1
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Navarro C, Mateo-Elizalde C, Mohan TC, Sánchez-Bermejo E, Urrutia O, Fernández-Muñiz MN, García-Mina JM, Muñoz R, Paz-Ares J, Castrillo G, Leyva A. Arsenite provides a selective signal that coordinates arsenate uptake and detoxification through the regulation of PHR1 stability in Arabidopsis. Mol Plant 2022; 15:1826. [PMID: 36332621 DOI: 10.1016/j.molp.2022.10.012] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
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2
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Cardona-López X, Cuyas L, Marín E, Rajulu C, Irigoyen ML, Gil E, Puga MI, Bligny R, Nussaume L, Geldner N, Paz-Ares J, Rubio V. Correction to: ESCRT-III-Associated Protein ALIX Mediates High-Affinity Phosphate Transporter Trafficking to Maintain Phosphate Homeostasis in Arabidopsis. Plant Cell 2022; 34:2809. [PMID: 35348792 PMCID: PMC9252480 DOI: 10.1093/plcell/koac103] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
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3
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Irigoyen ML, Iniesto E, Rodriguez L, Puga MI, Yanagawa Y, Pick E, Strickland E, Paz-Ares J, Wei N, De Jaeger G, Rodriguez PL, Deng XW, Rubio V. Correction to: Targeted Degradation of Abscisic Acid Receptors Is Mediated by the Ubiquitin Ligase Substrate Adaptor DDA1 in Arabidopsis. Plant Cell 2022; 34:2807-2808. [PMID: 35348775 PMCID: PMC9252497 DOI: 10.1093/plcell/koac102] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/07/2022] [Accepted: 03/23/2022] [Indexed: 06/14/2023]
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4
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Paz-Ares J, Puga MI, Rojas-Triana M, Martinez-Hevia I, Diaz S, Poza-Carrión C, Miñambres M, Leyva A. Plant adaptation to low phosphorus availability: Core signaling, crosstalks, and applied implications. Mol Plant 2022; 15:104-124. [PMID: 34954444 DOI: 10.1016/j.molp.2021.12.005] [Citation(s) in RCA: 49] [Impact Index Per Article: 24.5] [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: 10/13/2021] [Revised: 12/11/2021] [Accepted: 12/20/2021] [Indexed: 05/25/2023]
Abstract
Phosphorus (P) is an essential nutrient for plant growth and reproduction. Plants preferentially absorb P as orthophosphate (Pi), an ion that displays low solubility and that is readily fixed in the soil, making P limitation a condition common to many soils and Pi fertilization an inefficient practice. To cope with Pi limitation, plants have evolved a series of developmental and physiological responses, collectively known as the Pi starvation rescue system (PSR), aimed to improve Pi acquisition and use efficiency (PUE) and protect from Pi-starvation-induced stress. Intensive research has been carried out during the last 20 years to unravel the mechanisms underlying the control of the PSR in plants. Here we review the results of this research effort that have led to the identification and characterization of several core Pi starvation signaling components, including sensors, transcription factors, microRNAs (miRNAs) and miRNA inhibitors, kinases, phosphatases, and components of the proteostasis machinery. We also refer to recent results revealing the existence of intricate signaling interplays between Pi and other nutrients and antagonists, N, Fe, Zn, and As, that have changed the initial single-nutrient-centric view to a more integrated view of nutrient homeostasis. Finally, we discuss advances toward improving PUE and future research priorities.
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Affiliation(s)
- Javier Paz-Ares
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología (CNB-CSIC), Darwin 3, Campus Universidad Autónoma, 28049 Madrid, Spain.
| | - Maria Isabel Puga
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología (CNB-CSIC), Darwin 3, Campus Universidad Autónoma, 28049 Madrid, Spain
| | - Monica Rojas-Triana
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología (CNB-CSIC), Darwin 3, Campus Universidad Autónoma, 28049 Madrid, Spain
| | - Iris Martinez-Hevia
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología (CNB-CSIC), Darwin 3, Campus Universidad Autónoma, 28049 Madrid, Spain
| | - Sergio Diaz
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología (CNB-CSIC), Darwin 3, Campus Universidad Autónoma, 28049 Madrid, Spain
| | - Cesar Poza-Carrión
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología (CNB-CSIC), Darwin 3, Campus Universidad Autónoma, 28049 Madrid, Spain
| | - Miguel Miñambres
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología (CNB-CSIC), Darwin 3, Campus Universidad Autónoma, 28049 Madrid, Spain
| | - Antonio Leyva
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología (CNB-CSIC), Darwin 3, Campus Universidad Autónoma, 28049 Madrid, Spain
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5
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Guo M, Ruan W, Zhang Y, Zhang Y, Wang X, Guo Z, Wang L, Zhou T, Paz-Ares J, Yi K. A reciprocal inhibitory module for Pi and iron signaling. Mol Plant 2022; 15:138-150. [PMID: 34562666 DOI: 10.1016/j.molp.2021.09.011] [Citation(s) in RCA: 28] [Impact Index Per Article: 14.0] [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: 05/13/2021] [Revised: 08/15/2021] [Accepted: 09/19/2021] [Indexed: 05/16/2023]
Abstract
Phosphorous (P) and iron (Fe), two essential nutrients for plant growth and development, are highly abundant elements in the earth's crust but often display low availability to plants. Due to the ability to form insoluble complexes, the antagonistic interaction between P and Fe nutrition in plants has been noticed for decades. However, the underlying molecular mechanism modulating the signaling and homeostasis between them remains obscure. Here, we show that the possible iron sensors HRZs, the iron deficiency-induced E3 ligases, could interact with the central regulator of phosphate (Pi) signaling, PHR2, and prompt its ubiquitination at lysine residues K319 and K328, leading to its degradation in rice. Consistent with this, the hrzs mutants displayed a high Pi accumulation phenotype. Furthermore, we found that iron deficiency could attenuate Pi starvation signaling by inducing the expression of HRZs, which in turn trigger PHR2 protein degradation. Interestingly, on the other hand, rice PHRs could negatively regulate the expression of HRZs to modulate iron deficiency responses. Therefore, PHR2 and HRZs form a reciprocal inhibitory module to coordinate Pi and iron signaling and homeostasis in rice. Taken together, our results uncover a molecular link between Pi and iron master regulators, which fine-tunes plant adaptation to Pi and iron availability in rice.
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Affiliation(s)
- Meina Guo
- Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Wenyuan Ruan
- Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China.
| | - Yibo Zhang
- Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Yuxin Zhang
- Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Xueqing Wang
- Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Zhenhui Guo
- Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Long Wang
- Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Tian Zhou
- Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Javier Paz-Ares
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-Consejo Superior de Investigaciones Científicas, 28049 Madrid, Spain
| | - Keke Yi
- Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China.
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6
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Navarro C, Mateo-Elizalde C, Mohan TC, Sánchez-Bermejo E, Urrutia O, Fernández-Muñiz MN, García-Mina JM, Muñoz R, Paz-Ares J, Castrillo G, Leyva A. Arsenite provides a selective signal that coordinates arsenate uptake and detoxification through the regulation of PHR1 stability in Arabidopsis. Mol Plant 2021; 14:1489-1507. [PMID: 34048950 DOI: 10.1016/j.molp.2021.05.020] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [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: 09/25/2020] [Revised: 04/30/2021] [Accepted: 05/24/2021] [Indexed: 06/12/2023]
Abstract
In nature, plants acquire nutrients from soils to sustain growth, and at the same time, they need to avoid the uptake of toxic compounds and/or possess tolerance systems to cope with them. This is particularly challenging when the toxic compound and the nutrient are chemically similar, as in the case of phosphate and arsenate. In this study, we demonstrated that regulatory elements of the phosphate starvation response (PSR) coordinate the arsenate detoxification machinery in the cell. We showed that arsenate repression of the phosphate transporter PHT1;1 is associated with the degradation of the PSR master regulator PHR1. Once arsenic is sequestered into the vacuole, PHR1 stability is restored and PHT1;1 expression is recovered. Furthermore, we identified an arsenite responsive SKP1-like protein and a PHR1 interactor F-box (PHIF1) as constituents of the SCF complex responsible for PHR1 degradation.We found that arsenite, the form to which arsenate is reduced for compartmentalization in vacuoles, represses PHT1;1 expression, providing a highly selective signal versus phosphate to control PHT1;1 expression in response to arsenate. Collectively, our results provide molecular insights into a sensing mechanism that regulates arsenate/phosphate uptake depending on the plant's detoxification capacity.
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Affiliation(s)
- Cristina Navarro
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-Consejo Superior de Investigaciones Científicas, Madrid 28049, Spain
| | - Cristian Mateo-Elizalde
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-Consejo Superior de Investigaciones Científicas, Madrid 28049, Spain
| | - Thotegowdanapalya C Mohan
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-Consejo Superior de Investigaciones Científicas, Madrid 28049, Spain
| | - Eduardo Sánchez-Bermejo
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-Consejo Superior de Investigaciones Científicas, Madrid 28049, Spain
| | - Oscar Urrutia
- Department of Environmental Biology, Sciences School, University of Navarra, Pamplona 31008, Spain
| | - María Nieves Fernández-Muñiz
- Department of Analytical Chemistry, School of Chemical Sciences, Universidad Complutense de Madrid, Madrid 28040, Spain
| | - José M García-Mina
- Department of Environmental Biology, Sciences School, University of Navarra, Pamplona 31008, Spain
| | - Riansares Muñoz
- Department of Analytical Chemistry, School of Chemical Sciences, Universidad Complutense de Madrid, Madrid 28040, Spain
| | - Javier Paz-Ares
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-Consejo Superior de Investigaciones Científicas, Madrid 28049, Spain
| | - Gabriel Castrillo
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-Consejo Superior de Investigaciones Científicas, Madrid 28049, Spain.
| | - Antonio Leyva
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-Consejo Superior de Investigaciones Científicas, Madrid 28049, Spain.
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7
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Steiner E, Triana MR, Kubasi S, Blum S, Paz-Ares J, Rubio V, Weiss D. KISS ME DEADLY F-box proteins modulate cytokinin responses by targeting the transcription factor TCP14 for degradation. Plant Physiol 2021; 185:1495-1499. [PMID: 33580703 PMCID: PMC8133550 DOI: 10.1093/plphys/kiab033] [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: 09/23/2020] [Accepted: 01/09/2021] [Indexed: 06/01/2023]
Abstract
The F-box proteins KISS ME DEADLY interact with the transcription factor TCP14 and target it for degradation to fine-tune cytokinin responses in leaves and flowers.
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Affiliation(s)
- Evyatar Steiner
- Institute of Plant Sciences and Genetics in Agriculture, The Hebrew University of Jerusalem, Rehovot 76100, Israel
| | | | - Sivan Kubasi
- Institute of Plant Sciences and Genetics in Agriculture, The Hebrew University of Jerusalem, Rehovot 76100, Israel
| | - Shula Blum
- Institute of Plant Sciences and Genetics in Agriculture, The Hebrew University of Jerusalem, Rehovot 76100, Israel
| | - Javier Paz-Ares
- Centro Nacional de Biotecnología, CNB-CSIC, Darwin, 28049 Madrid, Spain
| | - Vicente Rubio
- Centro Nacional de Biotecnología, CNB-CSIC, Darwin, 28049 Madrid, Spain
| | - David Weiss
- Institute of Plant Sciences and Genetics in Agriculture, The Hebrew University of Jerusalem, Rehovot 76100, Israel
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8
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García-León M, Cuyas L, El-Moneim DA, Rodriguez L, Belda-Palazón B, Sanchez-Quant E, Fernández Y, Roux B, Zamarreño ÁM, García-Mina JM, Nussaume L, Rodriguez PL, Paz-Ares J, Leonhardt N, Rubio V. Arabidopsis ALIX Regulates Stomatal Aperture and Turnover of Abscisic Acid Receptors. Plant Cell 2019; 31:2411-2429. [PMID: 31363038 PMCID: PMC6790096 DOI: 10.1105/tpc.19.00399] [Citation(s) in RCA: 8] [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] [Received: 05/22/2019] [Revised: 07/03/2019] [Accepted: 07/26/2019] [Indexed: 05/03/2023]
Abstract
The plant endosomal trafficking pathway controls the abundance of membrane-associated soluble proteins, as shown for abscisic acid (ABA) receptors of the PYRABACTIN RESISTANCE1/PYR1-LIKE/REGULATORY COMPONENTS OF ABA RECEPTORS (PYR/PYL/RCAR) family. ABA receptor targeting for vacuolar degradation occurs through the late endosome route and depends on FYVE DOMAIN PROTEIN REQUIRED FOR ENDOSOMAL SORTING1 (FYVE1) and VACUOLAR PROTEIN SORTING23A (VPS23A), components of the ENDOSOMAL SORTING COMPLEX REQUIRED FOR TRANSPORT-I (ESCRT-I) complexes. FYVE1 and VPS23A interact with ALG-2 INTERACTING PROTEIN-X (ALIX), an ESCRT-III-associated protein, although the functional relevance of such interactions and their consequences in cargo sorting are unknown. In this study we show that Arabidopsis (Arabidopsis thaliana) ALIX directly binds to ABA receptors in late endosomes, promoting their degradation. Impaired ALIX function leads to altered endosomal localization and increased accumulation of ABA receptors. In line with this activity, partial loss-of-function alix-1 mutants display ABA hypersensitivity during growth and stomatal closure, unveiling a role for the ESCRT machinery in the control of water loss through stomata. ABA-hypersensitive responses are suppressed in alix-1 plants impaired in PYR/PYL/RCAR activity, in accordance with ALIX affecting ABA responses primarily by controlling ABA receptor stability. ALIX-1 mutant protein displays reduced interaction with VPS23A and ABA receptors, providing a molecular basis for ABA hypersensitivity in alix-1 mutants. Our findings unveil a negative feedback mechanism triggered by ABA that acts via ALIX to control the accumulation of specific PYR/PYL/RCAR receptors.
