1
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Gao YQ, Huang JQ, Reyt G, Song T, Love A, Tiemessen D, Xue PY, Wu WK, George MW, Chen XY, Chao DY, Castrillo G, Salt DE. A dirigent protein complex directs lignin polymerization and assembly of the root diffusion barrier. Science 2023; 382:464-471. [PMID: 37883539 DOI: 10.1126/science.adi5032] [Citation(s) in RCA: 9] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2023] [Accepted: 09/07/2023] [Indexed: 10/28/2023]
Abstract
Functionally similar to the tight junctions present in animal guts, plant roots have evolved a lignified Casparian strip as an extracellular diffusion barrier in the endodermis to seal the root apoplast and maintain nutrient homeostasis. How this diffusion barrier is structured has been partially defined, but its lignin polymerization and assembly steps remain elusive. Here, we characterize a family of dirigent proteins (DPs) essential for both the localized polymerization of lignin required for Casparian strip biogenesis in the cell wall and for attachment of the strip to the plasma membrane to seal the apoplast. We reveal a Casparian strip lignification mechanism that requires cooperation between DPs and the Schengen pathway. Furthermore, we demonstrate that DPs directly mediate lignin polymerization as part of this mechanism.
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Affiliation(s)
- Yi-Qun Gao
- Future Food Beacon of Excellence & School of Biosciences, University of Nottingham, Sutton Bonington, UK
| | - Jin-Quan Huang
- National Key Laboratory of Plant Molecular Genetics, CAS Centre for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China
| | - Guilhem Reyt
- Future Food Beacon of Excellence & School of Biosciences, University of Nottingham, Sutton Bonington, UK
| | - Tao Song
- National Key Laboratory of Plant Molecular Genetics, CAS Centre for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Ashley Love
- School of Chemistry, University of Nottingham, Nottingham, UK
| | - David Tiemessen
- School of Chemistry, University of Nottingham, Nottingham, UK
| | - Pei-Ying Xue
- Future Food Beacon of Excellence & School of Biosciences, University of Nottingham, Sutton Bonington, UK
- State Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Farmland Eco-environment of Hebei Province, College of Resources and Environmental Sciences, Hebei Agricultural University, Hebei, Baoding 071000, China
| | - Wen-Kai Wu
- National Key Laboratory of Plant Molecular Genetics, CAS Centre for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | | | - Xiao-Ya Chen
- National Key Laboratory of Plant Molecular Genetics, CAS Centre for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Dai-Yin Chao
- National Key Laboratory of Plant Molecular Genetics, CAS Centre for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China
| | - Gabriel Castrillo
- Future Food Beacon of Excellence & School of Biosciences, University of Nottingham, Sutton Bonington, UK
| | - David E Salt
- Future Food Beacon of Excellence & School of Biosciences, University of Nottingham, Sutton Bonington, UK
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2
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González-García MP, Conesa CM, Lozano-Enguita A, Baca-González V, Simancas B, Navarro-Neila S, Sánchez-Bermúdez M, Salas-González I, Caro E, Castrillo G, Del Pozo JC. Temperature changes in the root ecosystem affect plant functionality. Plant Commun 2023; 4:100514. [PMID: 36585788 DOI: 10.1016/j.xplc.2022.100514] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/19/2022] [Revised: 12/22/2022] [Accepted: 12/29/2022] [Indexed: 05/11/2023]
Abstract
Climate change is increasing the frequency of extreme heat events that aggravate its negative impact on plant development and agricultural yield. Most experiments designed to study plant adaption to heat stress apply homogeneous high temperatures to both shoot and root. However, this treatment does not mimic the conditions in natural fields, where roots grow in a dark environment with a descending temperature gradient. Excessively high temperatures severely decrease cell division in the root meristem, compromising root growth, while increasing the division of quiescent center cells, likely in an attempt to maintain the stem cell niche under such harsh conditions. Here, we engineered the TGRooZ, a device that generates a temperature gradient for in vitro or greenhouse growth assays. The root systems of plants exposed to high shoot temperatures but cultivated in the TGRooZ grow efficiently and maintain their functionality to sustain proper shoot growth and development. Furthermore, gene expression and rhizosphere or root microbiome composition are significantly less affected in TGRooZ-grown roots than in high-temperature-grown roots, correlating with higher root functionality. Our data indicate that use of the TGRooZ in heat-stress studies can improve our knowledge of plant response to high temperatures, demonstrating its applicability from laboratory studies to the field.
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Affiliation(s)
- Mary Paz González-García
- Centro de Biotecnología y Genómica de Plantas (UPM-INIA/CSIC), Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria-CSIC (INIA/CSIC), Campus Montegancedo, 28223 Pozuelo de Alarcón (Madrid), Spain; Departamento de Biotecnología-Biología Vegetal, Escuela Técnica Superior de Ingeniería Agronómica, Alimentaria y de Biosistemas, Universidad Politécnica de Madrid (UPM), 28040 Madrid, Spain
| | - Carlos M Conesa
- Centro de Biotecnología y Genómica de Plantas (UPM-INIA/CSIC), Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria-CSIC (INIA/CSIC), Campus Montegancedo, 28223 Pozuelo de Alarcón (Madrid), Spain
| | - Alberto Lozano-Enguita
- Centro de Biotecnología y Genómica de Plantas (UPM-INIA/CSIC), Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria-CSIC (INIA/CSIC), Campus Montegancedo, 28223 Pozuelo de Alarcón (Madrid), Spain
| | - Victoria Baca-González
- Centro de Biotecnología y Genómica de Plantas (UPM-INIA/CSIC), Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria-CSIC (INIA/CSIC), Campus Montegancedo, 28223 Pozuelo de Alarcón (Madrid), Spain
| | - Bárbara Simancas
- Centro de Biotecnología y Genómica de Plantas (UPM-INIA/CSIC), Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria-CSIC (INIA/CSIC), Campus Montegancedo, 28223 Pozuelo de Alarcón (Madrid), Spain
| | - Sara Navarro-Neila
- Centro de Biotecnología y Genómica de Plantas (UPM-INIA/CSIC), Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria-CSIC (INIA/CSIC), Campus Montegancedo, 28223 Pozuelo de Alarcón (Madrid), Spain
| | - María Sánchez-Bermúdez
- Centro de Biotecnología y Genómica de Plantas (UPM-INIA/CSIC), Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria-CSIC (INIA/CSIC), Campus Montegancedo, 28223 Pozuelo de Alarcón (Madrid), Spain
| | - Isai Salas-González
- Undergraduate Program in Genomic Sciences, Center for Genomics Sciences, Universidad Nacional Autonóma de México, Av. Universidad s/n. Col. Chamilpa, Cuernavaca 62210, Morelos, México
| | - Elena Caro
- Centro de Biotecnología y Genómica de Plantas (UPM-INIA/CSIC), Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria-CSIC (INIA/CSIC), Campus Montegancedo, 28223 Pozuelo de Alarcón (Madrid), Spain; Departamento de Biotecnología-Biología Vegetal, Escuela Técnica Superior de Ingeniería Agronómica, Alimentaria y de Biosistemas, Universidad Politécnica de Madrid (UPM), 28040 Madrid, Spain
| | - Gabriel Castrillo
- Future Food Beacon of Excellence & School of Biosciences, University of Nottingham, Sutton Bonington, UK
| | - Juan C Del Pozo
- Centro de Biotecnología y Genómica de Plantas (UPM-INIA/CSIC), Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria-CSIC (INIA/CSIC), Campus Montegancedo, 28223 Pozuelo de Alarcón (Madrid), Spain.
