou C, Jabnoune M, Arpat AB, Cui H, Huang J, He Z, Poirier Y, Engel KH, Shu Q. Disruption of OsSULTR3;3 reduces phytate and phosphorus concentrations and alters the metabolite profile in rice grains. New Phytol 2016; 211:926-939. [PMID: 27110682 DOI: 10.1111/nph.13969] [Citation(s) in RCA: 54] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2016] [Accepted: 03/09/2016] [Indexed: 06/05/2023]
Abstract
Two low phytic acid (lpa) mutants have been developed previously with the aim to improve the nutritional value of rice (Oryza sativa) grains. In the present study, the impacts of lpa mutations on grain composition and underlying molecular mechanisms were investigated. Comparative compositional analyses and metabolite profiling demonstrated that concentrations of both phytic acid (PA) and total phosphorus (P) were significantly reduced in lpa brown rice, accompanied by changes in other metabolites and increased concentrations of nutritionally relevant compounds. The lpa mutations modified the expression of a number of genes involved in PA metabolism, as well as in sulfate and phosphate homeostasis and metabolism. Map-based cloning and complementation identified the underlying lpa gene to be OsSULTR3;3. The promoter of OsSULTR3;3 is highly active in the vascular bundles of leaves, stems and seeds, and its protein is localized in the endoplasmic reticulum. No activity of OsSULTR3;3 was revealed for the transport of phosphate, sulfate, inositol or inositol 1,4,5 triphosphate by heterologous expression in either yeast or Xenopus oocytes. The findings reveal that OsSULTR3;3 plays an important role in grain metabolism, pointing to a new route to generate value-added grains in rice and other cereal crops.
Collapse
Affiliation(s)
- Haijun Zhao
- State Key Laboratory of Rice Biology, Institute of Crop Sciences, Zhejiang University, Hangzhou, 310058, China
- Hubei Collaborative Innovation Center for Grain Industry, Jingzhou, 434025, China
| | - Thomas Frank
- Lehrstuhl für Allgemeine Lebensmitteltechnologie, Technische Universität München, Maximum-von-Imhof-Forum 2, Freising-Weihenstephan, D-85354, Germany
| | - Yuanyuan Tan
- State Key Laboratory of Rice Biology, Institute of Crop Sciences, Zhejiang University, Hangzhou, 310058, China
| | - Chenguang Zhou
- Lehrstuhl für Allgemeine Lebensmitteltechnologie, Technische Universität München, Maximum-von-Imhof-Forum 2, Freising-Weihenstephan, D-85354, Germany
| | - Mehdi Jabnoune
- Department of Plant Molecular Biology, Biophore, University of Lausanne, Lausanne, CH-1015, Switzerland
| | - A Bulak Arpat
- Department of Plant Molecular Biology, Biophore, University of Lausanne, Lausanne, CH-1015, Switzerland
| | - Hairui Cui
- Institute of Nuclear Agricultural Sciences, Zhejiang University, Hangzhou, 310029, China
| | - Jianzhong Huang
- Institute of Nuclear Agricultural Sciences, Zhejiang University, Hangzhou, 310029, China
| | - Zuhua He
- Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, 200032, China
| | - Yves Poirier
- Department of Plant Molecular Biology, Biophore, University of Lausanne, Lausanne, CH-1015, Switzerland
| | - Karl-Heinz Engel
- Lehrstuhl für Allgemeine Lebensmitteltechnologie, Technische Universität München, Maximum-von-Imhof-Forum 2, Freising-Weihenstephan, D-85354, Germany
| | - Qingyao Shu
- State Key Laboratory of Rice Biology, Institute of Crop Sciences, Zhejiang University, Hangzhou, 310058, China
- Hubei Collaborative Innovation Center for Grain Industry, Jingzhou, 434025, China
| |
Collapse
|
23
|
Khan GA, Vogiatzaki E, Glauser G, Poirier Y. Phosphate Deficiency Induces the Jasmonate Pathway and Enhances Resistance to Insect Herbivory. Plant Physiol 2016; 171:632-44. [PMID: 27016448 PMCID: PMC4854718 DOI: 10.1104/pp.16.00278] [Citation(s) in RCA: 101] [Impact Index Per Article: 12.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/19/2016] [Accepted: 03/24/2016] [Indexed: 05/19/2023]
Abstract
During their life cycle, plants are typically confronted by simultaneous biotic and abiotic stresses. Low inorganic phosphate (Pi) is one of the most common nutrient deficiencies limiting plant growth in natural and agricultural ecosystems, while insect herbivory accounts for major losses in plant productivity and impacts ecological and evolutionary changes in plant populations. Here, we report that plants experiencing Pi deficiency induce the jasmonic acid (JA) pathway and enhance their defense against insect herbivory. Pi-deficient Arabidopsis (Arabidopsis thaliana) showed enhanced synthesis of JA and the bioactive conjugate JA-isoleucine, as well as activation of the JA signaling pathway, in both shoots and roots of wild-type plants and in shoots of the Pi-deficient mutant pho1 The kinetics of the induction of the JA signaling pathway by Pi deficiency was influenced by PHOSPHATE STARVATION RESPONSE1, the main transcription factor regulating the expression of Pi starvation-induced genes. Phenotypes of the pho1 mutant typically associated with Pi deficiency, such as high shoot anthocyanin levels and poor shoot growth, were significantly attenuated by blocking the JA biosynthesis or signaling pathway. Wounded pho1 leaves hyperaccumulated JA/JA-isoleucine in comparison with the wild type. The pho1 mutant also showed an increased resistance against the generalist herbivore Spodoptera littoralis that was attenuated in JA biosynthesis and signaling mutants. Pi deficiency also triggered increased resistance to S. littoralis in wild-type Arabidopsis as well as tomato (Solanum lycopersicum) and Nicotiana benthamiana, revealing that the link between Pi deficiency and enhanced herbivory resistance is conserved in a diversity of plants, including crops.