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Affiliation(s)
| | - Laura Cuyas
- Centro Nacional de Biotecnología, 28049 Madrid, Spain
- Aix Marseille Université, Commissariat à l'Energie Atomique, Centre National de la Recherche Scientifique, BIAM, UMR7265, SAVE, Saint Paul-Lez-Durance, France
- Centre Mondial de l'Innovation, Groupe Roullier, Saint-Malo, France
| | - Diaa Abd El-Moneim
- Centro Nacional de Biotecnología, 28049 Madrid, Spain
- Department of Plant Production, Genetic Branch, Faculty of Environmental and Agricultural Sciences, Arish University, North Sinai, Egypt
| | - Lesia Rodriguez
- Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas-Universidad Politécnica de Valencia, ES-46022 Valencia, Spain
| | - Borja Belda-Palazón
- Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas-Universidad Politécnica de Valencia, ES-46022 Valencia, Spain
| | | | | | - Brice Roux
- Aix Marseille Université, Commissariat à l'Energie Atomique, Centre National de la Recherche Scientifique, BIAM, UMR7265, SAVE, Saint Paul-Lez-Durance, France
| | - Ángel María Zamarreño
- Department of Environmental Biology, Agricultural Chemistry and Biology Group-CMI Roullier, Faculty of Sciences, University of Navarra, 31008 Pamplona, Spain
| | - José María García-Mina
- Department of Environmental Biology, Agricultural Chemistry and Biology Group-CMI Roullier, Faculty of Sciences, University of Navarra, 31008 Pamplona, Spain
| | - Laurent Nussaume
- Aix Marseille Université, Commissariat à l'Energie Atomique, Centre National de la Recherche Scientifique, BIAM, UMR7265, SAVE, Saint Paul-Lez-Durance, France
| | - Pedro L Rodriguez
- Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas-Universidad Politécnica de Valencia, ES-46022 Valencia, Spain
| | | | - Nathalie Leonhardt
- Aix Marseille Université, Commissariat à l'Energie Atomique, Centre National de la Recherche Scientifique, BIAM, UMR7265, SAVE, Saint Paul-Lez-Durance, France
| | - Vicente Rubio
- Centro Nacional de Biotecnología, 28049 Madrid, Spain
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9
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Affiliation(s)
- César Poza-Carrión
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, Madrid, Spain
| | - Javier Paz-Ares
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, Madrid, Spain.
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10
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Puga MI, Rojas-Triana M, de Lorenzo L, Leyva A, Rubio V, Paz-Ares J. Novel signals in the regulation of Pi starvation responses in plants: facts and promises. Curr Opin Plant Biol 2017; 39:40-49. [PMID: 28587933 DOI: 10.1016/j.pbi.2017.05.007] [Citation(s) in RCA: 101] [Impact Index Per Article: 14.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/13/2017] [Revised: 05/09/2017] [Accepted: 05/19/2017] [Indexed: 05/10/2023]
Abstract
Plants have evolved numerous adaptive developmental and metabolic responses to cope with growth in conditions of limited phosphate (Pi). Regulation of these Pi starvation responses (PSR) at the organism level involves not only cellular Pi perception in different organs, but also inter-organ communication of Pi levels via systemic signaling. Here we summarize recent discoveries on Pi starvation sensing and signaling, with special emphasis on structure-function studies that showed a role for inositol polyphosphates (InsP) as intracellular Pi signals, and on genomic studies that identified a large number of mRNAs with inter-organ mobility, which provide an immense source of potential systemic signals in the control of PSR and other responses.
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Affiliation(s)
- María Isabel Puga
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-Consejo Superior de Investigaciones Científicas, 28049 Madrid, Spain
| | - Mónica Rojas-Triana
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-Consejo Superior de Investigaciones Científicas, 28049 Madrid, Spain
| | - Laura de Lorenzo
- Department of Plant and Soil Sciences, University of Kentucky, Lexington, KY 40546, USA
| | - Antonio Leyva
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-Consejo Superior de Investigaciones Científicas, 28049 Madrid, Spain
| | - Vicente Rubio
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-Consejo Superior de Investigaciones Científicas, 28049 Madrid, Spain
| | - Javier Paz-Ares
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-Consejo Superior de Investigaciones Científicas, 28049 Madrid, Spain.
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11
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Castrillo G, Teixeira PJPL, Paredes SH, Law TF, de Lorenzo L, Feltcher ME, Finkel OM, Breakfield NW, Mieczkowski P, Jones CD, Paz-Ares J, Dangl JL. Root microbiota drive direct integration of phosphate stress and immunity. Nature 2017; 543:513-518. [PMID: 28297714 PMCID: PMC5364063 DOI: 10.1038/nature21417] [Citation(s) in RCA: 434] [Impact Index Per Article: 62.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2016] [Accepted: 01/25/2017] [Indexed: 12/24/2022]
Abstract
Plants live in biogeochemically diverse soils with diverse microbiota. Plant organs associate intimately with a subset of these microbes, and the structure of the microbial community can be altered by soil nutrient content. Plant-associated microbes can compete with the plant and with each other for nutrients, but may also carry traits that increase the productivity of the plant. It is unknown how the plant immune system coordinates microbial recognition with nutritional cues during microbiome assembly. Here we establish that a genetic network controlling the phosphate stress response influences the structure of the root microbiome community, even under non-stress phosphate conditions. We define a molecular mechanism regulating coordination between nutrition and defence in the presence of a synthetic bacterial community. We further demonstrate that the master transcriptional regulators of phosphate stress response in Arabidopsis thaliana also directly repress defence, consistent with plant prioritization of nutritional stress over defence. Our work will further efforts to define and deploy useful microbes to enhance plant performance.
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Affiliation(s)
- Gabriel Castrillo
- Department of Biology, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
- Howard Hughes Medical Institute, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
| | - Paulo José Pereira Lima Teixeira
- Department of Biology, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
- Howard Hughes Medical Institute, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
| | - Sur Herrera Paredes
- Department of Biology, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
- Howard Hughes Medical Institute, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
- Curriculum in Bioinformatics and Computational Biology, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
| | - Theresa F Law
- Department of Biology, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
- Howard Hughes Medical Institute, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
| | - Laura de Lorenzo
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, CNB-CSIC, Darwin 3, 28049 Madrid, Spain
| | - Meghan E Feltcher
- Department of Biology, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
- Howard Hughes Medical Institute, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
| | - Omri M Finkel
- Department of Biology, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
- Howard Hughes Medical Institute, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
| | - Natalie W Breakfield
- Department of Biology, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
- Howard Hughes Medical Institute, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
| | - Piotr Mieczkowski
- Department of Genetics, University of North Carolina, Chapel Hill, North Carolina, USA
- Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
- Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
| | - Corbin D Jones
- Department of Biology, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
- Curriculum in Bioinformatics and Computational Biology, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
- Department of Genetics, University of North Carolina, Chapel Hill, North Carolina, USA
- Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
- Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
- Curriculum in Genetics and Molecular Biology, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
| | - Javier Paz-Ares
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, CNB-CSIC, Darwin 3, 28049 Madrid, Spain
| | - Jeffery L Dangl
- Department of Biology, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
- Howard Hughes Medical Institute, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
- Curriculum in Bioinformatics and Computational Biology, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
- Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
- Curriculum in Genetics and Molecular Biology, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
- Department of Microbiology and Immunology, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA
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12
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Thieme CJ, Rojas-Triana M, Stecyk E, Schudoma C, Zhang W, Yang L, Miñambres M, Walther D, Schulze WX, Paz-Ares J, Scheible WR, Kragler F. Corrigendum: Endogenous Arabidopsis messenger RNAs transported to distant tissues. Nat Plants 2016; 2:16195. [PMID: 27869791 DOI: 10.1038/nplants.2016.195] [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] [Subscribe] [Scholar Register] [Indexed: 05/12/2023]
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13
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Mohan TC, Castrillo G, Navarro C, Zarco-Fernández S, Ramireddy E, Mateo C, Zamarreño AM, Paz-Ares J, Muñoz R, García-Mina JM, Hernández LE, Schmülling T, Leyva A. Cytokinin Determines Thiol-Mediated Arsenic Tolerance and Accumulation. Plant Physiol 2016; 171:1418-26. [PMID: 27208271 PMCID: PMC4902620 DOI: 10.1104/pp.16.00372] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/10/2016] [Accepted: 04/12/2016] [Indexed: 05/09/2023]
Abstract
The presence of arsenic in soil and water is a constant threat to plant growth in many regions of the world. Phytohormones act in the integration of growth control and stress response, but their role in plant responses to arsenic remains to be elucidated. Here, we show that arsenate [As(V)], the most prevalent arsenic chemical species in nature, causes severe depletion of endogenous cytokinins (CKs) in the model plant Arabidopsis (Arabidopsis thaliana). We found that CK signaling mutants and transgenic plants with reduced endogenous CK levels showed an As(V)-tolerant phenotype. Our data indicate that in CK-depleted plants exposed to As(V), transcript levels of As(V)/phosphate-transporters were similar or even higher than in wild-type plants. In contrast, CK depletion provoked the coordinated activation of As(V) tolerance mechanisms, leading to the accumulation of thiol compounds such as phytochelatins and glutathione, which are essential for arsenic sequestration. Transgenic CK-deficient Arabidopsis and tobacco lines show a marked increase in arsenic accumulation. Our findings indicate that CK is an important regulatory factor in plant adaptation to arsenic stress.
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Affiliation(s)
- Thotegowdanapalya C Mohan
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas (CSIC), Campus de Cantoblanco, 28049 Madrid, Spain (T.C.M., G.C., C.N., C.M., J.P.-A., A.L.); Department of Analytical Chemistry, School of Chemical Sciences, Universidad Complutense de Madrid, Madrid, Spain (S.Z.-F., R.M.); Institute of Biology/Applied Genetics, Dahlem Centre of Plant Sciences, Freie Universität Berlin, Albrecht-Thaer-Weg 6, D-14195 Berlin, Germany (E.R., T.S.); Department of Environmental Biology (Agricultural Chemistry and Biology Group), Faculty of Sciences, University of Navarra, Sciencies Building, 31008 Pamplona, Spain (A.M.Z., J.M.G.-M.); and Departamento de Biología, Universidad Autónoma de Madrid, Edif. de Biológicas BS13, Campus de Cantoblanco, 28049 Madrid, Spain (L.E.H.)
| | - Gabriel Castrillo
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas (CSIC), Campus de Cantoblanco, 28049 Madrid, Spain (T.C.M., G.C., C.N., C.M., J.P.-A., A.L.); Department of Analytical Chemistry, School of Chemical Sciences, Universidad Complutense de Madrid, Madrid, Spain (S.Z.-F., R.M.); Institute of Biology/Applied Genetics, Dahlem Centre of Plant Sciences, Freie Universität Berlin, Albrecht-Thaer-Weg 6, D-14195 Berlin, Germany (E.R., T.S.); Department of Environmental Biology (Agricultural Chemistry and Biology Group), Faculty of Sciences, University of Navarra, Sciencies Building, 31008 Pamplona, Spain (A.M.Z., J.M.G.-M.); and Departamento de Biología, Universidad Autónoma de Madrid, Edif. de Biológicas BS13, Campus de Cantoblanco, 28049 Madrid, Spain (L.E.H.)
| | - Cristina Navarro
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas (CSIC), Campus de Cantoblanco, 28049 Madrid, Spain (T.C.M., G.C., C.N., C.M., J.P.-A., A.L.); Department of Analytical Chemistry, School of Chemical Sciences, Universidad Complutense de Madrid, Madrid, Spain (S.Z.-F., R.M.); Institute of Biology/Applied Genetics, Dahlem Centre of Plant Sciences, Freie Universität Berlin, Albrecht-Thaer-Weg 6, D-14195 Berlin, Germany (E.R., T.S.); Department of Environmental Biology (Agricultural Chemistry and Biology Group), Faculty of Sciences, University of Navarra, Sciencies Building, 31008 Pamplona, Spain (A.M.Z., J.M.G.-M.); and Departamento de Biología, Universidad Autónoma de Madrid, Edif. de Biológicas BS13, Campus de Cantoblanco, 28049 Madrid, Spain (L.E.H.)
| | - Sonia Zarco-Fernández
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas (CSIC), Campus de Cantoblanco, 28049 Madrid, Spain (T.C.M., G.C., C.N., C.M., J.P.-A., A.L.); Department of Analytical Chemistry, School of Chemical Sciences, Universidad Complutense de Madrid, Madrid, Spain (S.Z.-F., R.M.); Institute of Biology/Applied Genetics, Dahlem Centre of Plant Sciences, Freie Universität Berlin, Albrecht-Thaer-Weg 6, D-14195 Berlin, Germany (E.R., T.S.); Department of Environmental Biology (Agricultural Chemistry and Biology Group), Faculty of Sciences, University of Navarra, Sciencies Building, 31008 Pamplona, Spain (A.M.Z., J.M.G.-M.); and Departamento de Biología, Universidad Autónoma de Madrid, Edif. de Biológicas BS13, Campus de Cantoblanco, 28049 Madrid, Spain (L.E.H.)
| | - Eswarayya Ramireddy
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas (CSIC), Campus de Cantoblanco, 28049 Madrid, Spain (T.C.M., G.C., C.N., C.M., J.P.-A., A.L.); Department of Analytical Chemistry, School of Chemical Sciences, Universidad Complutense de Madrid, Madrid, Spain (S.Z.-F., R.M.); Institute of Biology/Applied Genetics, Dahlem Centre of Plant Sciences, Freie Universität Berlin, Albrecht-Thaer-Weg 6, D-14195 Berlin, Germany (E.R., T.S.); Department of Environmental Biology (Agricultural Chemistry and Biology Group), Faculty of Sciences, University of Navarra, Sciencies Building, 31008 Pamplona, Spain (A.M.Z., J.M.G.-M.); and Departamento de Biología, Universidad Autónoma de Madrid, Edif. de Biológicas BS13, Campus de Cantoblanco, 28049 Madrid, Spain (L.E.H.)
| | - Cristian Mateo
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas (CSIC), Campus de Cantoblanco, 28049 Madrid, Spain (T.C.M., G.C., C.N., C.M., J.P.-A., A.L.); Department of Analytical Chemistry, School of Chemical Sciences, Universidad Complutense de Madrid, Madrid, Spain (S.Z.-F., R.M.); Institute of Biology/Applied Genetics, Dahlem Centre of Plant Sciences, Freie Universität Berlin, Albrecht-Thaer-Weg 6, D-14195 Berlin, Germany (E.R., T.S.); Department of Environmental Biology (Agricultural Chemistry and Biology Group), Faculty of Sciences, University of Navarra, Sciencies Building, 31008 Pamplona, Spain (A.M.Z., J.M.G.-M.); and Departamento de Biología, Universidad Autónoma de Madrid, Edif. de Biológicas BS13, Campus de Cantoblanco, 28049 Madrid, Spain (L.E.H.)
| | - Angel M Zamarreño
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas (CSIC), Campus de Cantoblanco, 28049 Madrid, Spain (T.C.M., G.C., C.N., C.M., J.P.-A., A.L.); Department of Analytical Chemistry, School of Chemical Sciences, Universidad Complutense de Madrid, Madrid, Spain (S.Z.-F., R.M.); Institute of Biology/Applied Genetics, Dahlem Centre of Plant Sciences, Freie Universität Berlin, Albrecht-Thaer-Weg 6, D-14195 Berlin, Germany (E.R., T.S.); Department of Environmental Biology (Agricultural Chemistry and Biology Group), Faculty of Sciences, University of Navarra, Sciencies Building, 31008 Pamplona, Spain (A.M.Z., J.M.G.-M.); and Departamento de Biología, Universidad Autónoma de Madrid, Edif. de Biológicas BS13, Campus de Cantoblanco, 28049 Madrid, Spain (L.E.H.)