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3
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Gonin M, Salas-González I, Gopaulchan D, Frene JP, Roden S, Van de Poel B, Salt DE, Castrillo G. Plant microbiota controls an alternative root branching regulatory mechanism in plants. Proc Natl Acad Sci U S A 2023; 120:e2301054120. [PMID: 37011213 PMCID: PMC10104509 DOI: 10.1073/pnas.2301054120] [Citation(s) in RCA: 9] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/05/2023] Open
Abstract
The establishment of beneficial interactions with microbes has helped plants to modulate root branching plasticity in response to environmental cues. However, how the plant microbiota harmonizes with plant roots to control their branching is unknown. Here, we show that the plant microbiota influences root branching in the model plant Arabidopsis thaliana. We define that the microbiota's ability to control some stages in root branching can be independent of the phytohormone auxin that directs lateral root development under axenic conditions. In addition, we revealed a microbiota-driven mechanism controlling lateral root development that requires the induction of ethylene response pathways. We show that the microbial effects on root branching can be relevant for plant responses to environmental stresses. Thus, we discovered a microbiota-driven regulatory pathway controlling root branching plasticity that could contribute to plant adaptation to different ecosystems.
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Affiliation(s)
- Mathieu Gonin
- School of Biosciences, University of Nottingham, LE12 5RD, United Kingdom
| | - Isai Salas-González
- Center for Genomics Sciences, Universidad Nacional Autónoma de México, 04510 Mexico City, Mexico
| | - David Gopaulchan
- School of Biosciences, University of Nottingham, LE12 5RD, United Kingdom
| | - Juan P Frene
- School of Biosciences, University of Nottingham, LE12 5RD, United Kingdom
- Future Food Beacon of Excellence, University of Nottingham, LE12 5RD, United Kingdom
| | - Stijn Roden
- Division of Crop Biotechnics, Department of Biosystems, KU Leuven, 3001 Leuven, Belgium
| | - Bram Van de Poel
- Division of Crop Biotechnics, Department of Biosystems, KU Leuven, 3001 Leuven, Belgium
- Leuven Plant Institute, KU Leuven, 3001 Leuven, Belgium
| | - David E Salt
- School of Biosciences, University of Nottingham, LE12 5RD, United Kingdom
- Future Food Beacon of Excellence, University of Nottingham, LE12 5RD, United Kingdom
| | - Gabriel Castrillo
- School of Biosciences, University of Nottingham, LE12 5RD, United Kingdom
- Future Food Beacon of Excellence, University of Nottingham, LE12 5RD, United Kingdom
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4
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Castrillo G, Carnicero A, Perera R. Submodelling approach to screw-to-bone interaction in additively manufactured subperiosteal implant structures. Int J Numer Method Biomed Eng 2023; 39:e3672. [PMID: 36541118 DOI: 10.1002/cnm.3672] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/01/2022] [Revised: 11/01/2022] [Accepted: 12/17/2022] [Indexed: 06/17/2023]
Abstract
Thanks to new digital technologies, complex cases of severe maxillary atrophy may now be treated with additively manufactured subperiosteal implant structures (AMSISs). However, there are few studies addressing this topic and most of them focus on the mechanical behaviour of the AMSIS itself without considering its interaction with the maxilla bone. The aim of this study is to provide a methodology based on finite element analysis (FEA) to evaluate the effect of interaction between the maxilla bone and the screws fixing the AMSIS. The mechanical performance of an AMSIS was examined via a FEA based on submodelling. Significant differences were encountered in displacements and reaction forces when bone-screw interaction was considered. Stress in the cortical layer was found to be close to the maximum strength while the trabecular layer seems to have no effect on the results; stresses in the AMSIS are lower than the fatigue stress limit. Finally, the comparison of stresses between models with and without osseointegration shows how stresses drop once osseointegration is complete. The proposed submodelling approach considerably reduces the computational effort and enables both a detailed model of the interaction between the thread of the screws and the bone and an accurate evaluation of displacement and stress fields on the interface. The results have shown that stresses in the cortical bone are highly affected by the initial geometry of the thread inside the bone, which demonstrates the importance of modelling the effect of the thread.
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Affiliation(s)
- Gabriel Castrillo
- Department of Mechanical Engineering, Technical University of Madrid, Madrid, Spain
| | - Alberto Carnicero
- Institute for Research in Technology, ETSI-ICAI, Comillas Pontifical University of Madrid, Madrid, Spain
| | - Ricardo Perera
- Department of Mechanical Engineering, Technical University of Madrid, Madrid, Spain
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5
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Eckardt NA, Ainsworth EA, Bahuguna RN, Broadley MR, Busch W, Carpita NC, Castrillo G, Chory J, DeHaan LR, Duarte CM, Henry A, Jagadish SVK, Langdale JA, Leakey ADB, Liao JC, Lu KJ, McCann MC, McKay JK, Odeny DA, Jorge de Oliveira E, Platten JD, Rabbi I, Rim EY, Ronald PC, Salt DE, Shigenaga AM, Wang E, Wolfe M, Zhang X. Climate change challenges, plant science solutions. Plant Cell 2023; 35:24-66. [PMID: 36222573 PMCID: PMC9806663 DOI: 10.1093/plcell/koac303] [Citation(s) in RCA: 31] [Impact Index Per Article: 31.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/21/2022] [Accepted: 09/29/2022] [Indexed: 06/16/2023]
Abstract
Climate change is a defining challenge of the 21st century, and this decade is a critical time for action to mitigate the worst effects on human populations and ecosystems. Plant science can play an important role in developing crops with enhanced resilience to harsh conditions (e.g. heat, drought, salt stress, flooding, disease outbreaks) and engineering efficient carbon-capturing and carbon-sequestering plants. Here, we present examples of research being conducted in these areas and discuss challenges and open questions as a call to action for the plant science community.