Collapse
Affiliation(s)
- Ghazanfar Abbas Khan
- Departof Lausanne, CH-1015 Lausanne, Switzerland (G.A.K., E.V., Y.P.); andNeuchâtel Platform of Analytical Chemistry, University of Neuchâtel, CH-2009 Neuchâtel, Switzerland (G.G.)
| | - Evangelia Vogiatzaki
- Departof Lausanne, CH-1015 Lausanne, Switzerland (G.A.K., E.V., Y.P.); andNeuchâtel Platform of Analytical Chemistry, University of Neuchâtel, CH-2009 Neuchâtel, Switzerland (G.G.)
| | - Gaétan Glauser
- Departof Lausanne, CH-1015 Lausanne, Switzerland (G.A.K., E.V., Y.P.); andNeuchâtel Platform of Analytical Chemistry, University of Neuchâtel, CH-2009 Neuchâtel, Switzerland (G.G.)
| | - Yves Poirier
- Departof Lausanne, CH-1015 Lausanne, Switzerland (G.A.K., E.V., Y.P.); andNeuchâtel Platform of Analytical Chemistry, University of Neuchâtel, CH-2009 Neuchâtel, Switzerland (G.G.)
| |
Collapse
|
24
|
Wild R, Gerasimaite R, Jung JY, Truffault V, Pavlovic I, Schmidt A, Saiardi A, Jessen HJ, Poirier Y, Hothorn M, Mayer A. Control of eukaryotic phosphate homeostasis by inositol polyphosphate sensor domains. Science 2016; 352:986-90. [DOI: 10.1126/science.aad9858] [Citation(s) in RCA: 313] [Impact Index Per Article: 39.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2015] [Accepted: 03/31/2016] [Indexed: 12/23/2022]
|
25
|
Wege S, Khan GA, Jung JY, Vogiatzaki E, Pradervand S, Aller I, Meyer AJ, Poirier Y. The EXS Domain of PHO1 Participates in the Response of Shoots to Phosphate Deficiency via a Root-to-Shoot Signal. Plant Physiol 2016; 170:385-400. [PMID: 26546667 PMCID: PMC4704572 DOI: 10.1104/pp.15.00975] [Citation(s) in RCA: 83] [Impact Index Per Article: 10.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/30/2015] [Accepted: 11/04/2015] [Indexed: 05/17/2023]
Abstract
The response of shoots to phosphate (Pi) deficiency implicates long-distance communication between roots and shoots, but the participating components are poorly understood. We have studied the topology of the Arabidopsis (Arabidopsis thaliana) PHOSPHATE1 (PHO1) Pi exporter and defined the functions of its different domains in Pi homeostasis and signaling. The results indicate that the amino and carboxyl termini of PHO1 are both oriented toward the cytosol and that the protein spans the membrane twice in the EXS domain, resulting in a total of six transmembrane α-helices. Using transient expression in Nicotiana benthamiana leaf, we demonstrated that the EXS domain of PHO1 is essential for Pi export activity and proper localization to the Golgi and trans-Golgi network, although the EXS domain by itself cannot mediate Pi export. In contrast, removal of the amino-terminal hydrophilic SPX domain does not affect the Pi export capacity of the truncated PHO1 in N. benthamiana. While the Arabidopsis pho1 mutant has low shoot Pi and shows all the hallmarks associated with Pi deficiency, including poor shoot growth and overexpression of numerous Pi deficiency-responsive genes, expression of only the EXS domain of PHO1 in the roots of the pho1 mutant results in a remarkable improvement of shoot growth despite low shoot Pi. Transcriptomic analysis of pho1 expressing the EXS domain indicates an attenuation of the Pi signaling cascade and the up-regulation of genes involved in cell wall synthesis and the synthesis or response to several phytohormones in leaves as well as an altered expression of genes responsive to abscisic acid in roots.
Collapse
Affiliation(s)
- Stefanie Wege
- Department for Plant Molecular Biology (S.W., G.A.K., J.-Y.J., E.V., Y.P.) and Genomic Technologies Facility, Center for Integrative Genomics (S.P.), University of Lausanne, 1015 Lausanne, Switzerland;Vital-IT, Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland (S.P.); andInstitute for Crop Science and Natural Resources, Chemical Signaling, University of Bonn, 53113 Bonn, Germany (I.A., A.J.M.)
| | - Ghazanfar Abbas Khan
- Department for Plant Molecular Biology (S.W., G.A.K., J.-Y.J., E.V., Y.P.) and Genomic Technologies Facility, Center for Integrative Genomics (S.P.), University of Lausanne, 1015 Lausanne, Switzerland;Vital-IT, Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland (S.P.); andInstitute for Crop Science and Natural Resources, Chemical Signaling, University of Bonn, 53113 Bonn, Germany (I.A., A.J.M.)
| | - Ji-Yul Jung
- Department for Plant Molecular Biology (S.W., G.A.K., J.-Y.J., E.V., Y.P.) and Genomic Technologies Facility, Center for Integrative Genomics (S.P.), University of Lausanne, 1015 Lausanne, Switzerland;Vital-IT, Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland (S.P.); andInstitute for Crop Science and Natural Resources, Chemical Signaling, University of Bonn, 53113 Bonn, Germany (I.A., A.J.M.)
| | - Evangelia Vogiatzaki
- Department for Plant Molecular Biology (S.W., G.A.K., J.-Y.J., E.V., Y.P.) and Genomic Technologies Facility, Center for Integrative Genomics (S.P.), University of Lausanne, 1015 Lausanne, Switzerland;Vital-IT, Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland (S.P.); andInstitute for Crop Science and Natural Resources, Chemical Signaling, University of Bonn, 53113 Bonn, Germany (I.A., A.J.M.)
| | - Sylvain Pradervand
- Department for Plant Molecular Biology (S.W., G.A.K., J.-Y.J., E.V., Y.P.) and Genomic Technologies Facility, Center for Integrative Genomics (S.P.), University of Lausanne, 1015 Lausanne, Switzerland;Vital-IT, Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland (S.P.); andInstitute for Crop Science and Natural Resources, Chemical Signaling, University of Bonn, 53113 Bonn, Germany (I.A., A.J.M.)
| | - Isabel Aller
- Department for Plant Molecular Biology (S.W., G.A.K., J.-Y.J., E.V., Y.P.) and Genomic Technologies Facility, Center for Integrative Genomics (S.P.), University of Lausanne, 1015 Lausanne, Switzerland;Vital-IT, Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland (S.P.); andInstitute for Crop Science and Natural Resources, Chemical Signaling, University of Bonn, 53113 Bonn, Germany (I.A., A.J.M.)
| | - Andreas J Meyer
- Department for Plant Molecular Biology (S.W., G.A.K., J.-Y.J., E.V., Y.P.) and Genomic Technologies Facility, Center for Integrative Genomics (S.P.), University of Lausanne, 1015 Lausanne, Switzerland;Vital-IT, Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland (S.P.); andInstitute for Crop Science and Natural Resources, Chemical Signaling, University of Bonn, 53113 Bonn, Germany (I.A., A.J.M.)