| | - Javier Paz-Ares
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas (CSIC), Campus de Cantoblanco, 28049 Madrid, Spain (T.C.M., G.C., C.N., C.M., J.P.-A., A.L.); Department of Analytical Chemistry, School of Chemical Sciences, Universidad Complutense de Madrid, Madrid, Spain (S.Z.-F., R.M.); Institute of Biology/Applied Genetics, Dahlem Centre of Plant Sciences, Freie Universität Berlin, Albrecht-Thaer-Weg 6, D-14195 Berlin, Germany (E.R., T.S.); Department of Environmental Biology (Agricultural Chemistry and Biology Group), Faculty of Sciences, University of Navarra, Sciencies Building, 31008 Pamplona, Spain (A.M.Z., J.M.G.-M.); and Departamento de Biología, Universidad Autónoma de Madrid, Edif. de Biológicas BS13, Campus de Cantoblanco, 28049 Madrid, Spain (L.E.H.)
| | - Riansares Muñoz
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas (CSIC), Campus de Cantoblanco, 28049 Madrid, Spain (T.C.M., G.C., C.N., C.M., J.P.-A., A.L.); Department of Analytical Chemistry, School of Chemical Sciences, Universidad Complutense de Madrid, Madrid, Spain (S.Z.-F., R.M.); Institute of Biology/Applied Genetics, Dahlem Centre of Plant Sciences, Freie Universität Berlin, Albrecht-Thaer-Weg 6, D-14195 Berlin, Germany (E.R., T.S.); Department of Environmental Biology (Agricultural Chemistry and Biology Group), Faculty of Sciences, University of Navarra, Sciencies Building, 31008 Pamplona, Spain (A.M.Z., J.M.G.-M.); and Departamento de Biología, Universidad Autónoma de Madrid, Edif. de Biológicas BS13, Campus de Cantoblanco, 28049 Madrid, Spain (L.E.H.)
| | - Jose M García-Mina
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas (CSIC), Campus de Cantoblanco, 28049 Madrid, Spain (T.C.M., G.C., C.N., C.M., J.P.-A., A.L.); Department of Analytical Chemistry, School of Chemical Sciences, Universidad Complutense de Madrid, Madrid, Spain (S.Z.-F., R.M.); Institute of Biology/Applied Genetics, Dahlem Centre of Plant Sciences, Freie Universität Berlin, Albrecht-Thaer-Weg 6, D-14195 Berlin, Germany (E.R., T.S.); Department of Environmental Biology (Agricultural Chemistry and Biology Group), Faculty of Sciences, University of Navarra, Sciencies Building, 31008 Pamplona, Spain (A.M.Z., J.M.G.-M.); and Departamento de Biología, Universidad Autónoma de Madrid, Edif. de Biológicas BS13, Campus de Cantoblanco, 28049 Madrid, Spain (L.E.H.)
| | - Luis E Hernández
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas (CSIC), Campus de Cantoblanco, 28049 Madrid, Spain (T.C.M., G.C., C.N., C.M., J.P.-A., A.L.); Department of Analytical Chemistry, School of Chemical Sciences, Universidad Complutense de Madrid, Madrid, Spain (S.Z.-F., R.M.); Institute of Biology/Applied Genetics, Dahlem Centre of Plant Sciences, Freie Universität Berlin, Albrecht-Thaer-Weg 6, D-14195 Berlin, Germany (E.R., T.S.); Department of Environmental Biology (Agricultural Chemistry and Biology Group), Faculty of Sciences, University of Navarra, Sciencies Building, 31008 Pamplona, Spain (A.M.Z., J.M.G.-M.); and Departamento de Biología, Universidad Autónoma de Madrid, Edif. de Biológicas BS13, Campus de Cantoblanco, 28049 Madrid, Spain (L.E.H.)
| | - Thomas Schmülling
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas (CSIC), Campus de Cantoblanco, 28049 Madrid, Spain (T.C.M., G.C., C.N., C.M., J.P.-A., A.L.); Department of Analytical Chemistry, School of Chemical Sciences, Universidad Complutense de Madrid, Madrid, Spain (S.Z.-F., R.M.); Institute of Biology/Applied Genetics, Dahlem Centre of Plant Sciences, Freie Universität Berlin, Albrecht-Thaer-Weg 6, D-14195 Berlin, Germany (E.R., T.S.); Department of Environmental Biology (Agricultural Chemistry and Biology Group), Faculty of Sciences, University of Navarra, Sciencies Building, 31008 Pamplona, Spain (A.M.Z., J.M.G.-M.); and Departamento de Biología, Universidad Autónoma de Madrid, Edif. de Biológicas BS13, Campus de Cantoblanco, 28049 Madrid, Spain (L.E.H.)
| | - Antonio Leyva
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas (CSIC), Campus de Cantoblanco, 28049 Madrid, Spain (T.C.M., G.C., C.N., C.M., J.P.-A., A.L.); Department of Analytical Chemistry, School of Chemical Sciences, Universidad Complutense de Madrid, Madrid, Spain (S.Z.-F., R.M.); Institute of Biology/Applied Genetics, Dahlem Centre of Plant Sciences, Freie Universität Berlin, Albrecht-Thaer-Weg 6, D-14195 Berlin, Germany (E.R., T.S.); Department of Environmental Biology (Agricultural Chemistry and Biology Group), Faculty of Sciences, University of Navarra, Sciencies Building, 31008 Pamplona, Spain (A.M.Z., J.M.G.-M.); and Departamento de Biología, Universidad Autónoma de Madrid, Edif. de Biológicas BS13, Campus de Cantoblanco, 28049 Madrid, Spain (L.E.H.)
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14
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Cardona-López X, Cuyas L, Marín E, Rajulu C, Irigoyen ML, Gil E, Puga MI, Bligny R, Nussaume L, Geldner N, Paz-Ares J, Rubio V. ESCRT-III-Associated Protein ALIX Mediates High-Affinity Phosphate Transporter Trafficking to Maintain Phosphate Homeostasis in Arabidopsis. Plant Cell 2015; 27:2560-81. [PMID: 26342016 PMCID: PMC4815105 DOI: 10.1105/tpc.15.00393] [Citation(s) in RCA: 72] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/04/2015] [Revised: 08/03/2015] [Accepted: 08/14/2015] [Indexed: 05/18/2023]
Abstract
Prior to the release of their cargoes into the vacuolar lumen, sorting endosomes mature into multivesicular bodies (MVBs) through the action of ENDOSOMAL COMPLEX REQUIRED FOR TRANSPORT (ESCRT) protein complexes. MVB-mediated sorting of high-affinity phosphate transporters (PHT1) to the vacuole limits their plasma membrane levels under phosphate-sufficient conditions, a process that allows plants to maintain phosphate homeostasis. Here, we describe ALIX, a cytosolic protein that associates with MVB by interacting with ESCRT-III subunit SNF7 and mediates PHT1;1 trafficking to the vacuole in Arabidopsis thaliana. We show that the partial loss-of-function mutant alix-1 displays reduced vacuolar degradation of PHT1;1. ALIX derivatives containing the alix-1 mutation showed reduced interaction with SNF7, providing a simple molecular explanation for impaired cargo trafficking in alix-1 mutants. In fact, the alix-1 mutation also hampered vacuolar sorting of the brassinosteroid receptor BRI1. We also show that alix-1 displays altered vacuole morphogenesis, implying a new role for ALIX proteins in vacuolar biogenesis, likely acting as part of ESCRT-III complexes. In line with a presumed broad target spectrum, the alix-1 mutation is pleiotropic, leading to reduced plant growth and late flowering, with stronger alix mutations being lethal, indicating that ALIX participates in diverse processes in plants essential for their life.
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Affiliation(s)
| | - Laura Cuyas
- Centro Nacional de Biotecnología (CNB-CSIC) Darwin, 28049 Madrid, Spain Unité Mixte de Recherche 6191, Centre National de la Recherche Scientifique-Commissariat à l'Energie Atomique, Aix-Marseille II, F-13108 Saint-Paul-lès-Durance Cedex, France
| | - Elena Marín
- Unité Mixte de Recherche 6191, Centre National de la Recherche Scientifique-Commissariat à l'Energie Atomique, Aix-Marseille II, F-13108 Saint-Paul-lès-Durance Cedex, France
| | - Charukesi Rajulu
- Centro Nacional de Biotecnología (CNB-CSIC) Darwin, 28049 Madrid, Spain
| | | | - Erica Gil
- Centro Nacional de Biotecnología (CNB-CSIC) Darwin, 28049 Madrid, Spain
| | - María Isabel Puga
- Centro Nacional de Biotecnología (CNB-CSIC) Darwin, 28049 Madrid, Spain
| | - Richard Bligny
- Laboratoire de Physiologie Cellulaire Vegetale, Unité Mixte de Recherche 5168, Institut de Recherche en Technologie et Sciences pour le Vivant, CEA, Grenoble Cedex 9, France
| | - Laurent Nussaume
- Unité Mixte de Recherche 6191, Centre National de la Recherche Scientifique-Commissariat à l'Energie Atomique, Aix-Marseille II, F-13108 Saint-Paul-lès-Durance Cedex, France
| | - Niko Geldner
- Department of Plant Molecular Biology, University of Lausanne, UNIL-Sorge, 1015 Lausanne, Switzerland
| | - Javier Paz-Ares
- Centro Nacional de Biotecnología (CNB-CSIC) Darwin, 28049 Madrid, Spain
| | - Vicente Rubio
- Centro Nacional de Biotecnología (CNB-CSIC) Darwin, 28049 Madrid, Spain
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15
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Thieme CJ, Rojas-Triana M, Stecyk E, Schudoma C, Zhang W, Yang L, Miñambres M, Walther D, Schulze WX, Paz-Ares J, Scheible WR, Kragler F. Endogenous Arabidopsis messenger RNAs transported to distant tissues. Nat Plants 2015; 1:15025. [PMID: 27247031 DOI: 10.1038/nplants.2015.25] [Citation(s) in RCA: 238] [Impact Index Per Article: 26.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/16/2014] [Accepted: 02/10/2015] [Indexed: 05/06/2023]
Abstract
The concept that proteins and small RNAs can move to and function in distant body parts is well established. However, non-cell-autonomy of small RNA molecules raises the question: To what extent are protein-coding messenger RNAs (mRNAs) exchanged between tissues in plants? Here we report the comprehensive identification of 2,006 genes producing mobile RNAs in Arabidopsis thaliana. The analysis of variant ecotype transcripts that were present in heterografted plants allowed the identification of mRNAs moving between various organs under normal or nutrient-limiting conditions. Most of these mobile transcripts seem to follow the phloem-dependent allocation pathway transporting sugars from photosynthetic tissues to roots via the vasculature. Notably, a high number of transcripts also move in the opposite, root-to-shoot direction and are transported to specific tissues including flowers. Proteomic data on grafted plants indicate the presence of proteins from mobile RNAs, allowing the possibility that they may be translated at their destination site. The mobility of a high number of mRNAs suggests that a postulated tissue-specific gene expression profile might not be predictive for the actual plant body part in which a transcript exerts its function.
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Affiliation(s)
- Christoph J Thieme
- Max Planck Institute of Molecular Plant Physiology, Wissenschaftspark Golm, Am Mühlenberg 1, Potsdam 14476, Germany
| | - Monica Rojas-Triana
- Plant Biology Division, The Samuel Roberts Noble Foundation, Ardmore, Oklahoma 73401, USA
| | - Ewelina Stecyk
- Max Planck Institute of Molecular Plant Physiology, Wissenschaftspark Golm, Am Mühlenberg 1, Potsdam 14476, Germany
| | - Christian Schudoma
- Max Planck Institute of Molecular Plant Physiology, Wissenschaftspark Golm, Am Mühlenberg 1, Potsdam 14476, Germany
| | - Wenna Zhang
- Max Planck Institute of Molecular Plant Physiology, Wissenschaftspark Golm, Am Mühlenberg 1, Potsdam 14476, Germany
| | - Lei Yang
- Max Planck Institute of Molecular Plant Physiology, Wissenschaftspark Golm, Am Mühlenberg 1, Potsdam 14476, Germany
| | - Miguel Miñambres
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología-Consejo Superior de Investigaciones Cientificas, Campus de Cantoblanco, Madrid 28049, Spain
| | - Dirk Walther
- Max Planck Institute of Molecular Plant Physiology, Wissenschaftspark Golm, Am Mühlenberg 1, Potsdam 14476, Germany
| | - Waltraud X Schulze
- Department of Plant Systems Biology, University of Hohenheim, Stuttgart 70593, Germany
| | - Javier Paz-Ares
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología-Consejo Superior de Investigaciones Cientificas, Campus de Cantoblanco, Madrid 28049, Spain
| | - Wolf-Rüdiger Scheible
- Max Planck Institute of Molecular Plant Physiology, Wissenschaftspark Golm, Am Mühlenberg 1, Potsdam 14476, Germany
- Plant Biology Division, The Samuel Roberts Noble Foundation, Ardmore, Oklahoma 73401, USA
| | - Friedrich Kragler
- Max Planck Institute of Molecular Plant Physiology, Wissenschaftspark Golm, Am Mühlenberg 1, Potsdam 14476, Germany
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16
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Chen J, Wang Y, Wang F, Yang J, Gao M, Li C, Liu Y, Liu Y, Yamaji N, Ma JF, Paz-Ares J, Nussaume L, Zhang S, Yi K, Wu Z, Wu P. The rice CK2 kinase regulates trafficking of phosphate transporters in response to phosphate levels. Plant Cell 2015; 27:711-23. [PMID: 25724641 PMCID: PMC4558666 DOI: 10.1105/tpc.114.135335] [Citation(s) in RCA: 97] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/11/2014] [Accepted: 02/07/2015] [Indexed: 05/03/2023]
Abstract
Phosphate transporters (PTs) mediate phosphorus uptake and are regulated at the transcriptional and posttranslational levels. In one key mechanism of posttranslational regulation, phosphorylation of PTs affects their trafficking from the endoplasmic reticulum (ER) to the plasma membrane. However, the kinase(s) mediating PT phosphorylation and the mechanism leading to ER retention of phosphorylated PTs remain unclear. In this study, we identified a rice (Oryza sativa) kinase subunit, CK2β3, which interacts with PT2 and PT8 in a yeast two-hybrid screen. Also, the CK2α3/β3 holoenzyme phosphorylates PT8 under phosphate-sufficient conditions. This phosphorylation inhibited the interaction of PT8 with PHOSPHATE TRANSPORTER TRAFFIC FACILITATOR1, a key cofactor regulating the exit of PTs from the ER to the plasma membrane. Additionally, phosphorus starvation promoted CK2β3 degradation, relieving the negative regulation of PT phosphorus-insufficient conditions. In accordance, transgenic expression of a nonphosphorylatable version of OsPT8 resulted in elevated levels of that protein at the plasma membrane and enhanced phosphorus accumulation and plant growth under various phosphorus regimes. Taken together, these results indicate that CK2α3/β3 negatively regulates PTs and phosphorus status regulates CK2α3/β3.