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Affiliation(s)
| | - Elizabeth A Ainsworth
- USDA ARS Global Change and Photosynthesis Research Unit, Urbana, Illinois 61801, USA
| | - Rajeev N Bahuguna
- Centre for Advanced Studies on Climate Change, Dr Rajendra Prasad Central Agricultural University, Samastipur 848125, Bihar, India
| | - Martin R Broadley
- School of Biosciences, University of Nottingham, Nottingham, NG7 2RD, UK
- Rothamsted Research, West Common, Harpenden, Hertfordshire, AL5 2JQ, UK
| | - Wolfgang Busch
- Plant Molecular and Cellular Biology Laboratory, Salk Institute for Biological Studies, La Jolla, California 92037, USA
| | - Nicholas C Carpita
- Biosciences Center, National Renewable Energy Laboratory, Golden, Colorado 80401, USA
| | - Gabriel Castrillo
- School of Biosciences, University of Nottingham, Nottingham, NG7 2RD, UK
- Future Food Beacon of Excellence, University of Nottingham, Nottingham, NG7 2RD, UK
| | - Joanne Chory
- Plant Molecular and Cellular Biology Laboratory, Salk Institute for Biological Studies, La Jolla, California 92037, USA
- Howard Hughes Medical Institute, Salk Institute for Biological Studies, La Jolla, California 92037, USA
| | | | - Carlos M Duarte
- Red Sea Research Center (RSRC) and Computational Bioscience Research Center, King Abdullah University of Science and Technology (KAUST), Thuwal, 23955-6900, Saudi Arabia
| | - Amelia Henry
- International Rice Research Institute, Rice Breeding Innovations Platform, Los Baños, Laguna 4031, Philippines
| | - S V Krishna Jagadish
- Department of Plant and Soil Science, Texas Tech University, Lubbock, Texas 79410, USA
| | - Jane A Langdale
- Department of Biology, University of Oxford, Oxford, OX1 3RB, UK
| | - Andrew D B Leakey
- Department of Plant Biology, Department of Crop Sciences, and Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Illinois 61801, USA
| | - James C Liao
- Institute of Biological Chemistry, Academia Sinica, Taipei 11528, Taiwan
| | - Kuan-Jen Lu
- Institute of Biological Chemistry, Academia Sinica, Taipei 11528, Taiwan
| | - Maureen C McCann
- Biosciences Center, National Renewable Energy Laboratory, Golden, Colorado 80401, USA
| | - John K McKay
- Department of Agricultural Biology, Colorado State University, Fort Collins, Colorado 80523, USA
| | - Damaris A Odeny
- The International Crops Research Institute for the Semi-Arid Tropics–Eastern and Southern Africa, Gigiri 39063-00623, Nairobi, Kenya
| | | | - J Damien Platten
- International Rice Research Institute, Rice Breeding Innovations Platform, Los Baños, Laguna 4031, Philippines
| | - Ismail Rabbi
- International Institute of Tropical Agriculture (IITA), PMB 5320 Ibadan, Oyo, Nigeria
| | - Ellen Youngsoo Rim
- Department of Plant Pathology and the Genome Center, University of California, Davis, California 95616, USA
| | - Pamela C Ronald
- Department of Plant Pathology and the Genome Center, University of California, Davis, California 95616, USA
- Innovative Genomics Institute, Berkeley, California 94704, USA
| | - David E Salt
- School of Biosciences, University of Nottingham, Nottingham, NG7 2RD, UK
- Future Food Beacon of Excellence, University of Nottingham, Nottingham, NG7 2RD, UK
| | - Alexandra M Shigenaga
- Department of Plant Pathology and the Genome Center, University of California, Davis, California 95616, USA
| | - Ertao Wang
- National Key Laboratory of Plant Molecular Genetics, Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200032, China
| | - Marnin Wolfe
- Auburn University, Dept. of Crop Soil and Environmental Sciences, College of Agriculture, Auburn, Alabama 36849, USA
| | - Xiaowei Zhang
- National Key Laboratory of Plant Molecular Genetics, Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200032, 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 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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7
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Custódio V, Gonin M, Stabl G, Bakhoum N, Oliveira MM, Gutjahr C, Castrillo G. Sculpting the soil microbiota. Plant J 2022; 109:508-522. [PMID: 34743401 DOI: 10.1111/tpj.15568] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/18/2021] [Revised: 10/20/2021] [Accepted: 11/01/2021] [Indexed: 06/13/2023]
Abstract
Soil is a living ecosystem, the health of which depends on fine interactions among its abiotic and biotic components. These form a delicate equilibrium maintained through a multilayer network that absorbs certain perturbations and guarantees soil functioning. Deciphering the principles governing the interactions within soils is of critical importance for their management and conservation. Here, we focus on soil microbiota and discuss the complexity of interactions that impact the composition and function of soil microbiota and their interaction with plants. We discuss how physical aspects of soils influence microbiota composition and how microbiota-plant interactions support plant growth and responses to nutrient deficiencies. We predict that understanding the principles determining the configuration and functioning of soil microbiota will contribute to the design of microbiota-based strategies to preserve natural resources and develop more environmentally friendly agricultural practices.
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Affiliation(s)
- Valéria Custódio
- Future Food Beacon of Excellence, School of Biosciences, University of Nottingham, Sutton Bonington, Nottingham, UK
| | - Mathieu Gonin
- Future Food Beacon of Excellence, School of Biosciences, University of Nottingham, Sutton Bonington, Nottingham, UK
| | - Georg Stabl
- Plant Genetics, TUM School of Life Sciences, Technical University of Munich (TUM), Emil Ramann Str. 4, Freising, 85354, Germany
| | - Niokhor Bakhoum
- Future Food Beacon of Excellence, School of Biosciences, University of Nottingham, Sutton Bonington, Nottingham, UK
| | - Maria Margarida Oliveira
- Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa, Av. da República, Oeiras, 2780-157, Portugal
| | - Caroline Gutjahr
- Plant Genetics, TUM School of Life Sciences, Technical University of Munich (TUM), Emil Ramann Str. 4, Freising, 85354, Germany
| | - Gabriel Castrillo
- Future Food Beacon of Excellence, School of Biosciences, University of Nottingham, Sutton Bonington, Nottingham, UK
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8
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Dindas J, DeFalco TA, Yu G, Zhang L, David P, Bjornson M, Thibaud MC, Custódio V, Castrillo G, Nussaume L, Macho AP, Zipfel C. Direct inhibition of phosphate transport by immune signaling in Arabidopsis. Curr Biol 2021; 32:488-495.e5. [PMID: 34919806 PMCID: PMC8791604 DOI: 10.1016/j.cub.2021.11.063] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2021] [Revised: 10/21/2021] [Accepted: 11/25/2021] [Indexed: 01/04/2023]
Abstract
Soil availability of inorganic ortho-phosphate (PO43-, Pi) is a key determinant of plant growth and fitness.1 Plants regulate the capacity of their roots to take up inorganic phosphate by adapting the abundance of H+-coupled phosphate transporters of the PHOSPHATE TRANSPORTER 1 (PHT1) family2 at the plasma membrane (PM) through transcriptional and post-translational changes driven by the genetic network of the phosphate starvation response (PSR).3-8 Increasing evidence also shows that plants integrate immune responses to alleviate phosphate starvation stress through the association with beneficial microbes.9-11 Whether and how such phosphate transport is regulated upon activation of immune responses is yet uncharacterized. To address this question, we first developed quantitative assays based on changes in the electrical PM potential to measure active Pi transport in roots in real time. By inserting micro-electrodes into bulging root hairs, we were able to determine key characteristics of phosphate transport in intact Arabidopsis thaliana (hereafter Arabidopsis) seedlings. The fast Pi-induced depolarization observed was dependent on the activity of the major phosphate transporter PHT1;4. Notably, we observed that this PHT1;4-mediated phosphate uptake is repressed upon activation of pattern-triggered immunity. This inhibition depended on the receptor-like cytoplasmic kinases BOTRYTIS-INDUCED KINASE 1 (BIK1) and PBS1-LIKE KINASE 1 (PBL1), which both phosphorylated PHT1;4. As a corollary to this negative regulation of phosphate transport by immune signaling, we found that PHT1;4-mediated phosphate uptake normally negatively regulates anti-bacterial immunity in roots. Collectively, our results reveal a mechanism linking plant immunity and phosphate homeostasis, with BIK1/PBL1 providing a molecular integration point between these two important pathways.