| | - Yves Poirier
- Department for Plant Molecular Biology (S.W., G.A.K., J.-Y.J., E.V., Y.P.) and Genomic Technologies Facility, Center for Integrative Genomics (S.P.), University of Lausanne, 1015 Lausanne, Switzerland;Vital-IT, Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland (S.P.); andInstitute for Crop Science and Natural Resources, Chemical Signaling, University of Bonn, 53113 Bonn, Germany (I.A., A.J.M.)
| |
Collapse
|
26
|
Sommerville M, Poirier Y, Tambasco M. TU-F-CAMPUS-I-02: Validation of a CT X-Ray Source Characterization Technique for Dose Computation Using An Anthropomorphic Thorax Phantom. Med Phys 2015. [DOI: 10.1118/1.4925812] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
|
27
|
Jabnoune M, Secco D, Lecampion C, Robaglia C, Shu Q, Poirier Y. An Efficient Procedure for Protoplast Isolation from Mesophyll Cells and Nuclear Fractionation in Rice. Bio Protoc 2015. [DOI: 10.21769/bioprotoc.1412] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022] Open
|
28
|
Jabnoune M, Secco D, Lecampion C, Robaglia C, Shu Q, Poirier Y. Isolation of Polysome-bound mRNA from Rice Solid Tissues Amenable for RT-PCR and Profiling Experiments. Bio Protoc 2015. [DOI: 10.21769/bioprotoc.1411] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022] Open
|
29
|
Jabnoune M, Secco D, Lecampion C, Robaglia C, Shu Q, Poirier Y. RNA Editing Detection by Direct Sequencing. Bio Protoc 2015. [DOI: 10.21769/bioprotoc.1410] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022] Open
|
30
|
Bouain N, Shahzad Z, Rouached A, Khan GA, Berthomieu P, Abdelly C, Poirier Y, Rouached H. Phosphate and zinc transport and signalling in plants: toward a better understanding of their homeostasis interaction. J Exp Bot 2014; 65:5725-41. [PMID: 25080087 DOI: 10.1093/jxb/eru314] [Citation(s) in RCA: 64] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
Abstract
Inorganic phosphate (Pi) and zinc (Zn) are two essential nutrients for plant growth. In soils, these two minerals are either present in low amounts or are poorly available to plants. Consequently, worldwide agriculture has become dependent on external sources of Pi and Zn fertilizers to increase crop yields. However, this strategy is neither economically nor ecologically sustainable in the long term, particularly for Pi, which is a non-renewable resource. To date, research has emphasized the analysis of mineral nutrition considering each nutrient individually, and showed that Pi and Zn homeostasis is highly regulated in a complex process. Interestingly, numerous observations point to an unexpected interconnection between the homeostasis of the two nutrients. Nevertheless, despite their fundamental importance, the molecular bases and biological significance of these interactions remain largely unknown. Such interconnections can account for shortcomings of current agronomic models that typically focus on improving the assimilation of individual elements. Here, current knowledge on the regulation of the transport and signalling of Pi and Zn individually is reviewed, and then insights are provided on the recent progress made towards a better understanding of the Zn-Pi homeostasis interaction in plants.
Collapse
Affiliation(s)
- Nadia Bouain
- Biochimie et Physiologie Moléculaire des Plantes, Institut National de la Recherche Agronomique, Centre National de la Recherche Scientifique, Université Montpellier 2, Montpellier SupAgro. Bat 7, 2 place Viala, 34060 Montpellier cedex 2, France Laboratoire Des Plantes Extrêmophile, Centre de Biotechnologie de Borj Cédria, BP 901, 2050 Hammam-Lif, Tunisia
| | - Zaigham Shahzad
- Biochimie et Physiologie Moléculaire des Plantes, Institut National de la Recherche Agronomique, Centre National de la Recherche Scientifique, Université Montpellier 2, Montpellier SupAgro. Bat 7, 2 place Viala, 34060 Montpellier cedex 2, France
| | - Aida Rouached
- Laboratoire Des Plantes Extrêmophile, Centre de Biotechnologie de Borj Cédria, BP 901, 2050 Hammam-Lif, Tunisia
| | - Ghazanfar Abbas Khan
- Département de Biologie Moléculaire Végétale, Biophore, Université de Lausanne, CH-1015 Lausanne, Switzerland
| | - Pierre Berthomieu
- Biochimie et Physiologie Moléculaire des Plantes, Institut National de la Recherche Agronomique, Centre National de la Recherche Scientifique, Université Montpellier 2, Montpellier SupAgro. Bat 7, 2 place Viala, 34060 Montpellier cedex 2, France
| | - Chedly Abdelly
- Laboratoire Des Plantes Extrêmophile, Centre de Biotechnologie de Borj Cédria, BP 901, 2050 Hammam-Lif, Tunisia
| | - Yves Poirier
- Département de Biologie Moléculaire Végétale, Biophore, Université de Lausanne, CH-1015 Lausanne, Switzerland
| | - Hatem Rouached
- Biochimie et Physiologie Moléculaire des Plantes, Institut National de la Recherche Agronomique, Centre National de la Recherche Scientifique, Université Montpellier 2, Montpellier SupAgro. Bat 7, 2 place Viala, 34060 Montpellier cedex 2, France
| |
Collapse
|
31
|
Tilbrook K, Poirier Y, Gebbie L, Schenk PM, McQualter RB, Brumbley SM. Reduced peroxisomal citrate synthase activity increases substrate availability for polyhydroxyalkanoate biosynthesis in plant peroxisomes. Plant Biotechnol J 2014; 12:1044-1052. [PMID: 24944109 DOI: 10.1111/pbi.12211] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/31/2014] [Revised: 04/25/2014] [Accepted: 05/01/2014] [Indexed: 06/03/2023]
Abstract
Polyhydroxyalkanoates (PHAs) are bacterial carbon storage polymers used as renewable, biodegradable plastics. PHA production in plants may be a way to reduce industrial PHA production costs. We recently demonstrated a promising level of peroxisomal PHA production in the high biomass crop species sugarcane. However, further production strategies are needed to boost PHA accumulation closer to commercial targets. Through exogenous fatty acid feeding of Arabidopsis thaliana plants that contain peroxisome-targeted PhaA, PhaB and PhaC enzymes from Cupriavidus necator, we show here that the availability of substrates derived from the β-oxidation cycle limits peroxisomal polyhydroxybutyrate (PHB) biosynthesis. Knockdown of peroxisomal citrate synthase activity using artificial microRNA increased PHB production levels approximately threefold. This work demonstrates that reduction of peroxisomal citrate synthase activity may be a valid metabolic engineering strategy for increasing PHA production in other plant species.