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Affiliation(s)
- Jieyu Chen
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China
| | - Yifeng Wang
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China
| | - Fei Wang
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China
| | - Jian Yang
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China
| | - Mingxing Gao
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China
| | - Changying Li
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China
| | - Yingyao Liu
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China
| | - Yu Liu
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China
| | - Naoki Yamaji
- Institute of Plant Science and Resources, Okayama University, Kurashiki 710-0046, Japan
| | - Jian Feng Ma
- Institute of Plant Science and Resources, Okayama University, Kurashiki 710-0046, Japan
| | - Javier Paz-Ares
- Centro Nacional de Biotecnologia, Consejo Superior de Investigaciones Científicas, Campus de Cantoblanco, 28049 Madrid, Spain
| | - Laurent Nussaume
- Unité Mixte de Recherche 7265 Commissariat à l'Energie Atomique/CNRS/University of Aix-Marseille, Institute for Biotechnology and Environmental Biology/SBVME/Laboratory of Plant Development Biology, Commissariat à l'Energie Atomique, Cadarache, St. Paul lez Durance F-13108, France
| | - Shuqun Zhang
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China
| | - Keke Yi
- State Key Laboratory Breeding Base for Zhejiang Sustainable Pest and Disease Control, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Zhongchang Wu
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China
| | - Ping Wu
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China
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17
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Willing EM, Rawat V, Mandáková T, Maumus F, James GV, Nordström KJV, Becker C, Warthmann N, Chica C, Szarzynska B, Zytnicki M, Albani MC, Kiefer C, Bergonzi S, Castaings L, Mateos JL, Berns MC, Bujdoso N, Piofczyk T, de Lorenzo L, Barrero-Sicilia C, Mateos I, Piednoël M, Hagmann J, Chen-Min-Tao R, Iglesias-Fernández R, Schuster SC, Alonso-Blanco C, Roudier F, Carbonero P, Paz-Ares J, Davis SJ, Pecinka A, Quesneville H, Colot V, Lysak MA, Weigel D, Coupland G, Schneeberger K. Genome expansion of Arabis alpina linked with retrotransposition and reduced symmetric DNA methylation. Nat Plants 2015; 1:14023. [PMID: 27246759 DOI: 10.1038/nplants.2014.23] [Citation(s) in RCA: 114] [Impact Index Per Article: 12.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/16/2014] [Accepted: 12/10/2014] [Indexed: 05/10/2023]
Abstract
Despite evolutionary conserved mechanisms to silence transposable element activity, there are drastic differences in the abundance of transposable elements even among closely related plant species. We conducted a de novo assembly for the 375 Mb genome of the perennial model plant, Arabis alpina. Analysing this genome revealed long-lasting and recent transposable element activity predominately driven by Gypsy long terminal repeat retrotransposons, which extended the low-recombining pericentromeres and transformed large formerly euchromatic regions into repeat-rich pericentromeric regions. This reduced capacity for long terminal repeat retrotransposon silencing and removal in A. alpina co-occurs with unexpectedly low levels of DNA methylation. Most remarkably, the striking reduction of symmetrical CG and CHG methylation suggests weakened DNA methylation maintenance in A. alpina compared with Arabidopsis thaliana. Phylogenetic analyses indicate a highly dynamic evolution of some components of methylation maintenance machinery that might be related to the unique methylation in A. alpina.
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Affiliation(s)
- Eva-Maria Willing
- Department of Plant Developmental Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné Weg 10, D-50829 Cologne, Germany
| | - Vimal Rawat
- Department of Plant Developmental Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné Weg 10, D-50829 Cologne, Germany
| | - Terezie Mandáková
- Research group Plant Cytogenomics, CEITEC - Central European Institute of Technology, Masaryk University, Brno, Czech Republic
| | - Florian Maumus
- INRA, UR1164 URGI-Research Unit in Genomics-Info, INRA de Versailles-Grignon, Route de Saint-Cyr, Versailles 78026, France
| | - Geo Velikkakam James
- Department of Plant Developmental Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné Weg 10, D-50829 Cologne, Germany
| | - Karl J V Nordström
- Department of Plant Developmental Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné Weg 10, D-50829 Cologne, Germany
| | - Claude Becker
- Department of Molecular Biology, Max Planck Institute for Developmental Biology, 72076 Tübingen, Germany
| | - Norman Warthmann
- Department of Molecular Biology, Max Planck Institute for Developmental Biology, 72076 Tübingen, Germany
- Research School of Biology, The Australian National University, Canberra, ACT 0200, Australia
| | - Claudia Chica
- Institut de Biologie de l'Ecole Normale Supérieure (IBENS), Centre National de la Recherche Scientifique (CNRS) UMR 8197 and Institut National de la Santé et de la Recherche Médicale (INSERM) U 1024, Paris, France
| | - Bogna Szarzynska
- Institut de Biologie de l'Ecole Normale Supérieure (IBENS), Centre National de la Recherche Scientifique (CNRS) UMR 8197 and Institut National de la Santé et de la Recherche Médicale (INSERM) U 1024, Paris, France
| | - Matthias Zytnicki
- INRA, UR1164 URGI-Research Unit in Genomics-Info, INRA de Versailles-Grignon, Route de Saint-Cyr, Versailles 78026, France
| | - Maria C Albani
- Department of Plant Developmental Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné Weg 10, D-50829 Cologne, Germany
| | - Christiane Kiefer
- Department of Plant Developmental Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné Weg 10, D-50829 Cologne, Germany
| | - Sara Bergonzi
- Department of Plant Developmental Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné Weg 10, D-50829 Cologne, Germany
| | - Loren Castaings
- Department of Plant Developmental Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné Weg 10, D-50829 Cologne, Germany
| | - Julieta L Mateos
- Department of Plant Developmental Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné Weg 10, D-50829 Cologne, Germany
| | - Markus C Berns
- Department of Plant Developmental Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné Weg 10, D-50829 Cologne, Germany
| | - Nora Bujdoso
- Department of Plant Developmental Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné Weg 10, D-50829 Cologne, Germany
| | - Thomas Piofczyk
- Department of Plant Developmental Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné Weg 10, D-50829 Cologne, Germany
| | - Laura de Lorenzo
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas (CSIC), Campus de Cantoblanco, 28049 Madrid, Spain
| | - Cristina Barrero-Sicilia
- Centro de Biotecnología y Genómica de Plantas (UPM-INIA). ETSI agrónomos, Universidad Politécnica de Madrid, Campus de Montegancedo, Pozuelo de Alarcón, 28223 Madrid, Spain
| | - Isabel Mateos
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas (CSIC), Campus de Cantoblanco, 28049 Madrid, Spain
| | - Mathieu Piednoël
- Department of Plant Developmental Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné Weg 10, D-50829 Cologne, Germany
| | - Jörg Hagmann
- Department of Molecular Biology, Max Planck Institute for Developmental Biology, 72076 Tübingen, Germany
| | - Romy Chen-Min-Tao
- Institut de Biologie de l'Ecole Normale Supérieure (IBENS), Centre National de la Recherche Scientifique (CNRS) UMR 8197 and Institut National de la Santé et de la Recherche Médicale (INSERM) U 1024, Paris, France
| | - Raquel Iglesias-Fernández
- Centro de Biotecnología y Genómica de Plantas (UPM-INIA). ETSI agrónomos, Universidad Politécnica de Madrid, Campus de Montegancedo, Pozuelo de Alarcón, 28223 Madrid, Spain
| | - Stephan C Schuster
- Center for Comparative Genomics and Bioinformatics, Pennsylvania State University, University Park, Pennsylvania 16802, USA
| | - Carlos Alonso-Blanco
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas (CSIC), Campus de Cantoblanco, 28049 Madrid, Spain
| | - François Roudier
- Institut de Biologie de l'Ecole Normale Supérieure (IBENS), Centre National de la Recherche Scientifique (CNRS) UMR 8197 and Institut National de la Santé et de la Recherche Médicale (INSERM) U 1024, Paris, France
| | - Pilar Carbonero
- Centro de Biotecnología y Genómica de Plantas (UPM-INIA). ETSI agrónomos, Universidad Politécnica de Madrid, Campus de Montegancedo, Pozuelo de Alarcón, 28223 Madrid, Spain
| | - Javier Paz-Ares
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas (CSIC), Campus de Cantoblanco, 28049 Madrid, Spain
| | - Seth J Davis
- Department of Plant Developmental Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné Weg 10, D-50829 Cologne, Germany
| | - Ales Pecinka
- Department of Plant Developmental Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné Weg 10, D-50829 Cologne, Germany
| | - Hadi Quesneville
- INRA, UR1164 URGI-Research Unit in Genomics-Info, INRA de Versailles-Grignon, Route de Saint-Cyr, Versailles 78026, France
| | - Vincent Colot
- Institut de Biologie de l'Ecole Normale Supérieure (IBENS), Centre National de la Recherche Scientifique (CNRS) UMR 8197 and Institut National de la Santé et de la Recherche Médicale (INSERM) U 1024, Paris, France
| | - Martin A Lysak
- Research group Plant Cytogenomics, CEITEC - Central European Institute of Technology, Masaryk University, Brno, Czech Republic
| | - Detlef Weigel
- Department of Molecular Biology, Max Planck Institute for Developmental Biology, 72076 Tübingen, Germany
| | - George Coupland
- Department of Plant Developmental Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné Weg 10, D-50829 Cologne, Germany
| | - Korbinian Schneeberger
- Department of Plant Developmental Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné Weg 10, D-50829 Cologne, Germany
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18
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Jover-Gil S, Paz-Ares J, Micol JL, Ponce MR. Multi-gene silencing in Arabidopsis: a collection of artificial microRNAs targeting groups of paralogs encoding transcription factors. Plant J 2014; 80:149-160. [PMID: 25040904 DOI: 10.1111/tpj.12609] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [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: 06/15/2013] [Revised: 06/27/2014] [Accepted: 07/02/2014] [Indexed: 06/03/2023]
Abstract
Functional redundancy often hampers the analysis of gene families. To overcome this difficulty, we constructed Arabidopsis thaliana lines that expressed artificial microRNAs designed to simultaneously target two to six paralogous genes encoding members of transcription factor families. Of the 576 genes that we chose as targets, only 122 had already been functionally studied at some level. As a simple indicator of the inhibitory effects of our amiRNAs on their targets, we examined the amiRNA-expressing transgenic lines for morphological phenotypes at the rosette stage. Of 338 transgenes tested, 21 caused a visible morphological phenotype in leaves, a proportion that is much higher than that expected as a result of insertional mutagenesis. Also, our collection probably represents many other mutant phenotypes, not just those in leaves. This robust, versatile method enables functional examination of redundant transcription factor paralogs, and is particularly useful for genes that occur in tandem.
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Affiliation(s)
- Sara Jover-Gil
- Instituto de Bioingeniería, Universidad Miguel Hernández, Campus de Elche, 03202, Elche, Alicante, Spain
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19
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Coego A, Brizuela E, Castillejo P, Ruíz S, Koncz C, del Pozo JC, Piñeiro M, Jarillo JA, Paz-Ares J, León J. The TRANSPLANTA collection of Arabidopsis lines: a resource for functional analysis of transcription factors based on their conditional overexpression. Plant J 2014; 77:944-53. [PMID: 24456507 DOI: 10.1111/tpj.12443] [Citation(s) in RCA: 63] [Impact Index Per Article: 6.3] [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: 11/04/2013] [Revised: 01/08/2014] [Accepted: 01/13/2014] [Indexed: 05/07/2023]
Abstract
Transcription factors (TFs) are key regulators of gene expression in all organisms. In eukaryotes, TFs are often represented by functionally redundant members of large gene families. Overexpression might prove a means to unveil the biological functions of redundant TFs; however, constitutive overexpression of TFs frequently causes severe developmental defects, preventing their functional characterization. Conditional overexpression strategies help to overcome this problem. Here, we report on the TRANSPLANTA collection of Arabidopsis lines, each expressing one of 949 TFs under the control of a β-estradiol-inducible promoter. Thus far, 1636 independent homozygous lines, representing an average of 2.6 lines for every TF, have been produced for the inducible expression of 634 TFs. Along with a GUS-GFP reporter, randomly selected TRANSPLANTA lines were tested and confirmed for conditional transgene expression upon β-estradiol treatment. As a proof of concept for the exploitation of this resource, β-estradiol-induced proliferation of root hairs, dark-induced senescence, anthocyanin accumulation and dwarfism were observed in lines conditionally expressing full-length cDNAs encoding RHD6, WRKY22, MYB123/TT2 and MYB26, respectively, in agreement with previously reported phenotypes conferred by these TFs. Further screening performed with other TRANSPLANTA lines allowed the identification of TFs involved in different plant biological processes, illustrating that the collection is a powerful resource for the functional characterization of TFs. For instance, ANAC058 and a TINY/AP2 TF were identified as modulators of ABA-mediated germination potential, and RAP2.10/DEAR4 was identified as a regulator of cell death in the hypocotyl-root transition zone. Seeds of TRANSPLANTA lines have been deposited at the Nottingham Arabidopsis Stock Centre for further distribution.
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Affiliation(s)
- Alberto Coego
- Instituto de Biología Molecular y Celular de Plantas, Valencia (CSIC-UPV), CPI, Edificio 8E, Av. Fausto Elio s/n, 46022, Valencia, Spain
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20
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Irigoyen ML, Iniesto E, Rodriguez L, Puga MI, Yanagawa Y, Pick E, Strickland E, Paz-Ares J, Wei N, De Jaeger G, Rodriguez PL, Deng XW, Rubio V. Targeted degradation of abscisic acid receptors is mediated by the ubiquitin ligase substrate adaptor DDA1 in Arabidopsis. Plant Cell 2014; 26:712-28. [PMID: 24563205 PMCID: PMC3967035 DOI: 10.1105/tpc.113.122234] [Citation(s) in RCA: 143] [Impact Index Per Article: 14.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/14/2023]
Abstract
CULLIN4-RING E3 ubiquitin ligases (CRL4s) regulate key developmental and stress responses in eukaryotes. Studies in both animals and plants have led to the identification of many CRL4 targets as well as specific regulatory mechanisms that modulate their function. The latter involve COP10-DET1-DDB1 (CDD)-related complexes, which have been proposed to facilitate target recognition by CRL4, although the molecular basis for this activity remains largely unknown. Here, we provide evidence that Arabidopsis thaliana DET1-, DDB1-ASSOCIATED1 (DDA1), as part of the CDD complex, provides substrate specificity for CRL4 by interacting with ubiquitination targets. Thus, we show that DDA1 binds to the abscisic acid (ABA) receptor PYL8, as well as PYL4 and PYL9, in vivo and facilitates its proteasomal degradation. Accordingly, we found that DDA1 negatively regulates ABA-mediated developmental responses, including inhibition of seed germination, seedling establishment, and root growth. All other CDD components displayed a similar regulatory function, although they did not directly interact with PYL8. Interestingly, DDA1-mediated destabilization of PYL8 is counteracted by ABA, which protects PYL8 by limiting its polyubiquitination. Altogether, our data establish a function for DDA1 as a substrate receptor for CRL4-CDD complexes and uncover a mechanism for the desensitization of ABA signaling based on the regulation of ABA receptor stability.