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Affiliation(s)
- Julian Dindas
- Institute of Plant and Microbial Biology and Zürich-Basel Plant Science Center, University of Zürich, Zürich, Switzerland
| | - Thomas A DeFalco
- Institute of Plant and Microbial Biology and Zürich-Basel Plant Science Center, University of Zürich, Zürich, Switzerland; The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich, UK
| | - Gang Yu
- Laboratory of Molecular Plant-Bacteria Interactions, Shanghai Center for Plant Stress Biology, Center for Excellence in Molecular Plant Sciences, Chinese Academy of Science, Shanghai, China
| | - Lu Zhang
- Laboratory of Molecular Plant-Bacteria Interactions, Shanghai Center for Plant Stress Biology, Center for Excellence in Molecular Plant Sciences, Chinese Academy of Science, Shanghai, China
| | - Pascale David
- Aix-Marseille Université, CEA, CNRS, BIAM, UMR7265, SAVE (Signalisation pour l'Adaptation des Végétaux à leur Environnement), Saint-Paul-lez-Durance, France
| | - Marta Bjornson
- Institute of Plant and Microbial Biology and Zürich-Basel Plant Science Center, University of Zürich, Zürich, Switzerland
| | - Marie-Christine Thibaud
- Aix-Marseille Université, CEA, CNRS, BIAM, UMR7265, SAVE (Signalisation pour l'Adaptation des Végétaux à leur Environnement), Saint-Paul-lez-Durance, France
| | - Valéria Custódio
- Future Food Beacon of Excellence & School of Biosciences, University of Nottingham, Sutton Bonington, UK
| | - Gabriel Castrillo
- Future Food Beacon of Excellence & School of Biosciences, University of Nottingham, Sutton Bonington, UK
| | - Laurent Nussaume
- Aix-Marseille Université, CEA, CNRS, BIAM, UMR7265, SAVE (Signalisation pour l'Adaptation des Végétaux à leur Environnement), Saint-Paul-lez-Durance, France
| | - Alberto P Macho
- Laboratory of Molecular Plant-Bacteria Interactions, Shanghai Center for Plant Stress Biology, Center for Excellence in Molecular Plant Sciences, Chinese Academy of Science, Shanghai, China
| | - Cyril Zipfel
- Institute of Plant and Microbial Biology and Zürich-Basel Plant Science Center, University of Zürich, Zürich, Switzerland; The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich, UK.
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9
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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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10
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Teixeira PJPL, Colaianni NR, Law TF, Conway JM, Gilbert S, Li H, Salas-González I, Panda D, Del Risco NM, Finkel OM, Castrillo G, Mieczkowski P, Jones CD, Dangl JL. Specific modulation of the root immune system by a community of commensal bacteria. Proc Natl Acad Sci U S A 2021; 118:e2100678118. [PMID: 33879573 PMCID: PMC8072228 DOI: 10.1073/pnas.2100678118] [Citation(s) in RCA: 54] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022] Open
Abstract
Plants have an innate immune system to fight off potential invaders that is based on the perception of nonself or modified-self molecules. Microbe-associated molecular patterns (MAMPs) are evolutionarily conserved microbial molecules whose extracellular detection by specific cell surface receptors initiates an array of biochemical responses collectively known as MAMP-triggered immunity (MTI). Well-characterized MAMPs include chitin, peptidoglycan, and flg22, a 22-amino acid epitope found in the major building block of the bacterial flagellum, FliC. The importance of MAMP detection by the plant immune system is underscored by the large diversity of strategies used by pathogens to interfere with MTI and that failure to do so is often associated with loss of virulence. Yet, whether or how MTI functions beyond pathogenic interactions is not well understood. Here we demonstrate that a community of root commensal bacteria modulates a specific and evolutionarily conserved sector of the Arabidopsis immune system. We identify a set of robust, taxonomically diverse MTI suppressor strains that are efficient root colonizers and, notably, can enhance the colonization capacity of other tested commensal bacteria. We highlight the importance of extracellular strategies for MTI suppression by showing that the type 2, not the type 3, secretion system is required for the immunomodulatory activity of one robust MTI suppressor. Our findings reveal that root colonization by commensals is controlled by MTI, which, in turn, can be selectively modulated by specific members of a representative bacterial root microbiota.
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Affiliation(s)
- Paulo J P L Teixeira
- HHMI, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
| | - Nicholas R Colaianni
- HHMI, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
- Curriculum in Bioinformatics and Computational Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
| | - Theresa F Law
- HHMI, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
| | - Jonathan M Conway
- HHMI, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
| | - Sarah Gilbert
- HHMI, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
| | - Haofan Li
- Department of Biology, Kenyon College, Gambier, OH 43022
| | - Isai Salas-González
- HHMI, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
- Curriculum in Bioinformatics and Computational Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
| | - Darshana Panda
- HHMI, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
| | - Nicole M Del Risco
- HHMI, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
| | - Omri M Finkel
- HHMI, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
| | - Gabriel Castrillo
- HHMI, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
| | - Piotr Mieczkowski
- Department of Genetics, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
- Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
| | - Corbin D Jones
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
- Curriculum in Bioinformatics and Computational Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
- Department of Genetics, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
- Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
- Curriculum in Genetics and Molecular Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
| | - Jeffery L Dangl
- HHMI, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599;
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
- Curriculum in Bioinformatics and Computational Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
- Curriculum in Genetics and Molecular Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
- Department of Microbiology and Immunology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599
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11
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Salas-González I, Reyt G, Flis P, Custódio V, Gopaulchan D, Bakhoum N, Dew TP, Suresh K, Franke RB, Dangl JL, Salt DE, Castrillo G. Coordination between microbiota and root endodermis supports plant mineral nutrient homeostasis. Science 2021; 371:science.abd0695. [DOI: 10.1126/science.abd0695] [Citation(s) in RCA: 59] [Impact Index Per Article: 19.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2020] [Accepted: 11/02/2020] [Indexed: 12/15/2022]
Affiliation(s)
- Isai Salas-González
- Curriculum in Bioinformatics and Computational Biology, Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Guilhem Reyt
- School of Biosciences, University of Nottingham, Sutton Bonington, UK
- Future Food Beacon of Excellence, University of Nottingham, Sutton Bonington, UK
| | - Paulina Flis
- School of Biosciences, University of Nottingham, Sutton Bonington, UK
- Future Food Beacon of Excellence, University of Nottingham, Sutton Bonington, UK
| | - Valéria Custódio
- Instituto de Tecnologia Química e Biológica António Xavier, Universidad de Nova de Lisboa, Lisboa, Portugal
| | - David Gopaulchan
- School of Biosciences, University of Nottingham, Sutton Bonington, UK
- Future Food Beacon of Excellence, University of Nottingham, Sutton Bonington, UK
| | - Niokhor Bakhoum
- School of Biosciences, University of Nottingham, Sutton Bonington, UK
- Future Food Beacon of Excellence, University of Nottingham, Sutton Bonington, UK
| | - Tristan P. Dew
- School of Biosciences, University of Nottingham, Sutton Bonington, UK
- Future Food Beacon of Excellence, University of Nottingham, Sutton Bonington, UK
| | - Kiran Suresh
- Institute of Cellular and Molecular Botany, University of Bonn, Bonn, Germany
| | - Rochus Benni Franke
- Institute of Cellular and Molecular Botany, University of Bonn, Bonn, Germany
| | - Jeffery L. Dangl
- Curriculum in Bioinformatics and Computational Biology, Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - David E. Salt
- School of Biosciences, University of Nottingham, Sutton Bonington, UK
- Future Food Beacon of Excellence, University of Nottingham, Sutton Bonington, UK
| | - Gabriel Castrillo
- School of Biosciences, University of Nottingham, Sutton Bonington, UK
- Future Food Beacon of Excellence, University of Nottingham, Sutton Bonington, UK
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12