Collapse
Affiliation(s)
- Kimberley Tilbrook
- School of Biological Science, The University of Queensland, Brisbane, Qld, Australia; Australian Institute for Bioengineering and Nanotechnology, The University of Queensland, Brisbane, Qld, Australia; The Cooperative Research Centre for Sugar Industry Innovation through Biotechnology, The University of Queensland, Brisbane, Qld, Australia
| | | | | | | | | | | |
Collapse
|
32
|
Poirier Y, Sommerville M, Johnstone C, Gräfe J, Nygren I, Khan R, Villareal-Barajas J, Jacso F, Tambasco M. Sci-Thur AM: YIS - 09: Validation of a General Empirically-Based Beam Model for kV X-ray Sources. Med Phys 2014. [DOI: 10.1118/1.4894971] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
|
33
|
Xing S, van Deenen N, Magliano P, Frahm L, Forestier E, Nawrath C, Schaller H, Gronover CS, Prüfer D, Poirier Y. ATP citrate lyase activity is post-translationally regulated by sink strength and impacts the wax, cutin and rubber biosynthetic pathways. Plant J 2014; 79:270-84. [PMID: 24844815 DOI: 10.1111/tpj.12559] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/06/2013] [Revised: 05/07/2014] [Accepted: 05/09/2014] [Indexed: 05/24/2023]
Abstract
Cytosolic acetyl-CoA is involved in the synthesis of a variety of compounds, including waxes, sterols and rubber, and is generated by the ATP citrate lyase (ACL). Plants over-expressing ACL were generated in an effort to understand the contribution of ACL activity to the carbon flux of acetyl-CoA to metabolic pathways occurring in the cytosol. Transgenic Arabidopsis plants synthesizing the polyester polyhydroxybutyrate (PHB) from cytosolic acetyl-CoA have reduced growth and wax content, consistent with a reduction in the availability of cytosolic acetyl-CoA to endogenous pathways. Increasing the ACL activity via the over-expression of the ACLA and ACLB subunits reversed the phenotypes associated with PHB synthesis while maintaining polymer synthesis. PHB production by itself was associated with an increase in ACL activity that occurred in the absence of changes in steady-state mRNA or protein level, indicating a post-translational regulation of ACL activity in response to sink strength. Over-expression of ACL in Arabidopsis was associated with a 30% increase in wax on stems, while over-expression of a chimeric homomeric ACL in the laticifer of roots of dandelion led to a four- and two-fold increase in rubber and triterpene content, respectively. Synthesis of PHB and over-expression of ACL also changed the amount of the cutin monomer octadecadien-1,18-dioic acid, revealing an unsuspected link between cytosolic acetyl-CoA and cutin biosynthesis. Together, these results reveal the complexity of ACL regulation and its central role in influencing the carbon flux to metabolic pathways using cytosolic acetyl-CoA, including wax and polyisoprenoids.
Collapse
Affiliation(s)
- Shufan Xing
- Department of Plant Molecular Biology, University of Lausanne, Biophore Building, CH-1015, Lausanne, Switzerland
| | | | | | | | | | | | | | | | | | | |
Collapse
|
34
|
Li WX, Zhao HJ, Pang WQ, Cui HR, Poirier Y, Shu QY. Seed-specific silencing of OsMRP5 reduces seed phytic acid and weight in rice. Transgenic Res 2014; 23:585-99. [PMID: 24648215 DOI: 10.1007/s11248-014-9792-1] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2013] [Accepted: 03/10/2014] [Indexed: 11/29/2022]
Abstract
Phytic acid (PA) is poorly digested by humans and monogastric animals and negatively affects human/animal nutrition and the environment. Rice mutants with reduced PA content have been developed but are often associated with reduced seed weight and viability, lacking breeding value. In the present study, a new approach was explored to reduce seed PA while attaining competitive yield. The OsMRP5 gene, of which mutations are known to reduce seed PA as well as seed yield and viability, was down-regulated specifically in rice seeds by using an artificial microRNA driven by the rice seed specific promoter Ole18. Seed PA contents were reduced by 35.8-71.9% in brown rice grains of transgenic plants compared to their respective null plants (non-transgenic plants derived from the same event). No consistent significant differences of plant height or number of tillers per plant were observed, but significantly lower seed weights (up to 17.8% reduction) were detected in all transgenic lines compared to null plants, accompanied by reductions of seed germination and seedling emergence. It was observed that the silencing of the OsMRP5 gene increased the inorganic P (Pi) levels (up to 7.5 times) in amounts more than the reduction of PA-P in brown rice. This indicates a reduction in P content in other cellular compounds, such as lipids and nucleic acids, which may affect overall seed development. Put together, the present study demonstrated that seed specific silencing of OsMRP5 could significantly reduce the PA content and increase Pi levels in seeds; however, it also significantly lowers seed weight in rice. Discussions were made regarding future directions towards producing agronomically competitive and nutritionally valuable low PA rice.
Collapse
Affiliation(s)
- Wen-Xu Li
- State Key Laboratory of Rice Biology and Key Laboratory of Nuclear-Agricultural Sciences of the Ministry of Agriculture and Zhejiang Province, Institute of Nuclear Agricultural Sciences, Zhejiang University, Hangzhou, 310029, China
| | | | | | | | | | | |
Collapse
|
35
|
Khan GA, Bouraine S, Wege S, Li Y, de Carbonnel M, Berthomieu P, Poirier Y, Rouached H. Coordination between zinc and phosphate homeostasis involves the transcription factor PHR1, the phosphate exporter PHO1, and its homologue PHO1;H3 in Arabidopsis. J Exp Bot 2014; 65:871-84. [PMID: 24420568 PMCID: PMC3924728 DOI: 10.1093/jxb/ert444] [Citation(s) in RCA: 108] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/07/2023]
Abstract
Interactions between zinc (Zn) and phosphate (Pi) nutrition in plants have long been recognized, but little information is available on their molecular bases and biological significance. This work aimed at examining the effects of Zn deficiency on Pi accumulation in Arabidopsis thaliana and uncovering genes involved in the Zn-Pi synergy. Wild-type plants as well as mutants affected in Pi signalling and transport genes, namely the transcription factor PHR1, the E2-conjugase PHO2, and the Pi exporter PHO1, were examined. Zn deficiency caused an increase in shoot Pi content in the wild type as well as in the pho2 mutant, but not in the phr1 or pho1 mutants. This indicated that PHR1 and PHO1 participate in the coregulation of Zn and Pi homeostasis. Zn deprivation had a very limited effect on transcript levels of Pi-starvation-responsive genes such as AT4, IPS1, and microRNA399, or on of members of the high-affinity Pi transporter family PHT1. Interestingly, one of the PHO1 homologues, PHO1;H3, was upregulated in response to Zn deficiency. The expression pattern of PHO1 and PHO1;H3 were similar, both being expressed in cells of the root vascular cylinder and both localized to the Golgi when expressed transiently in tobacco cells. When grown in Zn-free medium, pho1;h3 mutant plants displayed higher Pi contents in the shoots than wild-type plants. This was, however, not observed in a pho1 pho1;h3 double mutant, suggesting that PHO1;H3 restricts root-to-shoot Pi transfer requiring PHO1 function for Pi homeostasis in response to Zn deficiency.