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Affiliation(s)
- María Luisa Irigoyen
- Centro Nacional de Biotecnología–Consejo
Superior de Investigaciones Científicas, 28049 Madrid, Spain
| | - Elisa Iniesto
- Centro Nacional de Biotecnología–Consejo
Superior de Investigaciones Científicas, 28049 Madrid, Spain
| | - Lesia Rodriguez
- Instituto de Biología Molecular y Celular de
Plantas, Consejo Superior de Investigaciones Científicas–Universidad
Politécnica de Valencia, 46022 Valencia, Spain
| | - María Isabel Puga
- Centro Nacional de Biotecnología–Consejo
Superior de Investigaciones Científicas, 28049 Madrid, Spain
| | - Yuki Yanagawa
- Department of Molecular, Cellular, and Developmental
Biology, Yale University, New Haven, Connecticut 06520
| | - Elah Pick
- Department of Molecular, Cellular, and Developmental
Biology, Yale University, New Haven, Connecticut 06520
| | - Elizabeth Strickland
- Department of Molecular, Cellular, and Developmental
Biology, Yale University, New Haven, Connecticut 06520
| | - Javier Paz-Ares
- Centro Nacional de Biotecnología–Consejo
Superior de Investigaciones Científicas, 28049 Madrid, Spain
| | - Ning Wei
- Department of Molecular, Cellular, and Developmental
Biology, Yale University, New Haven, Connecticut 06520
| | - Geert De Jaeger
- Department of Plant Systems Biology, VIB, B-9052 Ghent,
Belgium
- Department of Plant Biotechnology and Bioinformatics,
Ghent University, B-9052 Ghent, Belgium
| | - Pedro L. Rodriguez
- Instituto de Biología Molecular y Celular de
Plantas, Consejo Superior de Investigaciones Científicas–Universidad
Politécnica de Valencia, 46022 Valencia, Spain
| | - Xing Wang Deng
- Department of Molecular, Cellular, and Developmental
Biology, Yale University, New Haven, Connecticut 06520
| | - Vicente Rubio
- Centro Nacional de Biotecnología–Consejo
Superior de Investigaciones Científicas, 28049 Madrid, Spain
- Address correspondence to
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Iglesias J, Trigueros M, Rojas-Triana M, Fernández M, Albar JP, Bustos R, Paz-Ares J, Rubio V. Proteomics identifies ubiquitin–proteasome targets and new roles for chromatin-remodeling in the Arabidopsis response to phosphate starvation. J Proteomics 2013; 94:1-22. [DOI: 10.1016/j.jprot.2013.08.015] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2013] [Revised: 07/30/2013] [Accepted: 08/14/2013] [Indexed: 11/29/2022]
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22
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Castrillo G, Sánchez-Bermejo E, de Lorenzo L, Crevillén P, Fraile-Escanciano A, TC M, Mouriz A, Catarecha P, Sobrino-Plata J, Olsson S, Leo del Puerto Y, Mateos I, Rojo E, Hernández LE, Jarillo JA, Piñeiro M, Paz-Ares J, Leyva A. WRKY6 transcription factor restricts arsenate uptake and transposon activation in Arabidopsis. Plant Cell 2013; 25:2944-57. [PMID: 23922208 PMCID: PMC3784590 DOI: 10.1105/tpc.113.114009] [Citation(s) in RCA: 110] [Impact Index Per Article: 10.0] [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
Stress constantly challenges plant adaptation to the environment. Of all stress types, arsenic was a major threat during the early evolution of plants. The most prevalent chemical form of arsenic is arsenate, whose similarity to phosphate renders it easily incorporated into cells via the phosphate transporters. Here, we found that arsenate stress provokes a notable transposon burst in plants, in coordination with arsenate/phosphate transporter repression, which immediately restricts arsenate uptake. This repression was accompanied by delocalization of the phosphate transporter from the plasma membrane. When arsenate was removed, the system rapidly restored transcriptional expression and membrane localization of the transporter. We identify WRKY6 as an arsenate-responsive transcription factor that mediates arsenate/phosphate transporter gene expression and restricts arsenate-induced transposon activation. Plants therefore have a dual WRKY-dependent signaling mechanism that modulates arsenate uptake and transposon expression, providing a coordinated strategy for arsenate tolerance and transposon gene silencing.
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Affiliation(s)
- Gabriel Castrillo
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Cientificas, Campus de Cantoblanco, 28049 Madrid, Spain
| | - Eduardo Sánchez-Bermejo
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Cientificas, Campus de Cantoblanco, 28049 Madrid, Spain
| | - Laura de Lorenzo
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Cientificas, Campus de Cantoblanco, 28049 Madrid, Spain
| | - Pedro Crevillén
- Centro de Biotecnología y Genómica de Plantas, Universidad Politécnica de Madrid-Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria, Parque Científico y Tecnológico de la Universidad Politécnica de Madrid, 28223 Pozuelo de Alarcón, Madrid, Spain
| | - Ana Fraile-Escanciano
- Centro de Biotecnología y Genómica de Plantas, Universidad Politécnica de Madrid-Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria, Parque Científico y Tecnológico de la Universidad Politécnica de Madrid, 28223 Pozuelo de Alarcón, Madrid, Spain
| | - Mohan TC
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Cientificas, Campus de Cantoblanco, 28049 Madrid, Spain
| | - Alfonso Mouriz
- Centro de Biotecnología y Genómica de Plantas, Universidad Politécnica de Madrid-Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria, Parque Científico y Tecnológico de la Universidad Politécnica de Madrid, 28223 Pozuelo de Alarcón, Madrid, Spain
| | - Pablo Catarecha
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Cientificas, Campus de Cantoblanco, 28049 Madrid, Spain
| | - Juan Sobrino-Plata
- Laboratorio de Fisiología Vegetal, Departamento de Biología, Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - Sanna Olsson
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Cientificas, Campus de Cantoblanco, 28049 Madrid, Spain
| | - Yolanda Leo del Puerto
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Cientificas, Campus de Cantoblanco, 28049 Madrid, Spain
| | - Isabel Mateos
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Cientificas, Campus de Cantoblanco, 28049 Madrid, Spain
| | - Enrique Rojo
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Cientificas, Campus de Cantoblanco, 28049 Madrid, Spain
| | - Luis E. Hernández
- Laboratorio de Fisiología Vegetal, Departamento de Biología, Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - Jose A. Jarillo
- Centro de Biotecnología y Genómica de Plantas, Universidad Politécnica de Madrid-Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria, Parque Científico y Tecnológico de la Universidad Politécnica de Madrid, 28223 Pozuelo de Alarcón, Madrid, Spain
| | - Manuel Piñeiro
- Centro de Biotecnología y Genómica de Plantas, Universidad Politécnica de Madrid-Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria, Parque Científico y Tecnológico de la Universidad Politécnica de Madrid, 28223 Pozuelo de Alarcón, Madrid, Spain
| | - Javier Paz-Ares
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Cientificas, Campus de Cantoblanco, 28049 Madrid, Spain
| | - Antonio Leyva
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Cientificas, Campus de Cantoblanco, 28049 Madrid, Spain
- Address correspondence to
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24
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Castrillo G, Turck F, Leveugle M, Lecharny A, Carbonero P, Coupland G, Paz-Ares J, Oñate-Sánchez L. Speeding cis-trans regulation discovery by phylogenomic analyses coupled with screenings of an arrayed library of Arabidopsis transcription factors. PLoS One 2011; 6:e21524. [PMID: 21738689 PMCID: PMC3124521 DOI: 10.1371/journal.pone.0021524] [Citation(s) in RCA: 62] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2011] [Accepted: 05/31/2011] [Indexed: 01/27/2023] Open
Abstract
Transcriptional regulation is an important mechanism underlying gene expression and has played a crucial role in evolution. The number, position and interactions between cis-elements and transcription factors (TFs) determine the expression pattern of a gene. To identify functionally relevant cis-elements in gene promoters, a phylogenetic shadowing approach with a lipase gene (LIP1) was used. As a proof of concept, in silico analyses of several Brassicaceae LIP1 promoters identified a highly conserved sequence (LIP1 element) that is sufficient to drive strong expression of a reporter gene in planta. A collection of ca. 1,200 Arabidopsis thaliana TF open reading frames (ORFs) was arrayed in a 96-well format (RR library) and a convenient mating based yeast one hybrid (Y1H) screening procedure was established. We constructed an episomal plasmid (pTUY1H) to clone the LIP1 element and used it as bait for Y1H screenings. A novel interaction with an HD-ZIP (AtML1) TF was identified and abolished by a 2 bp mutation in the LIP1 element. A role of this interaction in transcriptional regulation was confirmed in planta. In addition, we validated our strategy by reproducing the previously reported interaction between a MYB-CC (PHR1) TF, a central regulator of phosphate starvation responses, with a conserved promoter fragment (IPS1 element) containing its cognate binding sequence. Finally, we established that the LIP1 and IPS1 elements were differentially bound by HD-ZIP and MYB-CC family members in agreement with their genetic redundancy in planta. In conclusion, combining in silico analyses of orthologous gene promoters with Y1H screening of the RR library represents a powerful approach to decipher cis- and trans-regulatory codes.
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Affiliation(s)
- Gabriel Castrillo
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas, Cantoblanco, Madrid, Spain
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25
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Bayle V, Arrighi JF, Creff A, Nespoulous C, Vialaret J, Rossignol M, Gonzalez E, Paz-Ares J, Nussaume L. Arabidopsis thaliana high-affinity phosphate transporters exhibit multiple levels of posttranslational regulation. Plant Cell 2011; 23:1523-35. [PMID: 21521698 PMCID: PMC3101552 DOI: 10.1105/tpc.110.081067] [Citation(s) in RCA: 166] [Impact Index Per Article: 12.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/15/2010] [Revised: 02/15/2011] [Accepted: 04/06/2011] [Indexed: 05/18/2023]
Abstract
In Arabidopsis thaliana, the PHOSPHATE TRANSPORTER1 (PHT1) family encodes the high-affinity phosphate transporters. They are transcriptionally induced by phosphate starvation and require PHOSPHATE TRANSPORTER TRAFFIC FACILITATOR (PHF1) to exit the endoplasmic reticulum (ER), indicating intracellular traffic as an additional level of regulation of PHT1 activity. Our study revealed that PHF1 acts on PHT1, upstream of vesicle coat protein COPII formation, and that additional regulatory events occur during PHT1 trafficking and determine its ER exit and plasma membrane stability. Phosphoproteomic and mutagenesis analyses revealed modulation of PHT1;1 ER export by Ser-514 phosphorylation status. Confocal microscopy analysis of root tip cells showed that PHT1;1 is localized to the plasma membrane and is present in intracellular endocytic compartments. More precisely, PHT1;1 was localized to sorting endosomes associated with prevacuolar compartments. Kinetic analysis of PHT1;1 stability and targeting suggested a modulation of PHT1 internalization from the plasma membrane to the endosomes, followed by either subsequent recycling (in low Pi) or vacuolar degradation (in high Pi). For the latter condition, we identified a rapid mechanism that reduces the pool of PHT1 proteins present at the plasma membrane. This mechanism is regulated by the Pi concentration in the medium and appears to be independent of degradation mechanisms potentially regulated by the PHO2 ubiquitin conjugase. We propose a model for differential trafficking of PHT1 to the plasma membrane or vacuole as a function of phosphate concentration.
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Affiliation(s)
- Vincent Bayle
- Commissariat à l’Energie Atomique Cadarache, Institut de Biologie Environnementale et Biotechnologie-Service de Biologie Végétale et de Microbiologie Environnementales, Laboratoire de Biologie du Développement des Plantes, Unité Mixte de Recherche 6191 Centre National de la Recherche Scientifique–Commissariat à l’Energie Atomique, Aix-Marseille II, F-13108 Saint-Paul-lez-Durance Cedex, France
| | - Jean-François Arrighi
- Commissariat à l’Energie Atomique Cadarache, Institut de Biologie Environnementale et Biotechnologie-Service de Biologie Végétale et de Microbiologie Environnementales, Laboratoire de Biologie du Développement des Plantes, Unité Mixte de Recherche 6191 Centre National de la Recherche Scientifique–Commissariat à l’Energie Atomique, Aix-Marseille II, F-13108 Saint-Paul-lez-Durance Cedex, France
| | - Audrey Creff
- Commissariat à l’Energie Atomique Cadarache, Institut de Biologie Environnementale et Biotechnologie-Service de Biologie Végétale et de Microbiologie Environnementales, Laboratoire de Biologie du Développement des Plantes, Unité Mixte de Recherche 6191 Centre National de la Recherche Scientifique–Commissariat à l’Energie Atomique, Aix-Marseille II, F-13108 Saint-Paul-lez-Durance Cedex, France
| | - Claude Nespoulous
- Laboratoire de Protéomique Fonctionnelle, Institut National de la Recherche Agronomique UR1199, Place Viala, F-34060 Montpellier Cedex 1, France
| | - Jérôme Vialaret
- Laboratoire de Protéomique Fonctionnelle, Institut National de la Recherche Agronomique UR1199, Place Viala, F-34060 Montpellier Cedex 1, France
| | - Michel Rossignol
- Laboratoire de Protéomique Fonctionnelle, Institut National de la Recherche Agronomique UR1199, Place Viala, F-34060 Montpellier Cedex 1, France
| | - Esperanza Gonzalez
- Centro Nacional de Biotecnologia–Consejo Superior de Investigaciones Científicas, Campus de Cantoblanco, Madrid E-28049, Spain
| | - Javier Paz-Ares
- Centro Nacional de Biotecnologia–Consejo Superior de Investigaciones Científicas, Campus de Cantoblanco, Madrid E-28049, Spain
| | - Laurent Nussaume
- Commissariat à l’Energie Atomique Cadarache, Institut de Biologie Environnementale et Biotechnologie-Service de Biologie Végétale et de Microbiologie Environnementales, Laboratoire de Biologie du Développement des Plantes, Unité Mixte de Recherche 6191 Centre National de la Recherche Scientifique–Commissariat à l’Energie Atomique, Aix-Marseille II, F-13108 Saint-Paul-lez-Durance Cedex, France
- Address correspondence to
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Fernández-Calvo P, Chini A, Fernández-Barbero G, Chico JM, Gimenez-Ibanez S, Geerinck J, Eeckhout D, Schweizer F, Godoy M, Franco-Zorrilla JM, Pauwels L, Witters E, Puga MI, Paz-Ares J, Goossens A, Reymond P, De Jaeger G, Solano R. The Arabidopsis bHLH transcription factors MYC3 and MYC4 are targets of JAZ repressors and act additively with MYC2 in the activation of jasmonate responses. Plant Cell 2011; 23:701-15. [PMID: 21335373 PMCID: PMC3077776 DOI: 10.1105/tpc.110.080788] [Citation(s) in RCA: 716] [Impact Index Per Article: 55.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/26/2010] [Revised: 01/11/2011] [Accepted: 01/21/2011] [Indexed: 05/17/2023]
Abstract
Jasmonates (JAs) trigger an important transcriptional reprogramming of plant cells to modulate both basal development and stress responses. In spite of the importance of transcriptional regulation, only one transcription factor (TF), the Arabidopsis thaliana basic helix-loop-helix MYC2, has been described so far as a direct target of JAZ repressors. By means of yeast two-hybrid screening and tandem affinity purification strategies, we identified two previously unknown targets of JAZ repressors, the TFs MYC3 and MYC4, phylogenetically closely related to MYC2. We show that MYC3 and MYC4 interact in vitro and in vivo with JAZ repressors and also form homo- and heterodimers with MYC2 and among themselves. They both are nuclear proteins that bind DNA with sequence specificity similar to that of MYC2. Loss-of-function mutations in any of these two TFs impair full responsiveness to JA and enhance the JA insensitivity of myc2 mutants. Moreover, the triple mutant myc2 myc3 myc4 is as impaired as coi1-1 in the activation of several, but not all, JA-mediated responses such as the defense against bacterial pathogens and insect herbivory. Our results show that MYC3 and MYC4 are activators of JA-regulated programs that act additively with MYC2 to regulate specifically different subsets of the JA-dependent transcriptional response.