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Finkel OM, Salas-González I, Castrillo G, Conway JM, Law TF, Teixeira PJPL, Wilson ED, Fitzpatrick CR, Jones CD, Dangl JL. A single bacterial genus maintains root growth in a complex microbiome. Nature 2020. [PMID: 32999461 DOI: 10.1101/645655] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [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: 05/12/2023]
Abstract
Plants grow within a complex web of species that interact with each other and with the plant1-10. These interactions are governed by a wide repertoire of chemical signals, and the resulting chemical landscape of the rhizosphere can strongly affect root health and development7-9,11-18. Here, to understand how interactions between microorganisms influence root growth in Arabidopsis, we established a model system for interactions between plants, microorganisms and the environment. We inoculated seedlings with a 185-member bacterial synthetic community, manipulated the abiotic environment and measured bacterial colonization of the plant. This enabled us to classify the synthetic community into four modules of co-occurring strains. We deconstructed the synthetic community on the basis of these modules, and identified interactions between microorganisms that determine root phenotype. These interactions primarily involve a single bacterial genus (Variovorax), which completely reverses the severe inhibition of root growth that is induced by a wide diversity of bacterial strains as well as by the entire 185-member community. We demonstrate that Variovorax manipulates plant hormone levels to balance the effects of our ecologically realistic synthetic root community on root growth. We identify an auxin-degradation operon that is conserved in all available genomes of Variovorax and is necessary and sufficient for the reversion of root growth inhibition. Therefore, metabolic signal interference shapes bacteria-plant communication networks and is essential for maintaining the stereotypic developmental programme of the root. Optimizing the feedbacks that shape chemical interaction networks in the rhizosphere provides a promising ecological strategy for developing more resilient and productive crops.
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Affiliation(s)
- Omri M Finkel
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Department of Plant and Environmental Sciences, Institute of Life Science, The Hebrew University of Jerusalem, Jerusalem, Israel
| | - Isai Salas-González
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Curriculum in Bioinformatics and Computational Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Gabriel Castrillo
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Future Food Beacon of Excellence, School of Biosciences, University of Nottingham, Sutton Bonington, UK
| | - Jonathan M Conway
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Theresa F Law
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Paulo José Pereira Lima Teixeira
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Department of Biology, 'Luiz de Queiroz' College of Agriculture (ESALQ), University of São Paulo (USP), Piracicaba, Brazil
| | - Ellie D Wilson
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Connor R Fitzpatrick
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Corbin D Jones
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Curriculum in Bioinformatics and Computational Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Department of Genetics, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Carolina Center for Genome Sciences, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Curriculum in Genetics and Molecular Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Jeffery L Dangl
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
- Curriculum in Bioinformatics and Computational Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
- Carolina Center for Genome Sciences, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
- Curriculum in Genetics and Molecular Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
- Department of Microbiology and Immunology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
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13
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Reyt G, Chao Z, Flis P, Salas-González I, Castrillo G, Chao DY, Salt DE. Uclacyanin Proteins Are Required for Lignified Nanodomain Formation within Casparian Strips. Curr Biol 2020; 30:4103-4111.e6. [PMID: 32857976 PMCID: PMC7575197 DOI: 10.1016/j.cub.2020.07.095] [Citation(s) in RCA: 25] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2020] [Revised: 07/14/2020] [Accepted: 07/28/2020] [Indexed: 01/09/2023]
Abstract
Casparian strips (CSs) are cell wall modifications of vascular plants restricting extracellular free diffusion into and out of the vascular system [1]. This barrier plays a critical role in controlling the acquisition of nutrients and water necessary for normal plant development [2-5]. CSs are formed by the precise deposition of a band of lignin approximately 2 μm wide and 150 nm thick spanning the apoplastic space between adjacent endodermal cells [6, 7]. Here, we identified a copper-containing protein, Uclacyanin1 (UCC1), that is sub-compartmentalized within the CS. UCC1 forms a central CS nanodomain in comparison with other CS-located proteins that are found to be mainly accumulated at the periphery of the CS. We found that loss-of-function of two uclacyanins (UCC1 and UCC2) reduces lignification specifically in this central CS nanodomain, revealing a nano-compartmentalized machinery for lignin polymerization. This loss of lignification leads to increased endodermal permeability and, consequently, to a loss of mineral nutrient homeostasis.
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Affiliation(s)
- Guilhem Reyt
- Future Food Beacon of Excellence & School of Biosciences, University of Nottingham, Nottingham LE12 5RD, UK
| | - Zhenfei Chao
- National Key Laboratory of Plant Molecular Genetics, Chinese Academy of Sciences, Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
| | - Paulina Flis
- Future Food Beacon of Excellence & School of Biosciences, University of Nottingham, Nottingham LE12 5RD, UK
| | - Isai Salas-González
- Curriculum in Bioinformatics and Computational Biology, Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA; Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Gabriel Castrillo
- Future Food Beacon of Excellence & School of Biosciences, University of Nottingham, Nottingham LE12 5RD, UK
| | - Dai-Yin Chao
- National Key Laboratory of Plant Molecular Genetics, Chinese Academy of Sciences, Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
| | - David E Salt
- Future Food Beacon of Excellence & School of Biosciences, University of Nottingham, Nottingham LE12 5RD, UK.
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14
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Finkel OM, Salas-González I, Castrillo G, Conway JM, Law TF, Teixeira PJPL, Wilson ED, Fitzpatrick CR, Jones CD, Dangl JL. A single bacterial genus maintains root growth in a complex microbiome. Nature 2020; 587:103-108. [PMID: 32999461 DOI: 10.1038/s41586-020-2778-7] [Citation(s) in RCA: 145] [Impact Index Per Article: 36.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2020] [Accepted: 07/03/2020] [Indexed: 12/17/2022]
Abstract
Plants grow within a complex web of species that interact with each other and with the plant1-10. These interactions are governed by a wide repertoire of chemical signals, and the resulting chemical landscape of the rhizosphere can strongly affect root health and development7-9,11-18. Here, to understand how interactions between microorganisms influence root growth in Arabidopsis, we established a model system for interactions between plants, microorganisms and the environment. We inoculated seedlings with a 185-member bacterial synthetic community, manipulated the abiotic environment and measured bacterial colonization of the plant. This enabled us to classify the synthetic community into four modules of co-occurring strains. We deconstructed the synthetic community on the basis of these modules, and identified interactions between microorganisms that determine root phenotype. These interactions primarily involve a single bacterial genus (Variovorax), which completely reverses the severe inhibition of root growth that is induced by a wide diversity of bacterial strains as well as by the entire 185-member community. We demonstrate that Variovorax manipulates plant hormone levels to balance the effects of our ecologically realistic synthetic root community on root growth. We identify an auxin-degradation operon that is conserved in all available genomes of Variovorax and is necessary and sufficient for the reversion of root growth inhibition. Therefore, metabolic signal interference shapes bacteria-plant communication networks and is essential for maintaining the stereotypic developmental programme of the root. Optimizing the feedbacks that shape chemical interaction networks in the rhizosphere provides a promising ecological strategy for developing more resilient and productive crops.