Collapse
Affiliation(s)
- Ghazanfar Abbas Khan
- Département de Biologie Moléculaire Végétale, Biophore, Université de Lausanne, CH-1015 Lausanne, Switzerland
| | - Samir Bouraine
- Biochimie et Physiologie Moléculaire des Plantes, Institut National de la Recherche Agronomique, Centre National de la Recherche Scientifique, Université Montpellier 2, Montpellier SupAgro. Bat 7, 2 place Viala, 34060 Montpellier cedex 2, France
| | - Stefanie Wege
- Département de Biologie Moléculaire Végétale, Biophore, Université de Lausanne, CH-1015 Lausanne, Switzerland
| | - Yuanyuan Li
- Département de Biologie Moléculaire Végétale, Biophore, Université de Lausanne, CH-1015 Lausanne, Switzerland
| | - Matthieu de Carbonnel
- Département de Biologie Moléculaire Végétale, Biophore, Université de Lausanne, CH-1015 Lausanne, Switzerland
| | - Pierre Berthomieu
- Biochimie et Physiologie Moléculaire des Plantes, Institut National de la Recherche Agronomique, Centre National de la Recherche Scientifique, Université Montpellier 2, Montpellier SupAgro. Bat 7, 2 place Viala, 34060 Montpellier cedex 2, France
| | - Yves Poirier
- Département de Biologie Moléculaire Végétale, Biophore, Université de Lausanne, CH-1015 Lausanne, Switzerland
| | - Hatem Rouached
- Département de Biologie Moléculaire Végétale, Biophore, Université de Lausanne, CH-1015 Lausanne, Switzerland
- Biochimie et Physiologie Moléculaire des Plantes, Institut National de la Recherche Agronomique, Centre National de la Recherche Scientifique, Université Montpellier 2, Montpellier SupAgro. Bat 7, 2 place Viala, 34060 Montpellier cedex 2, France
| |
Collapse
|
36
|
Wege S, Poirier Y. Expression of the mammalian Xenotropic Polytropic Virus Receptor 1 (XPR1) in tobacco leaves leads to phosphate export. FEBS Lett 2014; 588:482-9. [PMID: 24374333 DOI: 10.1016/j.febslet.2013.12.013] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2013] [Revised: 12/06/2013] [Accepted: 12/06/2013] [Indexed: 10/25/2022]
Abstract
Phosphate homeostasis in multicellular eukaryotes depends on both phosphate influx and efflux. The mammalian Xenotropic Polytropic Virus Receptor 1 (XPR1) shares homology to the Arabidopsis PHO1, a phosphate exporter expressed in roots. However, phosphate export activity of XPR1 has not yet been demonstrated in a heterologous system. Here, wedemonstrate that transient expression in tobacco leaves of XPR1-GFP leads to specific phosphate export. Like PHO1-GFP, XPR1-GFP is localized predominantly to the endomembrane system in tobacco cells. These results show that tobacco leaves are a good heterologous system to study the transport activity of members of the PHO1/XPR1 family.
Collapse
Affiliation(s)
- Stefanie Wege
- Department of Plant Molecular Biology, University of Lausanne, 1015 Lausanne, Switzerland
| | - Yves Poirier
- Department of Plant Molecular Biology, University of Lausanne, 1015 Lausanne, Switzerland.
| |
Collapse
|
37
|
Zhao HJ, Cui HR, Xu XH, Tan YY, Fu JJ, Liu GZ, Poirier Y, Shu QY. Characterization of OsMIK in a rice mutant with reduced phytate content reveals an insertion of a rearranged retrotransposon. Theor Appl Genet 2013; 126:3009-20. [PMID: 24042572 DOI: 10.1007/s00122-013-2189-3] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/08/2012] [Accepted: 09/05/2013] [Indexed: 05/12/2023]
Abstract
The rice low phytic acid (lpa) mutant Os-lpa-XS110-1(XS-lpa) has ~45 % reduction in seed phytic acid (PA) compared with the wild-type cultivar Xiushui 110. Previously, a single recessive gene mutation was shown to be responsible for the lpa phenotype and was mapped to a region of chromosome 3 near OsMIK (LOC_Os03g52760) and OsIPK1 (LOC_Os03g51610), two genes involved in PA biosynthesis. Here, we report the identification of a large insert in the intron of OsMIK in the XS-lpa mutant. Sequencing of fragments amplified through TAIL-PCRs revealed that the insert was a derivative of the LINE retrotransposon gene LOC_Os03g56910. Further analyses revealed the following characteristics of the insert and its impacts: (1) the inserted sequence of LOC_Os03g56910 was split at its third exon and rejoined inversely, with its 5' and 3' flanking sequences inward and the split third exon segments outward; (2) the LOC_Os03g56910 remained in its original locus in XS-lpa, and the insertion probably resulted from homologous recombination repair of a DNA double strand break; (3) while the OsMIK transcripts of XS-lpa and Xiushui 110 were identical, substantial reductions of the transcript abundance (~87 %) and the protein level (~60 %) were observed in XS-lpa, probably due to increased methylation in its promoter region. The above findings are discussed in the context of plant mutagenesis, epigenetics and lpa breeding.