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Affiliation(s)
- Patricia Fernández-Calvo
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Científicas, Campus Universidad Autónoma, 28049 Madrid, Spain
| | - Andrea Chini
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Científicas, Campus Universidad Autónoma, 28049 Madrid, Spain
| | - Gemma Fernández-Barbero
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Científicas, Campus Universidad Autónoma, 28049 Madrid, Spain
| | - José-Manuel Chico
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Científicas, Campus Universidad Autónoma, 28049 Madrid, Spain
| | - Selena Gimenez-Ibanez
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Científicas, Campus Universidad Autónoma, 28049 Madrid, Spain
| | - Jan Geerinck
- Department of Plant Systems Biology, VIB, B-9052 Ghent, Belgium
- Department of Plant Biotechnology and Genetics, Ghent University, B-9052 Ghent, Belgium
| | - Dominique Eeckhout
- Department of Plant Systems Biology, VIB, B-9052 Ghent, Belgium
- Department of Plant Biotechnology and Genetics, Ghent University, B-9052 Ghent, Belgium
| | - Fabian Schweizer
- Department of Plant Molecular Biology, University of Lausanne, CH-1015 Lausanne, Switzerland
| | - Marta Godoy
- Genomics Unit, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Científicas, Campus Universidad Autónoma, 28049 Madrid, Spain
| | - José Manuel Franco-Zorrilla
- Genomics Unit, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Científicas, Campus Universidad Autónoma, 28049 Madrid, Spain
| | - Laurens Pauwels
- Department of Plant Systems Biology, VIB, B-9052 Ghent, Belgium
- Department of Plant Biotechnology and Genetics, Ghent University, B-9052 Ghent, Belgium
| | - Erwin Witters
- Department of Biology, EBT-CEPROMA, University of Antwerp, B-2020 Antwerpen, Belgium
- Flemish Institute for Technological Research, VITO-MANT, B-2400 Mol, Belgium
| | - María Isabel Puga
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Científicas, Campus Universidad Autónoma, 28049 Madrid, Spain
| | - Javier Paz-Ares
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Científicas, Campus Universidad Autónoma, 28049 Madrid, Spain
| | - Alain Goossens
- Department of Plant Systems Biology, VIB, B-9052 Ghent, Belgium
- Department of Plant Biotechnology and Genetics, Ghent University, B-9052 Ghent, Belgium
| | - Philippe Reymond
- Department of Plant Molecular Biology, University of Lausanne, CH-1015 Lausanne, Switzerland
| | - Geert De Jaeger
- Department of Plant Systems Biology, VIB, B-9052 Ghent, Belgium
- Department of Plant Biotechnology and Genetics, Ghent University, B-9052 Ghent, Belgium
| | - Roberto Solano
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Científicas, Campus Universidad Autónoma, 28049 Madrid, Spain
- Genomics Unit, Centro Nacional de Biotecnología–Consejo Superior de Investigaciones Científicas, Campus Universidad Autónoma, 28049 Madrid, Spain
- Address correspondence to
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27
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Thibaud MC, Arrighi JF, Bayle V, Chiarenza S, Creff A, Bustos R, Paz-Ares J, Poirier Y, Nussaume L. Dissection of local and systemic transcriptional responses to phosphate starvation in Arabidopsis. Plant J 2010; 64:775-89. [PMID: 21105925 DOI: 10.1111/j.1365-313x.2010.04375.x] [Citation(s) in RCA: 207] [Impact Index Per Article: 14.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/17/2023]
Abstract
Phosphate is a crucial and often limiting nutrient for plant growth. To obtain inorganic phosphate (P(i) ), which is very insoluble, and is heterogeneously distributed in the soil, plants have evolved a complex network of morphological and biochemical processes. These processes are controlled by a regulatory system triggered by P(i) concentration, not only present in the medium (external P(i) ), but also inside plant cells (internal P(i) ). A 'split-root' assay was performed to mimic a heterogeneous environment, after which a transcriptomic analysis identified groups of genes either locally or systemically regulated by P(i) starvation at the transcriptional level. These groups revealed coordinated regulations for various functions associated with P(i) starvation (including P(i) uptake, P(i) recovery, lipid metabolism, and metal uptake), and distinct roles for members in gene families. Genetic tools and physiological analyses revealed that genes that are locally regulated appear to be modulated mostly by root development independently of the internal P(i) content. By contrast, internal P(i) was essential to promote the activation of systemic regulation. Reducing the flow of P(i) had no effect on the systemic response, suggesting that a secondary signal, independent of P(i) , could be involved in the response. Furthermore, our results display a direct role for the transcription factor PHR1, as genes systemically controlled by low P(i) have promoters enriched with P1BS motif (PHR1-binding sequences). These data detail various regulatory systems regarding P(i) starvation responses (systemic versus local, and internal versus external P(i) ), and provide tools to analyze and classify the effects of P(i) starvation on plant physiology.
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Affiliation(s)
- Marie-Christine Thibaud
- CEA, DSV, IBEB, Lab Biol Develop Plantes, CNRS, UMR 6191 Biol Veget & Microbiol Environ, Aix-Marseille Université, Saint-Paul-lez-Durance, F-13108, France.
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Bustos R, Castrillo G, Linhares F, Puga MI, Rubio V, Pérez-Pérez J, Solano R, Leyva A, Paz-Ares J. A central regulatory system largely controls transcriptional activation and repression responses to phosphate starvation in Arabidopsis. PLoS Genet 2010; 6:e1001102. [PMID: 20838596 PMCID: PMC2936532 DOI: 10.1371/journal.pgen.1001102] [Citation(s) in RCA: 448] [Impact Index Per Article: 32.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2009] [Accepted: 07/29/2010] [Indexed: 01/22/2023] Open
Abstract
Plants respond to different stresses by inducing or repressing transcription of partially overlapping sets of genes. In Arabidopsis, the PHR1 transcription factor (TF) has an important role in the control of phosphate (Pi) starvation stress responses. Using transcriptomic analysis of Pi starvation in phr1, and phr1 phr1-like (phl1) mutants and in wild type plants, we show that PHR1 in conjunction with PHL1 controls most transcriptional activation and repression responses to phosphate starvation, regardless of the Pi starvation specificity of these responses. Induced genes are enriched in PHR1 binding sequences (P1BS) in their promoters, whereas repressed genes do not show such enrichment, suggesting that PHR1(-like) control of transcriptional repression responses is indirect. In agreement with this, transcriptomic analysis of a transgenic plant expressing PHR1 fused to the hormone ligand domain of the glucocorticoid receptor showed that PHR1 direct targets (i.e., displaying altered expression after GR:PHR1 activation by dexamethasone in the presence of cycloheximide) corresponded largely to Pi starvation-induced genes that are highly enriched in P1BS. A minimal promoter containing a multimerised P1BS recapitulates Pi starvation-specific responsiveness. Likewise, mutation of P1BS in the promoter of two Pi starvation-responsive genes impaired their responsiveness to Pi starvation, but not to other stress types. Phylogenetic footprinting confirmed the importance of P1BS and PHR1 in Pi starvation responsiveness and indicated that P1BS acts in concert with other cis motifs. All together, our data show that PHR1 and PHL1 are partially redundant TF acting as central integrators of Pi starvation responses, both specific and generic. In addition, they indicate that transcriptional repression responses are an integral part of adaptive responses to stress. As sessile organisms, plants are often exposed to stress conditions, and have evolved adaptive responses to protect themselves from different types of stress. Some responses are stress type-specific whereas others are common to different stress types. Understanding how these responses are controlled is crucial for rational improvement of stress tolerance, a limiting factor in crop productivity. Here we examined the physiological and molecular responses to phosphate starvation and found that a single transcription factor family, represented by PHOSPHATE STARVATION RESPONSE REGULATOR 1 (PHR1), has a central role in the control of specific and shared phosphate starvation stress responses. In consonance with the importance of PHR1, we found that the PHR1-binding sequence, present in most PHR1 direct targets, is a crucial cis motif for Pi starvation responsiveness. An artificial promoter controlled by PHR1 recapitulates responsiveness to Pi starvation and to modulators of this response, qualifying PHR1 family members as central integrators in Pi starvation signalling. This central integrator system also controls most transcriptional repression responses to Pi starvation, indicating that they are an integral part of the adaptive response, and not a consequence of plant malfunction due to stress.
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Affiliation(s)
- Regla Bustos
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-CSIC, Madrid, Spain
| | - Gabriel Castrillo
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-CSIC, Madrid, Spain
| | - Francisco Linhares
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-CSIC, Madrid, Spain
| | - María Isabel Puga
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-CSIC, Madrid, Spain
| | - Vicente Rubio
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-CSIC, Madrid, Spain
| | - Julian Pérez-Pérez
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-CSIC, Madrid, Spain
| | - Roberto Solano
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-CSIC, Madrid, Spain
| | - Antonio Leyva
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-CSIC, Madrid, Spain
| | - Javier Paz-Ares
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-CSIC, Madrid, Spain
- * E-mail:
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29
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Paz-Ares J. REGIA, an EU project on functional genomics of transcription factors from Arabidopsis Thaliana. Comp Funct Genomics 2010; 3:102-8. [PMID: 18628849 PMCID: PMC2447270 DOI: 10.1002/cfg.146] [Citation(s) in RCA: 60] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2002] [Accepted: 01/29/2002] [Indexed: 11/11/2022] Open
Abstract
Transcription factors (TFs) are regulatory proteins that have played a pivotal role in the evolution of eukaryotes and that also have great biotechnological potential. REGIA (REgulatory Gene Initiative in Arabidopsis) is an EU-funded project involving 29 European laboratories with the objective of determining the function of virtually all transcription factors from the model plant, Arabidopsis thaliana. REGIA involves: 1. the definition of TF gene expression patterns in Arabidopsis; 2. the identification of mutations at TF loci; 3. the ectopic expression of TFs (or derivatives) in Arabidopsis and in crop plants; 4. phenotypic analysis of the mutants and mis-expression lines, including both RNA and metabolic profiling; 5. the systematic analysis of interactions between TFs; and 6. the generation of a bioinformatics infrastructure to access and integrate all this information. We expect that this programme will establish the full biotechnological potential of plant TFs, and provide insights into hierarchies, redundancies, and interdependencies, and their evolution. The project involves the preparation of both a TF gene array for expression analysis and a normalised full length open reading frame (ORF) library of TFs in a yeast two hybrid vector; the applications of these resources should extend beyond the scope of this programme.
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Affiliation(s)
- Javier Paz-Ares
- Centro Nacional de Biotecnología-CSIC. Campus de Cantoblanco, Madrid 28049, Spain.
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30
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Rubio V, Bustos R, Irigoyen ML, Cardona-López X, Rojas-Triana M, Paz-Ares J. Plant hormones and nutrient signaling. Plant Mol Biol 2009; 69:361-73. [PMID: 18688730 DOI: 10.1007/s11103-008-9380-y] [Citation(s) in RCA: 101] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/14/2008] [Accepted: 07/14/2008] [Indexed: 05/18/2023]
Abstract
Plants count on a wide variety of metabolic, physiological, and developmental responses to adapt their growth to variations in mineral nutrient availability. To react to such variations plants have evolved complex sensing and signaling mechanisms that allow them to monitor the external and internal concentration of each of these nutrients, both in absolute terms and also relatively to the status of other nutrients. Recent evidence has shown that hormones participate in the control of these regulatory networks. Conversely, mineral nutrient conditions influence hormone biosynthesis, further supporting close interrelation between hormonal stimuli and nutritional homeostasis. In this review, we summarize these evidences and analyze possible transcriptional correlations between hormonal and nutritional responses, as a means to further characterize the role of hormones in the response of plants to limiting nutrients in soil.
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Affiliation(s)
- Vicente Rubio
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-CSIC, Campus Universidad Autónoma de Madrid, 28049 Cantoblanco, Madrid, Spain
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31
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Franco-Zorrilla JM, Valli A, Todesco M, Mateos I, Puga MI, Rubio-Somoza I, Leyva A, Weigel D, García JA, Paz-Ares J. Target mimicry provides a new mechanism for regulation of microRNA activity. Nat Genet 2007; 39:1033-7. [PMID: 17643101 DOI: 10.1038/ng2079] [Citation(s) in RCA: 1341] [Impact Index Per Article: 78.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2007] [Accepted: 05/22/2007] [Indexed: 02/07/2023]
Abstract
MicroRNAs (miRNA) regulate key aspects of development and physiology in animals and plants. These regulatory RNAs act as guides of effector complexes to recognize specific mRNA sequences based on sequence complementarity, resulting in translational repression or site-specific cleavage. In plants, most miRNA targets are cleaved and show almost perfect complementarity with the miRNAs around the cleavage site. Here, we examined the non-protein coding gene IPS1 (INDUCED BY PHOSPHATE STARVATION 1) from Arabidopsis thaliana. IPS1 contains a motif with sequence complementarity to the phosphate (Pi) starvation-induced miRNA miR-399, but the pairing is interrupted by a mismatched loop at the expected miRNA cleavage site. We show that IPS1 RNA is not cleaved but instead sequesters miR-399. Thus, IPS1 overexpression results in increased accumulation of the miR-399 target PHO2 mRNA and, concomitantly, in reduced shoot Pi content. Engineering of IPS1 to be cleavable abolishes its inhibitory activity on miR-399. We coin the term 'target mimicry' to define this mechanism of inhibition of miRNA activity. Target mimicry can be generalized beyond the control of Pi homeostasis, as demonstrated using artificial target mimics.