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Affiliation(s)
- Omri M Finkel
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.,Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.,Department of Plant and Environmental Sciences, Institute of Life Science, The Hebrew University of Jerusalem, Jerusalem, Israel
| | - Isai Salas-González
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.,Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.,Curriculum in Bioinformatics and Computational Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Gabriel Castrillo
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.,Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.,Future Food Beacon of Excellence, School of Biosciences, University of Nottingham, Sutton Bonington, UK
| | - Jonathan M Conway
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.,Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Theresa F Law
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.,Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Paulo José Pereira Lima Teixeira
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.,Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.,Department of Biology, 'Luiz de Queiroz' College of Agriculture (ESALQ), University of São Paulo (USP), Piracicaba, Brazil
| | - Ellie D Wilson
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.,Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Connor R Fitzpatrick
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.,Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Corbin D Jones
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.,Curriculum in Bioinformatics and Computational Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.,Department of Genetics, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.,Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.,Carolina Center for Genome Sciences, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.,Curriculum in Genetics and Molecular Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Jeffery L Dangl
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA. .,Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA. .,Curriculum in Bioinformatics and Computational Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA. .,Carolina Center for Genome Sciences, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA. .,Curriculum in Genetics and Molecular Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA. .,Department of Microbiology and Immunology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
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15
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de la Fuente Cantó C, Simonin M, King E, Moulin L, Bennett MJ, Castrillo G, Laplaze L. An extended root phenotype: the rhizosphere, its formation and impacts on plant fitness. Plant J 2020; 103:951-964. [PMID: 32324287 DOI: 10.1111/tpj.14781] [Citation(s) in RCA: 84] [Impact Index Per Article: 21.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/31/2019] [Revised: 04/03/2020] [Accepted: 04/09/2020] [Indexed: 05/13/2023]
Abstract
Plants forage soil for water and nutrients, whose distribution is patchy and often dynamic. To improve their foraging activities, plants have evolved mechanisms to modify the physicochemical properties and microbial communities of the rhizosphere, i.e. the soil compartment under the influence of the roots. This dynamic interplay in root-soil-microbiome interactions creates emerging properties that impact plant nutrition and health. As a consequence, the rhizosphere can be considered an extended root phenotype, a manifestation of the effects of plant genes on their environment inside and/or outside of the organism. Here, we review current understanding of how plants shape the rhizosphere and the benefits it confers to plant fitness. We discuss future research challenges and how applying their solutions in crops will enable us to harvest the benefits of the extended root phenotype.
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Affiliation(s)
- Carla de la Fuente Cantó
- UMR DIADE, Université de Montpellier, Institut de Recherche pour le Développement (IRD), Montpellier, France
| | - Marie Simonin
- UMR DIADE, Université de Montpellier, Institut de Recherche pour le Développement (IRD), Montpellier, France
- UMR IPME, IRD, Cirad, Université de Montpellier, Montpellier, France
- IRHS-UMR1345, Université d'Angers, INRAE, Institut Agro, SFR 4207 QuaSaV, 49071, Beaucouzé, France
| | - Eoghan King
- UMR IPME, IRD, Cirad, Université de Montpellier, Montpellier, France
| | - Lionel Moulin
- UMR IPME, IRD, Cirad, Université de Montpellier, Montpellier, France
| | - Malcolm J Bennett
- Future Food Beacon of Excellence, School of Biosciences, University of Nottingham, Sutton Bonington, UK
| | - Gabriel Castrillo
- Future Food Beacon of Excellence, School of Biosciences, University of Nottingham, Sutton Bonington, UK
| | - Laurent Laplaze
- UMR DIADE, Université de Montpellier, Institut de Recherche pour le Développement (IRD), Montpellier, France
- Laboratoire Mixte International Adaptation des Plantes et Microorganismes Associés aux Stress Environnementaux (LAPSE), Dakar, Senegal
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16
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Finkel OM, Salas-González I, Castrillo G, Spaepen S, Law TF, Teixeira PJPL, Jones CD, Dangl JL. The effects of soil phosphorus content on plant microbiota are driven by the plant phosphate starvation response. PLoS Biol 2019; 17:e3000534. [PMID: 31721759 PMCID: PMC6876890 DOI: 10.1371/journal.pbio.3000534] [Citation(s) in RCA: 84] [Impact Index Per Article: 16.8] [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: 04/17/2019] [Revised: 11/25/2019] [Accepted: 10/24/2019] [Indexed: 12/19/2022] Open
Abstract
Phosphate starvation response (PSR) in nonmycorrhizal plants comprises transcriptional reprogramming resulting in severe physiological changes to the roots and shoots and repression of plant immunity. Thus, plant-colonizing microorganisms-the plant microbiota-are exposed to direct influence by the soil's phosphorus (P) content itself as well as to the indirect effects of soil P on the microbial niches shaped by the plant. The individual contribution of these factors to plant microbiota assembly remains unknown. To disentangle these direct and indirect effects, we planted PSR-deficient Arabidopsis mutants in a long-term managed soil P gradient and compared the composition of their shoot and root microbiota to wild-type plants across different P concentrations. PSR-deficiency had a larger effect on the composition of both bacterial and fungal plant-associated microbiota than soil P concentrations in both roots and shoots. To dissect plant-microbe interactions under variable P conditions, we conducted a microbiota reconstitution experiment. Using a 185-member bacterial synthetic community (SynCom) across a wide P concentration gradient in an agar matrix, we demonstrated a shift in the effect of bacteria on the plant from a neutral or positive interaction to a negative one, as measured by rosette size. This phenotypic shift was accompanied by changes in microbiota composition: the genus Burkholderia was specifically enriched in plant tissue under P starvation. Through a community drop-out experiment, we demonstrated that in the absence of Burkholderia from the SynCom, plant shoots accumulated higher ortophosphate (Pi) levels than shoots colonized with the full SynCom but only under Pi starvation conditions. Therefore, Pi-stressed plants are susceptible to colonization by latent opportunistic competitors found within their microbiome, thus exacerbating the plant's Pi starvation.