Collapse
Affiliation(s)
- Hai-Jun Zhao
- State Key Laboratory of Rice Biology and Key Laboratory of Nuclear-Agricultural Sciences of the Ministry of Agriculture and Zhejiang Province, Institute of Nuclear Agricultural Sciences, Zhejiang University, Hangzhou, 310029, China
| | | | | | | | | | | | | | | |
Collapse
|
38
|
Secco D, Jabnoune M, Walker H, Shou H, Wu P, Poirier Y, Whelan J. Spatio-temporal transcript profiling of rice roots and shoots in response to phosphate starvation and recovery. Plant Cell 2013; 25:4285-304. [PMID: 24249833 PMCID: PMC3875719 DOI: 10.1105/tpc.113.117325] [Citation(s) in RCA: 92] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/14/2013] [Revised: 10/07/2013] [Accepted: 10/30/2013] [Indexed: 05/18/2023]
Abstract
Using rice (Oryza sativa) as a model crop species, we performed an in-depth temporal transcriptome analysis, covering the early and late stages of Pi deprivation as well as Pi recovery in roots and shoots, using next-generation sequencing. Analyses of 126 paired-end RNA sequencing libraries, spanning nine time points, provided a comprehensive overview of the dynamic responses of rice to Pi stress. Differentially expressed genes were grouped into eight sets based on their responses to Pi starvation and recovery, enabling the complex signaling pathways involved in Pi homeostasis to be untangled. A reference annotation-based transcript assembly was also generated, identifying 438 unannotated loci that were differentially expressed under Pi starvation. Several genes also showed induction of unannotated splice isoforms under Pi starvation. Among these, PHOSPHATE2 (PHO2), a key regulator of Pi homeostasis, displayed a Pi starvation-induced isoform, which was associated with increased translation activity. In addition, microRNA (miRNA) expression profiles after long-term Pi starvation in roots and shoots were assessed, identifying 20 miRNA families that were not previously associated with Pi starvation, such as miR6250. In this article, we present a comprehensive spatio-temporal transcriptome analysis of plant responses to Pi stress, revealing a large number of potential key regulators of Pi homeostasis in plants.
Collapse
Affiliation(s)
- David Secco
- Australian Research Council Centre of Excellence in Plant Energy Biology, University of Western Australia, Crawley 6009, Australia
- Address correspondence to
| | - Mehdi Jabnoune
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, Lausanne CH-1015, Switzerland
| | - Hayden Walker
- Australian Research Council Centre of Excellence in Plant Energy Biology, University of Western Australia, Crawley 6009, Australia
| | - Huixia Shou
- State Key Laboratory of Plant Physiology and Biochemistry College of Life Sciences, Zhejiang University, Hangzhou 310058, China
- Joint Research Laboratory in Genomics and Nutriomics, Zhejiang University, Hangzhou 310058, China
| | - Ping Wu
- State Key Laboratory of Plant Physiology and Biochemistry College of Life Sciences, Zhejiang University, Hangzhou 310058, China
- Joint Research Laboratory in Genomics and Nutriomics, Zhejiang University, Hangzhou 310058, China
| | - Yves Poirier
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, Lausanne CH-1015, Switzerland
| | - James Whelan
- Australian Research Council Centre of Excellence in Plant Energy Biology, University of Western Australia, Crawley 6009, Australia
- Joint Research Laboratory in Genomics and Nutriomics, Zhejiang University, Hangzhou 310058, China
- Department of Botany, School of Life Science, La Trobe University, Bundoora 3086, Victoria, Australia
| |
Collapse
|
39
|
Jabnoune M, Secco D, Lecampion C, Robaglia C, Shu Q, Poirier Y. A rice cis-natural antisense RNA acts as a translational enhancer for its cognate mRNA and contributes to phosphate homeostasis and plant fitness. Plant Cell 2013; 25:4166-82. [PMID: 24096344 PMCID: PMC3877805 DOI: 10.1105/tpc.113.116251] [Citation(s) in RCA: 149] [Impact Index Per Article: 13.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/16/2013] [Revised: 09/03/2013] [Accepted: 09/18/2013] [Indexed: 05/16/2023]
Abstract
cis-natural antisense transcripts (cis-NATs) are widespread in plants and are often associated with downregulation of their associated sense genes. We found that a cis-NAT positively regulates the level of a protein critical for phosphate homeostasis in rice (Oryza sativa). PHOSPHATE1;2 (PHO1;2), a gene involved in phosphate loading into the xylem in rice, and its associated cis-NATPHO1;2 are both controlled by promoters active in the vascular cylinder of roots and leaves. While the PHO1;2 promoter is unresponsive to the plant phosphate status, the cis-NATPHO1;2 promoter is strongly upregulated under phosphate deficiency. Expression of both cis-NATPHO1;2 and the PHO1;2 protein increased in phosphate-deficient plants, while the PHO1;2 mRNA level remained stable. Downregulation of cis-NATPHO1;2 expression by RNA interference resulted in a decrease in PHO1;2 protein, impaired the transfer of phosphate from root to shoot, and decreased seed yield. Constitutive overexpression of NATPHO1;2 in trans led to a strong increase of PHO1;2, even under phosphate-sufficient conditions. Under all conditions, no changes occurred in the level of expression, sequence, or nuclear export of PHO1;2 mRNA. However, expression of cis-NATPHO1;2 was associated with a shift of both PHO1;2 and cis-NATPHO1;2 toward the polysomes. These findings reveal an unexpected role for cis-NATPHO1;2 in promoting PHO1;2 translation and affecting phosphate homeostasis and plant fitness.
