1
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Ragland CJ, Shih KY, Dinneny JR. Choreographing root architecture and rhizosphere interactions through synthetic biology. Nat Commun 2024; 15:1370. [PMID: 38355570 PMCID: PMC10866969 DOI: 10.1038/s41467-024-45272-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2023] [Accepted: 01/18/2024] [Indexed: 02/16/2024] Open
Abstract
Climate change is driving extreme changes to the environment, posing substantial threats to global food security and bioenergy. Given the direct role of plant roots in mediating plant-environment interactions, engineering the form and function of root systems and their associated microbiota may mitigate these effects. Synthetic genetic circuits have enabled sophisticated control of gene expression in microbial systems for years and a surge of advances has heralded the extension of this approach to multicellular plant species. Targeting these tools to affect root structure, exudation, and microbe activity on root surfaces provide multiple strategies for the advancement of climate-ready crops.
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Affiliation(s)
- Carin J Ragland
- Department of Biology, Stanford University, Stanford, CA, 94305, USA
| | - Kevin Y Shih
- Department of Biology, Stanford University, Stanford, CA, 94305, USA
| | - José R Dinneny
- Department of Biology, Stanford University, Stanford, CA, 94305, USA.
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2
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Mutanwad KV, Debreczeny M, Lucyshyn D. Root Hair Imaging Using Confocal Microscopy. Methods Mol Biol 2024; 2787:81-94. [PMID: 38656483 DOI: 10.1007/978-1-0716-3778-4_5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/26/2024]
Abstract
Plant genetics plays a key role in determining root hair initiation and development. A complex network of genetic interactions therefore closely monitors and influences root hair phenotype and morphology. The significance of these genes can be studied by employing, for instance, loss-of-function mutants, overexpression plant lines, and fluorescently labeled constructs. Confocal laser scanning microscopy is a great tool to visually observe and document these morphological features. This chapter elaborates the techniques involved in handling of microscopic setup to acquire images displaying root hair distribution along the fully elongated zone of Arabidopsis thaliana roots. Additionally, we illustrate an approach to visualize early fate determination of epidermal cells in the root apical meristem, by describing a method for imaging YFP tagged transgenic plant lines.
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Affiliation(s)
- Krishna Vasant Mutanwad
- Institute of Molecular Plant Biology, Department of Applied Genetics and Cell Biology, University of Natural Resources and Life Sciences (BOKU), Vienna, Austria
| | - Monika Debreczeny
- Core Facility Multiscale Imaging, University of Natural Resources and Life Sciences (BOKU), Vienna, Austria
| | - Doris Lucyshyn
- Institute of Molecular Plant Biology, Department of Applied Genetics and Cell Biology, University of Natural Resources and Life Sciences (BOKU), Vienna, Austria.
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3
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You Y, Jiang Z. The eINTACT method for studying nuclear changes in host plant cells targeted by bacterial effectors in native infection contexts. Nat Protoc 2023; 18:3173-3193. [PMID: 37697105 DOI: 10.1038/s41596-023-00879-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2022] [Accepted: 06/23/2023] [Indexed: 09/13/2023]
Abstract
Type-III effector proteins are major virulence determinants that most gram-negative bacteria inject into host cells to manipulate cellular processes for infection. Because effector-targeted cells are embedded and underrepresented in infected plant tissues, it is technically challenging to isolate them for focused studies of effector-induced cellular changes. This protocol describes a novel technique, effector-inducible isolation of nuclei tagged in specific cell types (eINTACT), for isolating biotin-labeled nuclei from Arabidopsis plant cells that have received Xanthomonas bacterial effectors by using streptavidin-coated magnetic beads. This protocol is an extension of the existing Nature Protocols Protocol of the INTACT method for the affinity-based purification of nuclei of specific cell types in the context of developmental biology. In a phytopathology scenario, our protocol addresses how to obtain eINTACT transgenic lines and compatible bacterial mutants, verify the eINTACT system and purify nuclei of bacterial effector-recipient cells from infected tissues. Differential analyses of purified nuclei from plants infected by bacteria expressing the effector of interest and those from plants infected by effector-deletion bacterial mutants will reveal the effector-dependent nuclear changes in targeted host cells. Provided that the eINTACT system is available, the infection experiment takes 5 d, and the procedures, from collecting bacteria-infected leaves to obtaining nuclei of effector-targeted cells, can be completed in 4 h. eINTACT is a unique method for isolating high-quality nuclei from bacterial effector-targeted host cells in native infection contexts. This method is adaptable to study the functions of type-III effectors from numerous gram-negative bacteria in host plants that are amenable to transformation.