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Affiliation(s)
- Omri M. Finkel
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
| | - Isai Salas-González
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Curriculum in Bioinformatics and Computational Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
| | - Gabriel Castrillo
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
| | - Stijn Spaepen
- Department Plant Microbe Interactions, Max Planck Institute for Plant Breeding Research, Köln, Germany
| | - Theresa F. Law
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
| | - Paulo José Pereira Lima Teixeira
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
| | - Corbin D. Jones
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Curriculum in Bioinformatics and Computational Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Department of Genetics, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Carolina Center for Genome Sciences, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Curriculum in Genetics and Molecular Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
| | - Jeffery L. Dangl
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Curriculum in Bioinformatics and Computational Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Carolina Center for Genome Sciences, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Curriculum in Genetics and Molecular Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Department of Microbiology and Immunology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
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17
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Herrera Paredes S, Gao T, Law TF, Finkel OM, Mucyn T, Teixeira PJPL, Salas González I, Feltcher ME, Powers MJ, Shank EA, Jones CD, Jojic V, Dangl JL, Castrillo G. Design of synthetic bacterial communities for predictable plant phenotypes. PLoS Biol 2018; 16:e2003962. [PMID: 29462153 PMCID: PMC5819758 DOI: 10.1371/journal.pbio.2003962] [Citation(s) in RCA: 108] [Impact Index Per Article: 18.0] [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: 08/15/2017] [Accepted: 01/17/2018] [Indexed: 01/01/2023] Open
Abstract
Specific members of complex microbiota can influence host phenotypes, depending on both the abiotic environment and the presence of other microorganisms. Therefore, it is challenging to define bacterial combinations that have predictable host phenotypic outputs. We demonstrate that plant-bacterium binary-association assays inform the design of small synthetic communities with predictable phenotypes in the host. Specifically, we constructed synthetic communities that modified phosphate accumulation in the shoot and induced phosphate starvation-responsive genes in a predictable fashion. We found that bacterial colonization of the plant is not a predictor of the plant phenotypes we analyzed. Finally, we demonstrated that characterizing a subset of all possible bacterial synthetic communities is sufficient to predict the outcome of untested bacterial consortia. Our results demonstrate that it is possible to infer causal relationships between microbiota membership and host phenotypes and to use these inferences to rationally design novel communities.
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Affiliation(s)
- Sur Herrera Paredes
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Curriculum in Bioinformatics and Computational Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
| | - Tianxiang Gao
- Department of Computer Science, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
| | - Theresa F. Law
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
| | - Omri M. Finkel
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
| | - Tatiana Mucyn
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
| | - Paulo José Pereira Lima Teixeira
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
| | - Isaí Salas González
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
| | - Meghan E. Feltcher
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
| | - Matthew J. Powers
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
| | - Elizabeth A. Shank
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
| | - Corbin D. Jones
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Curriculum in Bioinformatics and Computational Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Department of Genetics, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Carolina Center for Genome Sciences, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Curriculum in Genetics and Molecular Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
| | - Vladimir Jojic
- Department of Computer Science, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
| | - Jeffery L. Dangl
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Curriculum in Bioinformatics and Computational Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Carolina Center for Genome Sciences, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Curriculum in Genetics and Molecular Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Department of Microbiology and Immunology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
| | - Gabriel Castrillo
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
- Howard Hughes Medical Institute, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
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18
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Finkel OM, Castrillo G, Herrera Paredes S, Salas González I, Dangl JL. Understanding and exploiting plant beneficial microbes. Curr Opin Plant Biol 2017; 38:155-163. [PMID: 28622659 PMCID: PMC5561662 DOI: 10.1016/j.pbi.2017.04.018] [Citation(s) in RCA: 275] [Impact Index Per Article: 39.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/08/2017] [Accepted: 04/25/2017] [Indexed: 05/18/2023]
Abstract
After a century of incremental research, technological advances, coupled with a need for sustainable crop yield increases, have reinvigorated the study of beneficial plant-microbe interactions with attention focused on how microbiomes alter plant phenotypes. We review recent advances in plant microbiome research, and describe potential applications for increasing crop productivity. The phylogenetic diversity of plant microbiomes is increasingly well characterized, and their functional diversity is becoming more accessible. Large culture collections are available for controlled experimentation, with more to come. Genetic resources are being brought to bear on questions of microbiome function. We expect that microbial amendments of varying complexities will expose rules governing beneficial plant-microbe interactions contributing to plant growth promotion and disease resistance, enabling more sustainable agriculture.
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Affiliation(s)
- Omri M Finkel
- Department of Biology, University of North Carolina, Chapel Hill, NC 27599-3280, USA; Howard Hughes Medical Institute, University of North Carolina, Chapel Hill, NC 27599-3280, USA.
| | - Gabriel Castrillo
- Department of Biology, University of North Carolina, Chapel Hill, NC 27599-3280, USA; Howard Hughes Medical Institute, University of North Carolina, Chapel Hill, NC 27599-3280, USA
| | - Sur Herrera Paredes
- Department of Biology, University of North Carolina, Chapel Hill, NC 27599-3280, USA; Howard Hughes Medical Institute, University of North Carolina, Chapel Hill, NC 27599-3280, USA; Curriculum in Bioinformatics and Computational Biology, University of North Carolina, Chapel Hill, NC 27599-3280, USA
| | - Isai Salas González
- Department of Biology, University of North Carolina, Chapel Hill, NC 27599-3280, USA; Howard Hughes Medical Institute, University of North Carolina, Chapel Hill, NC 27599-3280, USA; Curriculum in Bioinformatics and Computational Biology, University of North Carolina, Chapel Hill, NC 27599-3280, USA
| | - Jeffery L Dangl
- Department of Biology, University of North Carolina, Chapel Hill, NC 27599-3280, USA; Howard Hughes Medical Institute, University of North Carolina, Chapel Hill, NC 27599-3280, USA; Curriculum in Bioinformatics and Computational Biology, University of North Carolina, Chapel Hill, NC 27599-3280, USA; Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, NC 27599-3280, USA; Curriculum in Genetics and Molecular Biology, University of North Carolina, Chapel Hill, NC 27599-3280, USA; Department of Microbiology and Immunology, University of North Carolina, Chapel Hill, NC 27599-3280, USA
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19
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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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20
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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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21
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TC M, Castrillo G, Leyva A. Determination of Luciferase Activity in Arabidopsis seedling. Bio Protoc 2014. [DOI: 10.21769/bioprotoc.1160] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022] Open
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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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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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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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Ramos PL, Fuentes AD, Quintana Q, Castrillo G, Guevara-González RG, Peral R, Rivera-Bustamante RF, Pujol M. Identification of the minimal sequence required for vascular-specific activity of Tomato mottle Taino virus Replication-associated protein promoter in transgenic plants. Virus Res 2004; 102:125-32. [PMID: 15084394 DOI: 10.1016/j.virusres.2004.01.027] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [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: 07/23/2003] [Revised: 01/19/2004] [Accepted: 01/19/2004] [Indexed: 11/17/2022]
Abstract
A 597 nt fragment from Tomato mottle Taino virus (ToMoTV) DNA-A, with 459 nt located upstream of the Replication-associated protein translation start codon, was tested for promoter activity in solanaceous plants. The promoter activity of this fragment (pRep(459::Rep)) was demonstrated when it was introduced upstream the uidA reporter gene into tobacco, potato and tomato plants by genetic transformation. It became active in 7-day-old transgenic tobacco seedlings as revealed by a vascular-specific pattern of gene expression which was maintained during the continued growth of the plant. Transformed potato and tomato plants also showed a vascular-specific pattern of expression. In comparative assays, pRep(459::Rep) showed an expression activity 10-40-fold less than the 35S promoter from Cauliflower mosaic virus. To delimit the minimal cis-acting elements necessary for vascular specificity of this promoter, a set of PCR deletion mutants of pRep(459::Rep) (pRep(459), pRep(324), pRep(203), pRep(145), pRep(132) and pRep(115)), were generated and used to transform tobacco plants. Transgenic tobacco plants belonging to all the pRep versions were blue stained in the vascular system except those from the pRep(115) version. The results described in this report demonstrate that the minimal sequences necessary for the pRep promoter activity are confined in a segment of 132 nts (located between the nts 2454 and 2585 of the ToMoTV DNA A) and that this promoter harbors those elements sufficient for vascular-specific expression.