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Affiliation(s)
- José Manuel Franco-Zorrilla
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas (CSIC), Campus de Cantoblanco, 28049 Madrid, Spain
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32
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Catarecha P, Segura MD, Franco-Zorrilla JM, García-Ponce B, Lanza M, Solano R, Paz-Ares J, Leyva A. A mutant of the Arabidopsis phosphate transporter PHT1;1 displays enhanced arsenic accumulation. Plant Cell 2007; 19:1123-33. [PMID: 17400898 PMCID: PMC1867351 DOI: 10.1105/tpc.106.041871] [Citation(s) in RCA: 164] [Impact Index Per Article: 9.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/13/2006] [Revised: 02/27/2007] [Accepted: 03/09/2007] [Indexed: 05/14/2023]
Abstract
The exceptional toxicity of arsenate [As(V)] is derived from its close chemical similarity to phosphate (Pi), which allows the metalloid to be easily incorporated into plant cells through the high-affinity Pi transport system. In this study, we identified an As(V)-tolerant mutant of Arabidopsis thaliana named pht1;1-3, which harbors a semidominant allele coding for the high-affinity Pi transporter PHT1;1. pht1;1-3 displays a slow rate of As(V) uptake that ultimately enables the mutant to accumulate double the arsenic found in wild-type plants. Overexpression of the mutant protein in wild-type plants provokes phenotypic effects similar to pht1;1-3 with regard to As(V) uptake and accumulation. In addition, gene expression analysis of wild-type and mutant plants revealed that, in Arabidopsis, As(V) represses the activation of genes specifically involved in Pi uptake, while inducing others transcriptionally regulated by As(V), suggesting that converse signaling pathways are involved in plant responses to As(V) and low Pi availability. Furthermore, the repression effect of As(V) on Pi starvation responses may reflect a regulatory mechanism to protect plants from the extreme toxicity of arsenic.
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Affiliation(s)
- Pablo Catarecha
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas, Cantoblanco, E-28049 Madrid, Spain
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33
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González E, Solano R, Rubio V, Leyva A, Paz-Ares J. PHOSPHATE TRANSPORTER TRAFFIC FACILITATOR1 is a plant-specific SEC12-related protein that enables the endoplasmic reticulum exit of a high-affinity phosphate transporter in Arabidopsis. Plant Cell 2005; 17:3500-12. [PMID: 16284308 PMCID: PMC1315384 DOI: 10.1105/tpc.105.036640] [Citation(s) in RCA: 204] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/05/2023]
Abstract
PHOSPHATE TRANSPORTER1 (PHT1) genes encode phosphate (Pi) transporters that play a fundamental role in Pi acquisition and remobilization in plants. Mutation of the Arabidopsis thaliana PHOSPHATE TRANSPORTER TRAFFIC FACILITATOR1 (PHF1) impairs Pi transport, resulting in the constitutive expression of many Pi starvation-induced genes, increased arsenate resistance, and reduced Pi accumulation. PHF1 expression was detected in all tissues, particularly in roots, flowers, and senescing leaves, and was induced by Pi starvation, thus mimicking the expression patterns of the whole PHT1 gene family. PHF1 was localized in endoplasmic reticulum (ER), and mutation of PHF1 resulted in ER retention and reduced accumulation of the plasma membrane PHT1;1 transporter. By contrast, the PIP2A plasma membrane protein was not mislocalized, and the secretion of Pi starvation-induced RNases was not affected in the mutant. PHF1 encodes a plant-specific protein structurally related to the SEC12 proteins of the early secretory pathway. However, PHF1 lacks most of the conserved residues in SEC12 proteins essential as guanine nucleotide exchange factors. Although it functions in early secretory trafficking, PHF1 likely evolved a novel mechanism accompanying functional specialization on Pi transporters. The identification of PHF1 reveals that plants are also endowed with accessory proteins specific for selected plasma membrane proteins, allowing their exit from the ER, and that these ER exit cofactors may have a phylum-specific origin.
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Affiliation(s)
- Esperanza González
- Centro Nacional de Biotecnología-Consejo Superior de Investigaciones Científicas, Campus de Cantoblanco, Madrid, Spain
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34
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Franco-Zorrilla JM, Martín AC, Leyva A, Paz-Ares J. Interaction between phosphate-starvation, sugar, and cytokinin signaling in Arabidopsis and the roles of cytokinin receptors CRE1/AHK4 and AHK3. Plant Physiol 2005; 138:847-57. [PMID: 15923327 PMCID: PMC1150402 DOI: 10.1104/pp.105.060517] [Citation(s) in RCA: 48] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/31/2005] [Revised: 02/22/2005] [Accepted: 02/24/2005] [Indexed: 05/02/2023]
Abstract
Cytokinins control key processes during plant growth and development, and cytokinin receptors CYTOKININ RESPONSE 1/WOODEN LEG/ARABIDOPSIS HISTIDINE KINASE 4 (CRE1/WOL/AHK4), AHK2, and AHK3 have been shown to play a crucial role in this control. The involvement of cytokinins in signaling the status of several nutrients, such as sugar, nitrogen, sulfur, and phosphate (Pi), has also been highlighted, although the full physiological relevance of this role remains unclear. To gain further insights into this aspect of cytokinin action, we characterized a mutant with reduced sensitivity to cytokinin repression of a Pi starvation-responsive reporter gene and show it corresponds to AHK3. As expected, ahk3 displayed reduced responsiveness to cytokinin in callus proliferation and plant growth assays. In addition, ahk3 showed reduced cytokinin repression of several Pi starvation-responsive genes and increased sucrose sensitivity. These effects of the ahk3 mutation were especially evident in combination with the cre1 mutation, indicating partial functional redundancy between these receptors. We examined the effect of these mutations on Pi-starvation responses and found that the double mutant is not significantly affected in long-distance systemic repression of these responses. Remarkably, we found that expression of many Pi-responsive genes is stimulated by sucrose in shoots and to a lesser extent in roots, and the sugar effect in shoots of Pi-starved plants was particularly enhanced in the cre1 ahk3 double mutant. Altogether, these results indicate the existence of multidirectional cross regulation between cytokinin, sugar, and Pi-starvation signaling, thus underlining the role of cytokinin signaling in nutrient sensing and the relative importance of Pi-starvation signaling in the control of plant metabolism and development.
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Affiliation(s)
- José Manuel Franco-Zorrilla
- Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas, Campus de Cantoblanco 28049, Madrid, Spain
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35
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Hilson P, Allemeersch J, Altmann T, Aubourg S, Avon A, Beynon J, Bhalerao RP, Bitton F, Caboche M, Cannoot B, Chardakov V, Cognet-Holliger C, Colot V, Crowe M, Darimont C, Durinck S, Eickhoff H, de Longevialle AF, Farmer EE, Grant M, Kuiper MTR, Lehrach H, Léon C, Leyva A, Lundeberg J, Lurin C, Moreau Y, Nietfeld W, Paz-Ares J, Reymond P, Rouzé P, Sandberg G, Segura MD, Serizet C, Tabrett A, Taconnat L, Thareau V, Van Hummelen P, Vercruysse S, Vuylsteke M, Weingartner M, Weisbeek PJ, Wirta V, Wittink FRA, Zabeau M, Small I. Versatile gene-specific sequence tags for Arabidopsis functional genomics: transcript profiling and reverse genetics applications. Genome Res 2004; 14:2176-89. [PMID: 15489341 PMCID: PMC528935 DOI: 10.1101/gr.2544504] [Citation(s) in RCA: 265] [Impact Index Per Article: 13.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
Microarray transcript profiling and RNA interference are two new technologies crucial for large-scale gene function studies in multicellular eukaryotes. Both rely on sequence-specific hybridization between complementary nucleic acid strands, inciting us to create a collection of gene-specific sequence tags (GSTs) representing at least 21,500 Arabidopsis genes and which are compatible with both approaches. The GSTs were carefully selected to ensure that each of them shared no significant similarity with any other region in the Arabidopsis genome. They were synthesized by PCR amplification from genomic DNA. Spotted microarrays fabricated from the GSTs show good dynamic range, specificity, and sensitivity in transcript profiling experiments. The GSTs have also been transferred to bacterial plasmid vectors via recombinational cloning protocols. These cloned GSTs constitute the ideal starting point for a variety of functional approaches, including reverse genetics. We have subcloned GSTs on a large scale into vectors designed for gene silencing in plant cells. We show that in planta expression of GST hairpin RNA results in the expected phenotypes in silenced Arabidopsis lines. These versatile GST resources provide novel and powerful tools for functional genomics.
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Affiliation(s)
- Pierre Hilson
- Department of Plant Systems Biology, Flanders Interuniversity Institute for Biotechnology (VIB), Ghent University, B-9052 Gent, Belgium.
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36
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de León BGP, Zorrilla JMF, Rubio V, Dahiya P, Paz-Ares J, Leyva A. Interallelic complementation at the Arabidopsis CRE1 locus uncovers independent pathways for the proliferation of vascular initials and canonical cytokinin signalling. Plant J 2004; 38:70-79. [PMID: 15053761 DOI: 10.1111/j.1365-313x.2004.02023.x] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
The differentiation of vascular tissue plays a central role in root architecture and its functionality. Regardless of its importance, the molecular mechanisms involved in the inception of vascular morphogenesis and their interaction with hormones are only now beginning to be understood. The characterisation of the WOODEN LEG (wol/cre1 mutant), impaired in procambial cell proliferation and the identification of WOL/CRE1 as a cytokinin receptor, provided the first genetic evidence pointing to a role of cytokinins in the formation of vascular initials. However, the striking wol phenotype in vascular differentiation is unique among all the available cre1 alleles collection. In this work, we identified a mutant with identical deficiencies in vascular differentiation as wol. Complementation analysis revealed that this mutant rescued the wol short-root phenotype. However, genetic characterisation of the mutant showed that the mutation was located at the CRE1 locus, indicating that both alleles displayed interallelic complementation. Trans-heterozygotes characterisation showed that these plants fully restored the deficiency in vascular differentiation but not the canonical cytokinin signalling. Furthermore, we show that, as measured in root growth inhibition, calli regeneration assays and northern analysis, the original wol allele is in fact more sensitive to cytokinins than the trans-heterozygous plants, or some cre1 alleles showing wild-type vascular morphogenesis. Thus, there is no strict correlation between the phenotype in vascular differentiation displayed by the cre1/wol alleles and canonical cytokinin signalling. These results indicate that at least partially independent regulatory circuits may operate in procambial cell proliferation and in cytokinin responsiveness exerted through the CRE1 receptor.
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Affiliation(s)
- Berenice García-Ponce de León
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología, Campus de la Universidad Autónoma de Madrid Cantoblanco, 28049 Madrid, Spain
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Franco-Zorrilla JM, González E, Bustos R, Linhares F, Leyva A, Paz-Ares J. The transcriptional control of plant responses to phosphate limitation. J Exp Bot 2004; 55:285-93. [PMID: 14718495 DOI: 10.1093/jxb/erh009] [Citation(s) in RCA: 160] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
Abstract
Plants have evolved an array of responses that adapt their growth to conditions of limited phosphate (Pi) supply. These involve biochemical and developmental changes that improve Pi acquisition and recycling, and protect against the stress of Pi starvation. The induction of these responses requires a sophisticated regulatory system that integrates information on external and internal plant Pi status and the details of this regulatory system are only just beginning to be elucidated. In this review, the current knowledge of this regulatory system is summarized, the hallmark of which is the central role of transcription factor PHR1 in the co-ordinated regulation of many phosphate-starvation-responsive genes. The role of hormonal signalling is also described, including auxins, ethylene and, particularly, cytokinins in the regulation of Pi-starvation responses.
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Crowe ML, Serizet C, Thareau V, Aubourg S, Rouzé P, Hilson P, Beynon J, Weisbeek P, van Hummelen P, Reymond P, Paz-Ares J, Nietfeld W, Trick M. CATMA: a complete Arabidopsis GST database. Nucleic Acids Res 2003; 31:156-8. [PMID: 12519971 PMCID: PMC165518 DOI: 10.1093/nar/gkg071] [Citation(s) in RCA: 126] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
The Complete Arabidopsis Transcriptome Micro Array (CATMA) database contains gene sequence tag (GST) and gene model sequences for over 70% of the predicted genes in the Arabidopsis thaliana genome as well as primer sequences for GST amplification and a wide range of supplementary information. All CATMA GST sequences are specific to the gene for which they were designed, and all gene models were predicted from a complete reannotation of the genome using uniform parameters. The database is searchable by sequence name, sequence homology or direct SQL query, and is available through the CATMA website at http://www.catma.org/.
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Affiliation(s)
- Mark L Crowe
- The John Innes Centre, Norwich Research Park, Colney, Norwich NR4 7UH, UK.
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39
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Franco-Zorrilla JM, Martin AC, Solano R, Rubio V, Leyva A, Paz-Ares J. Mutations at CRE1 impair cytokinin-induced repression of phosphate starvation responses in Arabidopsis. Plant J 2002; 32:353-360. [PMID: 12410813 DOI: 10.1046/j.1365-313x.2002.01431.x] [Citation(s) in RCA: 90] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/23/2023]
Abstract
Plants display a number of responses to low phosphate availability, involving biochemical and developmental changes. Recently we have shown that many of these responses can be repressed in roots by exogenous addition of cytokinins. In order to understand the genetic basis to this effect of cytokinins, and its relation with the better known roles of cytokinins in the control of cell-cycle and differentiation, we have undertaken mutant screening and characterization using a transgenic line of Arabidopsis thaliana harbouring a reporter gene specifically responsive to Pi starvation (AtIPS1::GUS). One type of mutant identified displayed reduced sensitivity of AtIPS1::GUS to cytokinin repression. Several other Pi starvation response genes showed reduced cytokinin sensitivity in these lines. These mutants also showed reduced cytokinin repression of the anthocyanin accumulation induced by Pi starvation in the aerial part of the plants. Mapping and molecular characterization of these mutants showed that they were allelic of CRE1/WOL, a locus known to encode a cytokinin receptor. CRE1 is downregulated by Pi starvation and induced by cytokinins, both in the wild-type and in the cre1 mutants, in which cre1 mRNA levels are higher. These results reveal the existence of a positive feed-back loop, in addition to the already established negative feedback loop, in cytokinin signalling and indicate that the negative regulation of Pi starvation responses by cytokinins involves a two-component signalling circuitry, as it is the case of other types of cytokinin response.