Collapse
Affiliation(s)
- Mehdi Jabnoune
- Department of Plant Molecular Biology, University of Lausanne, Lausanne CH-1015, Switzerland
| | - David Secco
- Department of Plant Molecular Biology, University of Lausanne, Lausanne CH-1015, Switzerland
| | - Cécile Lecampion
- Laboratory of Plant Genetics and Biophysics, Centre National de la Recherche Scientifique, Unité Mixte de Recherche 7265, Commissariat à l’Energie Atomique, Institute of Environmental Biology and Biotechnology, Aix Marseille University, Faculty of Sciences, Luminy, Marseille F-13009, France
| | - Christophe Robaglia
- Laboratory of Plant Genetics and Biophysics, Centre National de la Recherche Scientifique, Unité Mixte de Recherche 7265, Commissariat à l’Energie Atomique, Institute of Environmental Biology and Biotechnology, Aix Marseille University, Faculty of Sciences, Luminy, Marseille F-13009, France
| | - Qingyao Shu
- Institute of Nuclear Agricultural Sciences, Zhejiang University, Hangzhou 310029, China
| | - Yves Poirier
- Department of Plant Molecular Biology, University of Lausanne, Lausanne CH-1015, Switzerland
| |
Collapse
|
40
|
Kirkby C, Ghasroddashti E, Poirier Y, Tambasco M, Stewart RD. RBE of kV CBCT radiation determined by Monte Carlo DNA damage simulations. Phys Med Biol 2013; 58:5693-704. [DOI: 10.1088/0031-9155/58/16/5693] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
|
41
|
Sommerville M, Poirier Y, Kouznetsov A, Tambasco M. MO-D-134-10: Using HVL and KVp to Portray An X-Ray Source for Dose Calculations in CT. Med Phys 2013. [DOI: 10.1118/1.4815268] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
|
42
|
Kirkby C, Ghasroddashti E, Poirier Y, Tambasco M, Stewart R. SU-E-T-495: Monte Carlo Simulations of Relative DNA Damage From KV CBCT Radiation. Med Phys 2013. [DOI: 10.1118/1.4814925] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
|
43
|
Poirier Y, Kouznetsov A, Tambasco M. PO-0803: Validation of a kV dose computation method for CBCT imaging procedures. Radiother Oncol 2013. [DOI: 10.1016/s0167-8140(15)33109-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
|
44
|
Couturier D, Poirier Y, Louvel A, Esnous C, Couturier-Turpin MH. La partie distale du bras court du chromosome 1 impliquée dans la cancérogenèse recto-colique ? Med Sci (Paris) 2013. [DOI: 10.4267/10608/3212] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022] Open
|
45
|
Zimmerli C, Ribot C, Vavasseur A, Bauer H, Hedrich R, Poirier Y. PHO1 expression in guard cells mediates the stomatal response to abscisic acid in Arabidopsis. Plant J 2012; 72:199-211. [PMID: 22612335 DOI: 10.1111/j.1365-313x.2012.05058.x] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
Stomatal opening and closing are driven by ion fluxes that cause changes in guard cell turgor and volume. This process is, in turn, regulated by environmental and hormonal signals, including light and the phytohormone abscisic acid (ABA). Here, we present genetic evidence that expression of PHO1 in guard cells of Arabidopsis thaliana is required for full stomatal responses to ABA. PHO1 is involved in the export of phosphate into the root xylem vessels and, as a result, the pho1 mutant is characterized by low shoot phosphate levels. In leaves, PHO1 was found expressed in guard cells and up-regulated following treatment with ABA. The pho1 mutant was unaffected in production of reactive oxygen species following ABA treatment, and in stomatal movements in response to light cues, high extracellular calcium, auxin, and fusicoccin. However, stomatal movements in response to ABA treatment were severely impaired, both in terms of induction of closure and inhibition of opening. Micro-grafting a pho1 shoot scion onto wild-type rootstock resulted in plants with normal shoot growth and phosphate content, but failed to restore normal stomatal response to ABA treatment. PHO1 knockdown using RNA interference specifically in guard cells of wild-type plants caused a reduced stomatal response to ABA. In agreement, specific expression of PHO1 in guard cells of pho1 plants complemented the mutant guard cell phenotype and re-established ABA sensitivity, although full functional complementation was dependent on shoot phosphate sufficiency. Together, these data reveal an important role for phosphate and the action of PHO1 in the stomatal response to ABA.
Collapse
Affiliation(s)
- Céline Zimmerli
- Département de Biologie Moléculaire Végétale, Biophore, Université de Lausanne, CH-1015 Lausanne, Switzerland
| | | | | | | | | | | |
Collapse
|
46
|
Arpat AB, Magliano P, Wege S, Rouached H, Stefanovic A, Poirier Y. Functional expression of PHO1 to the Golgi and trans-Golgi network and its role in export of inorganic phosphate. Plant J 2012; 71:479-91. [PMID: 22449068 DOI: 10.1111/j.1365-313x.2012.05004.x] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
Arabidopsis thaliana PHO1 is primarily expressed in the root vascular cylinder and is involved in the transfer of inorganic phosphate (Pi) from roots to shoots. To analyze the role of PHO1 in transport of Pi, we have generated transgenic plants expressing PHO1 in ectopic A. thaliana tissues using an estradiol-inducible promoter. Leaves treated with estradiol showed strong PHO1 expression, leading to detectable accumulation of PHO1 protein. Estradiol-mediated induction of PHO1 in leaves from soil-grown plants, in leaves and roots of plants grown in liquid culture, or in leaf mesophyll protoplasts, was all accompanied by the specific release of Pi to the extracellular medium as early as 2-3 h after addition of estradiol. Net Pi export triggered by PHO1 induction was enhanced by high extracellular Pi and weakly inhibited by the proton-ionophore carbonyl cyanide m-chlorophenylhydrazone. Expression of a PHO1-GFP construct complementing the pho1 mutant revealed GFP expression in punctate structures in the pericycle cells but no fluorescence at the plasma membrane. When expressed in onion epidermal cells or in tobacco mesophyll cells, PHO1-GFP was associated with similar punctate structures that co-localized with the Golgi/trans-Golgi network and uncharacterized vesicles. However, PHO1-GFP could be partially relocated to the plasma membrane in leaves infiltrated with a high-phosphate solution. Together, these results show that PHO1 can trigger Pi export in ectopic plant cells, strongly indicating that PHO1 is itself a Pi exporter. Interestingly, PHO1-mediated Pi export was associated with its localization to the Golgi and trans-Golgi networks, revealing a role for these organelles in Pi transport.
Collapse
Affiliation(s)
- A Bulak Arpat
- Department of Plant Molecular Biology, University of Lausanne, CH-1015 Lausanne, Switzerland
| | | | | | | | | | | |
Collapse
|
47
|
Xing S, Poirier Y. The protein acetylome and the regulation of metabolism. Trends Plant Sci 2012; 17:423-30. [PMID: 22503580 DOI: 10.1016/j.tplants.2012.03.008] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/29/2011] [Revised: 03/14/2012] [Accepted: 03/17/2012] [Indexed: 05/23/2023]
Abstract
Acetyl-coenzyme A (CoA) is a central metabolite involved in numerous anabolic and catabolic pathways, as well as in protein acetylation. Beyond histones, a large number of metabolic enzymes are acetylated in both animal and bacteria, and the protein acetylome is now emerging in plants. Protein acetylation is influenced by the cellular level of both acetyl-CoA and NAD(+), and regulates the activity of several enzymes. Acetyl-CoA is thus ideally placed to act as a key molecule linking the energy balance of the cell to the regulation of gene expression and metabolic pathways via the control of protein acetylation. Better knowledge over how to influence acetyl-CoA levels and the acetylation process promises to be an invaluable tool to control metabolic pathways.