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Affiliation(s)
- P L Ramos
- Departamento de Plantas, Centro de Ingeniería Genética y Biotecnología, P.O. Box 6162, La Habana, Cuba.
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Ramos PL, Fernández A, Castrillo G, Díaz L, Echemendía AL, Fuentes A, Peral R, Pujol M, Ascencio-Ibañez JT, Rivera-Bustamante R, Arguello-Astorga G. Macroptilium yellow mosaic virus, a New Begomovirus Infecting Macroptilium lathyroides in Cuba. Plant Dis 2002; 86:1049. [PMID: 30818538 DOI: 10.1094/pdis.2002.86.9.1049b] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Macroptilium lathyroides (L) is a weed that is widely distributed in Cuba. Frequently, leaves show bright yellow mosaic symptoms, which suggest the incidence of a viral disease. Since begomovirus occurrence in Macroptilium lathyroides has been previously reported in other islands of the Caribbean (1,3), symptomatic plants from three distant places in Cuba (Havana, Villa Clara, and Camaguey), were collected and tested for the presence of begomoviruses. Plant DNA extracts were analyzed by Southern blot hybridization and polymerase chain reaction with two sets of degenerate primers (2). The presence of a bipartite begomovirus was evident through strong hybridization signals obtained with the DNA-A and DNA-B of Taino tomato mottle virus as probes at low stringency. Furthermore, 1.4-kb and 1.2-kb PCR amplified fragments were obtained with DNA-A degenerate primers, PAL1v1978-PAR1c715 and PAL1c1960-PAR1v722, respectively. Both PCR fragments from the samples from the three locations were cloned, and restriction fragment length polymorphism analysis of the 1.4-kb fragments were performed using PstI, EcoRI, HincII, XbaI and BglII. Restriction fragment patterns were the same for the three clones. The DNA-A sequence (GenBank Accession No. AJ344452) of the isolate from Villa Clara was compared with sequences available for other geminiviruses using CLUSTAL program. For the coat protein (CP) gene, the comparisons had the highest percentage of identity with various strains of Bean golden yellow mosaic virus (BGYMV, GenBank Accession Nos. AF173555, M91604, and L01635) (85 to 87% and 93 to 94%, nucleotide and amino acid sequences, respectively). For Rep gene (1,044 nt), the best percentages of identities were with BGYMV (81 to 82% and 80 to 82% nucleotide and amino acid sequences, respectively), Tomato leaf crumple virus (GenBank Accession No. AF101476) (78 and 81%, nucleotide and amino acid sequences, respectively), and Sida golden mosaic virus from Florida (GenBank Accession No. AF049336) (78 and 79%, nucleotide and amino acid sequences, respectively). Finally, the comparative analysis of the intergenic region (i.e. the common region plus the CP gene promoter) had the highest identity with BGYMV (56 to 55%) and Tomato severe rugose virus (GenBank Accession No. AY029750) (49%). Interestingly, this virus has in this region the three G-box elements that are characteristic of BGYMV but it differs in the Rep protein-binding iterative motif that is GGTGA instead of GGAGA, for BGYMV. These data indicate that this virus is a new begomovirus and the name of Macroptilium yellow mosaic virus (MaYMV) is proposed. References: (1) A. M. Idris et al. Plant Dis. 83:1071, 1999. (2) M. R. Rojas et al. Plant Dis. 77:340, 1993. (3) M. E. Roye et al. Plant Dis. 81:1251, 1997.
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Affiliation(s)
- P L Ramos
- Centro de Ingeniería Genética y Biotecnología, P.O. Box 6162, La Habana, C.P. 10600, Cuba
| | - A Fernández
- Centro de Ingeniería Genética y Biotecnología, P.O. Box 6162, La Habana, C.P. 10600, Cuba
| | | | - L Díaz
- Centro de Ingeniería Genética y Biotecnología, P.O. Box 6162. La Habana, Cuba
| | - A L Echemendía
- Centro de Ingeniería Genética y Biotecnología, P.O. Box 6162. La Habana, Cuba
| | - A Fuentes
- Centro de Ingeniería Genética y Biotecnología, P.O. Box 6162. La Habana, Cuba
| | - R Peral
- Centro de Ingeniería Genética y Biotecnología, P.O. Box 6162. La Habana, Cuba
| | - M Pujol
- Centro de Ingeniería Genética y Biotecnología, P.O. Box 6162. La Habana, Cuba
| | - J T Ascencio-Ibañez
- Centro de Investigación y de Estudios Avanzados del IPN-Irapuato, P.O. Box 629, Irapuato, Gto. México
| | - R Rivera-Bustamante
- Centro de Investigación y de Estudios Avanzados del IPN-Irapuato, P.O. Box 629, Irapuato, Gto. México
| | - G Arguello-Astorga
- Instituto Potosino de Investigación Científica y Tecnológica. SLP, México
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Gutiérrez OA, Salas E, Hernández Y, Lissi EA, Castrillo G, Reyes O, Garay H, Aguilar A, García B, Otero A, Chavez MA, Duarte CA. An immunoenzymatic solid-phase assay for quantitative determination of HIV-1 protease activity. Anal Biochem 2002; 307:18-24. [PMID: 12137774 DOI: 10.1016/s0003-2697(02)00009-x] [Citation(s) in RCA: 21] [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] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
A novel immunoenzymatic procedure for the quantitative determination of HIV protease activity is provided. An N-terminal biotinylated peptide (DU1) that comprises an HIV-1 protease (HIV-PR) cleavage sequence was bound to streptavidin-coated microtiter plates. The bound peptide can be quantified by an immunoenzymatic procedure (enzyme-linked immunosorbent assay, ELISA) that includes a monoclonal antibody (Mab 332) against the peptide (DU1) C-terminal. The incubation of the bound peptide with HIV-PR in solution resulted in a signal decrement, as the peptide was hydrolyzed and the released C-terminal segment washed away. An equation that relates the amount of added enzyme to the kinetics of the reaction was written in order to describe this heterogeneous enzyme-quasi-saturable system. This equation allows quantitative determination of protease activity, a feature widely underrated in previous similar assays. The assay also allows evaluation of the inhibitory activity of HIV-PR inhibitors. Due to the intrinsic advantages of the ELISA format, this method could be used in high-throughput screening of HIV protease inhibitors. The assay can be extended to other proteolytic enzymes.
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Affiliation(s)
- Omar A Gutiérrez
- Facultad de Biología, Centro de Estudios de la Proteínas, Universidad de la Habana, Ciudad Habana, Cuba.
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Perez AL, Campos Y, Chinchilla CM, Oehlschlager AC, Gries G, Gries R, Giblin-Davis RM, Castrillo G, Peña JE, Duncan RE, Gonzalez LM, Pierce, Jr. HD, McDonald R, Andrade R. Aggregation Pheromones and Host Kairomones of West Indian Sugarcane Weevil, Metamasius hemipterus sericeus. J Chem Ecol 1997. [DOI: 10.1023/b:joec.0000006377.13235.4b] [Citation(s) in RCA: 38] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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