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Affiliation(s)
- José M Franco-Zorrilla
- Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología, Campus de la Universidad Autónoma de Madrid Cantoblanco, 28049-Madrid, Spain
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40
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Hernández-Lucas C, Royo J, Paz-Ares J, Ponz F, García-Olmedo F, Carbonero P. Polyadenylation site heterogeneity in mRNA encoding the precursor of the barley toxin β-hordothionin. FEBS Lett 2001. [DOI: 10.1016/0014-5793(86)80519-1] [Citation(s) in RCA: 41] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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41
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Rubio V, Linhares F, Solano R, Martín AC, Iglesias J, Leyva A, Paz-Ares J. A conserved MYB transcription factor involved in phosphate starvation signaling both in vascular plants and in unicellular algae. Genes Dev 2001; 15:2122-33. [PMID: 11511543 PMCID: PMC312755 DOI: 10.1101/gad.204401] [Citation(s) in RCA: 800] [Impact Index Per Article: 34.8] [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] [Indexed: 11/24/2022]
Abstract
Plants have evolved a number of adaptive responses to cope with growth in conditions of limited phosphate (Pi) supply involving biochemical, metabolic, and developmental changes. We prepared an EMS-mutagenized M(2) population of an Arabidopsis thaliana transgenic line harboring a reporter gene specifically responsive to Pi starvation (AtIPS1::GUS), and screened for mutants altered in Pi starvation regulation. One of the mutants, phr1 (phosphate starvation response 1), displayed reduced response of AtIPS1::GUS to Pi starvation, and also had a broad range of Pi starvation responses impaired, including the responsiveness of various other Pi starvation-induced genes and metabolic responses, such as the increase in anthocyanin accumulation. PHR1 was positionally cloned and shown be related to the PHOSPHORUS STARVATION RESPONSE 1 (PSR1) gene from Chlamydomonas reinhardtii. A GFP::PHR1 protein fusion was localized in the nucleus independently of Pi status, as is the case for PSR1. PHR1 is expressed in Pi sufficient conditions and, in contrast to PSR1, is only weakly responsive to Pi starvation. PHR1, PSR1, and other members of the protein family share a MYB domain and a predicted coiled-coil (CC) domain, defining a subtype within the MYB superfamily, the MYB-CC family. Therefore, PHR1 was found to bind as a dimer to an imperfect palindromic sequence. PHR1-binding sequences are present in the promoter of Pi starvation-responsive structural genes, indicating that this protein acts downstream in the Pi starvation signaling pathway.
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Affiliation(s)
- V Rubio
- Centro Nacional de Biotecnología, Campus de Cantoblanco, 28049 Madrid, Spain
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42
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Martín AC, del Pozo JC, Iglesias J, Rubio V, Solano R, de La Peña A, Leyva A, Paz-Ares J. Influence of cytokinins on the expression of phosphate starvation responsive genes in Arabidopsis. Plant J 2000; 24:559-67. [PMID: 11123795 DOI: 10.1046/j.1365-313x.2000.00893.x] [Citation(s) in RCA: 179] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Abstract
The increase in the ratio of root growth to shoot growth that occurs in response to phosphate (Pi) deprivation is paralleled by a decrease in cytokinin levels under the same conditions. However, the role of cytokinin in the rescue system for Pi starvation remains largely unknown. We have isolated a gene from Arabidopsis thaliana (AtIPS1) that is induced by Pi starvation, and studied the effect of cytokinin on its expression in response to Pi deprivation. AtIPS1 belongs to the TPSI1/Mt4 family, the members of which are specifically induced by Pi starvation, and the RNAs of which contain only short, non-conserved open reading frames. Pi deprivation induces AtIPS1 expression in all cells of wild-type plants, whereas in the pho1 mutant grown on Pi-rich soils, AtIPS1 expression in the root was delimited by the endodermis. This supports the view that pho1 is impaired in xylem loading of Pi, and that long-distance signals controlling the Pi starvation responses act via negative control. Exogenous cytokinins repress the expression of AtIPS1 and other Pi starvation-responsive genes in response to Pi deprivation. However, cytokinins did not repress the increase in root-hair number and length induced by Pi starvation, a response dependent on local Pi concentration rather than on whole-plant Pi status. Our results raise the possibility that cytokinins may be involved in the negative modulation of long-distance, systemically controlled Pi starvation responses, which are dependent on whole-plant Pi status.
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Affiliation(s)
- A C Martín
- Centro Nacional de Biotecnología-CSIC, Campus de Cantoblanco, 28049 Madrid, Spain
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43
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Meissner RC, Jin H, Cominelli E, Denekamp M, Fuertes A, Greco R, Kranz HD, Penfield S, Petroni K, Urzainqui A, Martin C, Paz-Ares J, Smeekens S, Tonelli C, Weisshaar B, Baumann E, Klimyuk V, Marillonnet S, Patel K, Speulman E, Tissier AF, Bouchez D, Jones JJ, Pereira A, Wisman E. Function search in a large transcription factor gene family in Arabidopsis: assessing the potential of reverse genetics to identify insertional mutations in R2R3 MYB genes. Plant Cell 1999; 11:1827-40. [PMID: 10521515 PMCID: PMC144113 DOI: 10.1105/tpc.11.10.1827] [Citation(s) in RCA: 72] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
More than 92 genes encoding MYB transcription factors of the R2R3 class have been described in Arabidopsis. The functions of a few members of this large gene family have been described, indicating important roles for R2R3 MYB transcription factors in the regulation of secondary metabolism, cell shape, and disease resistance, and in responses to growth regulators and stresses. For the majority of the genes in this family, however, little functional information is available. As the first step to characterizing these genes functionally, the sequences of >90 family members, and the map positions and expression profiles of >60 members, have been determined previously. An important second step in the functional analysis of the MYB family, through a process of reverse genetics that entails the isolation of insertion mutants, is described here. For this purpose, a variety of gene disruption resources has been used, including T-DNA-insertion populations and three distinct populations that harbor transposon insertions. We report the isolation of 47 insertions into 36 distinct MYB genes by screening a total of 73 genes. These defined insertion lines will provide the foundation for subsequent detailed functional analyses for the assignment of specific functions to individual members of the R2R3 MYB gene family.
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Affiliation(s)
- R C Meissner
- John Innes Centre, Department of Molecular Genetics, Colney Lane, Norwich Research Park, Norwich NR4 7UH, United Kingdom
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44
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del Pozo JC, Allona I, Rubio V, Leyva A, de la Peña A, Aragoncillo C, Paz-Ares J. A type 5 acid phosphatase gene from Arabidopsis thaliana is induced by phosphate starvation and by some other types of phosphate mobilising/oxidative stress conditions. Plant J 1999; 19:579-89. [PMID: 10504579 DOI: 10.1046/j.1365-313x.1999.00562.x] [Citation(s) in RCA: 188] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
Low phosphorous availability, a common condition of many soils, is known to stimulate phosphatase activity in plants; however, the molecular details of this response remain mostly unknown. We purified and sequenced the N-terminal region of a phosphate starvation induced acid phosphatase (AtACP5) from Arabidopsis thaliana, and cloned its cDNA and the corresponding genomic DNA. The nucleotide sequence of the cDNA predicted that AtACP5 is synthesised as a 338 amino acid-long precursor with a signal peptide. AtACP5 was found to be related to known purple acid phosphatases, especially to mammal type 5 acid phosphatases. Other similarities with purple acid phosphatases, which contain a dinuclear metal centre, include the conservation of all residues involved in metal ligand binding and resistance to tartrate inhibition. In addition, AtACP5, like other type 5 acid phosphatases, displayed peroxidation activity. Northern hybridisation experiments, as well as in situ glucuronidase (GUS) activity assays on transgenic plants harbouring AtACP5:GUS translational fusions, showed that AtACP5 is not only responsive to phosphate starvation but also to ABA and salt stress. It is also expressed in senescent leaves and during oxidative stress induced by H2O2, but not by paraquat or salicylic acid. Given its bifunctionality, as it displays both phosphatase and peroxidation activity, we propose that AtACP5 could be involved in phosphate mobilisation and in the metabolism of reactive oxygen species in stressed or senescent parts of the plant.
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Affiliation(s)
- J C del Pozo
- Centro Nacional de Biotechnología-CSIC, Campus de Cantoblanco, Madrid, Spain
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45
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Kranz HD, Denekamp M, Greco R, Jin H, Leyva A, Meissner RC, Petroni K, Urzainqui A, Bevan M, Martin C, Smeekens S, Tonelli C, Paz-Ares J, Weisshaar B. Towards functional characterisation of the members of the R2R3-MYB gene family from Arabidopsis thaliana. Plant J 1998; 16:263-76. [PMID: 9839469 DOI: 10.1046/j.1365-313x.1998.00278.x] [Citation(s) in RCA: 392] [Impact Index Per Article: 15.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
Transcription factors containing a conserved DNA-binding domain similar to that of the proto-oncogene c-myb have been identified in nearly all eukaryotes. MYB-related proteins from plants generally contain two related helix-turn-helix motifs, the R2 and R3 repeats. It was estimated that Arabidopsis thaliana contains more than 100 R2R3-MYB genes. The few cases where functional data are available suggest an important role of these genes in the regulation of secondary metabolism, the control of cell shape, disease resistance, and hormone responses. To determine the full regulatory potential of this large family of regulatory genes, a systematic search for the function of all genes of this family was initiated. Sequence data for more than 90 different A. thaliana R2R3-MYB genes have been obtained. Sequence comparison revealed conserved amino acid motifs shared by subgroups of R2R3-MYB genes in addition to the characteristic DNA-binding domain. No significant clustering of the genes was detected, although they are not uniformly distributed throughout the A. thaliana genome.
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Affiliation(s)
- H D Kranz
- Max-Planck Institut für Züchtungsforschung, Abteilung Biochemie, Köln, Germany
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46
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Romero I, Fuertes A, Benito MJ, Malpica JM, Leyva A, Paz-Ares J. More than 80R2R3-MYB regulatory genes in the genome of Arabidopsis thaliana. Plant J 1998. [PMID: 9628022 DOI: 10.1016/1369-5266(88)80012-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/17/2023]
Abstract
Transcription factors belonging to the R2R3-MYB family contain the related helix-turn-helix repeats R2 and R3. The authors isolated partial cDNA and/or genomic clones of 78 R2R3-MYB genes from Arabidopsis thaliana and found accessions corresponding to 31 Arabidopsis genes of this class in databanks, seven of which were not represented in the authors' collection. Therefore, there are at least 85, and probably more than 100, R2R3-MYB genes present in the Arabidopsis thaliana genome, representing the largest regulatory gene family currently known in plants. In contrast, no more than three R2R3-MYB genes have been reported in any organism from other phyla. DNA-binding studies showed that there are differences but also frequent overlaps in binding specificity among plant R2R3-MYB proteins, in line with the distinct but often related functions that are beginning to be recognized for these proteins. This large-sized gene family may contribute to the regulatory flexibility underlying the developmental and metabolic plasticity displayed by plants.
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Affiliation(s)
- I Romero
- Centro Nacional de Biotecnología-CSIC, Madrid, Spain
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47
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Abstract
Transcription factors belonging to the R2R3-MYB family contain the related helix-turn-helix repeats R2 and R3. The authors isolated partial cDNA and/or genomic clones of 78 R2R3-MYB genes from Arabidopsis thaliana and found accessions corresponding to 31 Arabidopsis genes of this class in databanks, seven of which were not represented in the authors' collection. Therefore, there are at least 85, and probably more than 100, R2R3-MYB genes present in the Arabidopsis thaliana genome, representing the largest regulatory gene family currently known in plants. In contrast, no more than three R2R3-MYB genes have been reported in any organism from other phyla. DNA-binding studies showed that there are differences but also frequent overlaps in binding specificity among plant R2R3-MYB proteins, in line with the distinct but often related functions that are beginning to be recognized for these proteins. This large-sized gene family may contribute to the regulatory flexibility underlying the developmental and metabolic plasticity displayed by plants.
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Affiliation(s)
- I Romero
- Centro Nacional de Biotecnología-CSIC, Madrid, Spain
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48
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Abstract
The cloning of the first transcription factor from plants, the C1 gene of maize, indicated that plants use transcription factors that are structurally related to those of animals in their control of gene expression, because C1 showed significant structural homology to the vertebrate cellular proto-oncogene c-MYB. Since 1987, the catalogue of MYB-related transcription factors has increased considerably in size due, primarily, to the ever-expanding number of MYB genes identified in higher plants (Arabidopsis thaliana is estimated to contain more than a hundred MYB genes). In vertebrates, the MYB-related proto-oncogenes comprise a small family with a central role in controlling cellular proliferation and commitment to development. However, while the functions of some plant MYB genes are relatively well understood they are, at present, quite distinct from their animal counterparts.
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Affiliation(s)
- C Martin
- Department of Genetics, John Innes Centre, Colney, Norwich, UK.
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Solano R, Fuertes A, Sánchez-Pulido L, Valencia A, Paz-Ares J. A single residue substitution causes a switch from the dual DNA binding specificity of plant transcription factor MYB.Ph3 to the animal c-MYB specificity. J Biol Chem 1997; 272:2889-95. [PMID: 9006933 DOI: 10.1074/jbc.272.5.2889] [Citation(s) in RCA: 40] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023] Open
Abstract
Transcription factor MYB.Ph3 from Petunia binds to two types of sequences, MBSI and MBSII, whereas murine c-MYB only binds to MBSI, and Am305 from Antirrhinum only binds to MBSII. DNA binding studies with hybrids of these proteins pointed to the N-terminal repeat (R2) as the most involved in determining binding to MBSI and/or MBSII, although some influence of the C-terminal repeat (R3) was also evident. Furthermore, a single residue substitution (Leu71 --> Glu) in MYB.Ph3 changed its specificity to that of c-MYB, and c-MYB with the reciprocal substitution (Glu132 --> Leu) essentially gained the MYB.Ph3 specificity. Molecular modeling and DNA binding studies with site-specific MYB.Ph3 mutants strongly supported the notion that the drastic changes in DNA binding specificity caused by the Leu --> Glu substitution reflect the fact that certain residues influence this property both directly, through base contacts, and indirectly, through interactions with other base-contacting residues, and that a single residue may establish alternative base contacts in different targets. Additionally, differential effects of mutations at non-base-contacting residues in MYB.Ph3 and c-MYB were observed, reflecting the importance of protein context on DNA binding properties of MYB proteins.
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Affiliation(s)
- R Solano
- Centro Nacional de Biotecnología-CSIC, Campus Cantoblanco, Carretera de Colmenar Km 15.5, Madrid 28049, Spain
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50
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Allona I, Collada C, Casado R, Paz-Ares J, Aragoncillo C. Bacterial expression of an active class Ib chitinase from Castanea sativa cotyledons. Plant Mol Biol 1996; 32:1171-1176. [PMID: 9002617 DOI: 10.1007/bf00041402] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.3] [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
Ch3, an endochitinase of 32 kDa present in Castanea sativa cotyledons, showed in vitro antifungal properties when assayed against Trichoderma viride. The characterization of a cDNA clone corresponding to this protein indicated that Ch3 is a class Ib endochitinase that is synthesized as a preprotein with a signal sequence preceding the mature polypeptide. Bacterial expression of mature Ch3 fused to the leader peptide of the periplasmic protein ompT resulted in active Ch3 enzyme. A plate assay was adapted for semi-quantitative determination of chitinase activity secreted from cultured bacteria, which should facilitate the identification of mutants with altered capacity to hydrolyse chitin.
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Affiliation(s)
- I Allona
- Departamento de Biotecnología, E.T.S. Ingenieros de Montes, Ciudad Universitaria, Madrid, Spain
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