Collapse
Affiliation(s)
- Shufan Xing
- Department of Plant Molecular Biology, Biophore Building, University of Lausanne, CH-1015 Lausanne, Switzerland
| | | |
Collapse
|
48
|
Kirkby C, Ghasroddashti E, Poirier Y, Tambasco M, Stewart RD. Sci-Sat AM: Brachy - 06: Monte carlo DNA damage simulations of kV cbct radiation. Med Phys 2012; 39:4645-4646. [PMID: 28516659 DOI: 10.1118/1.4740213] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
Abstract
When performed daily, cone beam CT (CBCT) images can accumulate radiation dose to non-negligible levels. Because kV x-rays have a larger relative biological effectiveness (RBE) than its MV x-rays, the accumulated absorbed dose needs to be multiplied by an appropriate RBE to better evaluate the impact of CBCT dose in a treatment planning context. We investigated this question using PENLEOPE simulations to look in detail at the electron energy spectra produced by kV x-rays and Co-60 γ-rays in biologically motivated geometries. The electron spectra were input into the published Monte Carlo Damage Simulation (MCDS) and used to estimate the average number of double strand breaks (DSBs) per Gy per cell. Our results suggest an approximately 10% increase in the RBE for DSB induction. For the majority of treatment planning scenarios where imaging dose is only a small fraction of the total delivered dose to target volumes and organs at risk, the increase in RBE is not critical to be factored in, however for it may play a significant role in predicting the induction of secondary cancers.
Collapse
Affiliation(s)
- C Kirkby
- Jack Ady Cancer Centre, Lethbridge, Alberta.,Department of Physics and Astronomy, University of Calgary, Tom Baker Cancer Centre, Calgary, Alberta.,Department of Oncology, University of Calgary, Tom Baker Cancer Centre, Calgary, Alberta
| | - E Ghasroddashti
- Jack Ady Cancer Centre, Lethbridge, Alberta.,Department of Physics and Astronomy, University of Calgary, Tom Baker Cancer Centre, Calgary, Alberta.,Department of Oncology, University of Calgary, Tom Baker Cancer Centre, Calgary, Alberta
| | - Y Poirier
- Department of Physics and Astronomy, University of Calgary, Tom Baker Cancer Centre, Calgary, Alberta
| | - M Tambasco
- Department of Physics and Astronomy, University of Calgary, Tom Baker Cancer Centre, Calgary, Alberta.,Department of Oncology, University of Calgary, Tom Baker Cancer Centre, Calgary, Alberta
| | - R D Stewart
- University of Washington Medical Centre, University of Washington, Seattle, Washington
| |
Collapse
|
49
|
Secco D, Wang C, Arpat BA, Wang Z, Poirier Y, Tyerman SD, Wu P, Shou H, Whelan J. The emerging importance of the SPX domain-containing proteins in phosphate homeostasis. New Phytol 2012; 193:842-51. [PMID: 22403821 DOI: 10.1111/j.1469-8137.2011.04002.x] [Citation(s) in RCA: 188] [Impact Index Per Article: 15.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/04/2023]
Abstract
Plant growth and development are strongly influenced by the availability of nutrients in the soil solution. Among them, phosphorus (P) is one of the most essential and most limiting macro-elements for plants. In the environment, plants are often confronted with P starvation as a result of extremely low concentrations of soluble inorganic phosphate (Pi) in the soil. To cope with these conditions, plants have developed a wide spectrum of mechanisms aimed at increasing P use efficiency. At the molecular level, recent studies have shown that several proteins carrying the SPX domain are essential for maintaining Pi homeostasis in plants. The SPX domain is found in numerous eukaryotic proteins, including several proteins from the yeast PHO regulon, involved in maintaining Pi homeostasis. In plants, proteins harboring the SPX domain are classified into four families based on the presence of additional domains in their structure, namely the SPX, SPX-EXS, SPX-MFS and SPX-RING families. In this review, we highlight the recent findings regarding the key roles of the proteins containing the SPX domain in phosphate signaling, as well as providing further research directions in order to improve our knowledge on P nutrition in plants, thus enabling the generation of plants with better P use efficiency.
Collapse
Affiliation(s)
- David Secco
- Australian Research Council Centre of Excellence in Plant Energy Biology, University of Western Australia, Crawley, WA 6009, Australia.
| | | | | | | | | | | | | | | | | |
Collapse
|
50
|
Magliano P, Flipphi M, Arpat BA, Delessert S, Poirier Y. Contributions of the peroxisome and β-oxidation cycle to biotin synthesis in fungi. J Biol Chem 2011; 286:42133-42140. [PMID: 21998305 PMCID: PMC3234907 DOI: 10.1074/jbc.m111.279687] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2011] [Revised: 10/04/2011] [Indexed: 12/22/2022] Open
Abstract
The first step in the synthesis of the bicyclic rings of D-biotin is mediated by 8-amino-7-oxononanoate (AON) synthase, which catalyzes the decarboxylative condensation of l-alanine and pimelate thioester. We found that the Aspergillus nidulans AON synthase, encoded by the bioF gene, is a peroxisomal enzyme with a type 1 peroxisomal targeting sequence (PTS1). Localization of AON to the peroxisome was essential for biotin synthesis because expression of a cytosolic AON variant or deletion of pexE, encoding the PTS1 receptor, rendered A. nidulans a biotin auxotroph. AON synthases with PTS1 are found throughout the fungal kingdom, in ascomycetes, basidiomycetes, and members of basal fungal lineages but not in representatives of the Saccharomyces species complex, including Saccharomyces cerevisiae. A. nidulans mutants defective in the peroxisomal acyl-CoA oxidase AoxA or the multifunctional protein FoxA showed a strong decrease in colonial growth rate in biotin-deficient medium, whereas partial growth recovery occurred with pimelic acid supplementation. These results indicate that pimeloyl-CoA is the in vivo substrate of AON synthase and that it is generated in the peroxisome via the β-oxidation cycle in A. nidulans and probably in a broad range of fungi. However, the β-oxidation cycle is not essential for biotin synthesis in S. cerevisiae or Escherichia coli. These results suggest that alternative pathways for synthesis of the pimelate intermediate exist in bacteria and eukaryotes and that Saccharomyces species use a pathway different from that used by the majority of fungi.
Collapse
Affiliation(s)
- Pasqualina Magliano
- Department of Plant Molecular Biology, University of Lausanne, CH-1015 Lausanne, Switzerland
| | - Michel Flipphi
- Instituto de Agroquímica y Tecnología de Alimentos, Consejo Superior de Investigaciones Científicas, E-46100 Burjassot, Valencia, Spain
| | - Bulak A Arpat
- Department of Plant Molecular Biology, University of Lausanne, CH-1015 Lausanne, Switzerland
| | - Syndie Delessert
- Department of Plant Molecular Biology, University of Lausanne, CH-1015 Lausanne, Switzerland
| | - Yves Poirier
- Department of Plant Molecular Biology, University of Lausanne, CH-1015 Lausanne, Switzerland.
| |
Collapse
|