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Affiliation(s)
- Yuan You
- Department of Molecular Life Sciences, Technical University of Munich, Freising, Germany.
- Department of General Genetics, Center for Plant Molecular Biology, Eberhard-Karls-University Tübingen, Tübingen, Germany.
| | - Zhihao Jiang
- Department of Plant Biochemistry, Center for Plant Molecular Biology, Eberhard-Karls-University Tübingen, Tübingen, Germany
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4
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Huang M, Chen J, Yang X, Zheng Y, Ma Y, Sun K, Han N, Bian H, Qiu T, Wang J. A unique mutation in PIN-FORMED1 and a genetic pathway for reduced sensitivity of Arabidopsis roots to N-1-naphthylphthalamic acid. PHYSIOLOGIA PLANTARUM 2023; 175:e14120. [PMID: 38148206 DOI: 10.1111/ppl.14120] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/04/2023] [Revised: 11/26/2023] [Accepted: 11/28/2023] [Indexed: 12/28/2023]
Abstract
The small chemical N-1-naphthylphthalamic acid (NPA) has long been used as a polar auxin transport inhibitor. Recent biochemical and structural investigations have revealed that this molecule competes with the auxin IAA (indole-3-acetic acid) inside the PIN-FORMED auxin efflux carriers. However, the existence of any mutations in PIN family proteins capable of uncoupling the docking of IAA from NPA remains unclear. We report that Arabidopsis thaliana seedlings overexpressing SMALL AUXIN UP RNA 41 were hypersensitive to NPA-induced root elongation inhibition. We mutagenized this line to improve the genetic screening efficiency for NPA hyposensitivity mutants. Using bulked segregation analysis and mapping-by-sequencing assessment of these mutants, we identified a core genetic pathway for NPA-induced root elongation inhibition, including genes required for auxin biosynthesis, transportation, and signaling. To evaluate specific changes of auxin signaling activity in mutant roots before and after NPA treatment, the DR5::GFP/DR5::YFP markers were introduced and observed. Most importantly, we discovered a unique mutation in the PIN1 protein, substituting a proline residue with leucine at position 584, leading to a loss of NPA sensitivity while keeping the auxin efflux capacity. Transforming the null mutant pin1-201 with the PIN1::PIN1P584L -GFP fusion construct rescued the PIN1 function and provided NPA hyposensitivity. The proline residue is predicted to be adjacent to a hinge in the middle region of the ninth transmembrane helix of PIN1 and is conserved from moss to higher plants. Our work may bring new insights into the engineering of NPA-resistant PINs for auxin biology studies.
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Affiliation(s)
- Minhua Huang
- Institute of Genetics and Regenerative Biology, College of Life Sciences, Zhejiang University, Hangzhou, China
| | - Jie Chen
- Institute of Genetics and Regenerative Biology, College of Life Sciences, Zhejiang University, Hangzhou, China
| | - Xinxing Yang
- Institute of Genetics and Regenerative Biology, College of Life Sciences, Zhejiang University, Hangzhou, China
| | - Yanyan Zheng
- Institute of Genetics and Regenerative Biology, College of Life Sciences, Zhejiang University, Hangzhou, China
| | - Yuan Ma
- Institute of Genetics and Regenerative Biology, College of Life Sciences, Zhejiang University, Hangzhou, China
| | - Kai Sun
- School of Pharmacy, Hangzhou Normal University, Hangzhou, China
| | - Ning Han
- Institute of Genetics and Regenerative Biology, College of Life Sciences, Zhejiang University, Hangzhou, China
| | - Hongwu Bian
- Institute of Genetics and Regenerative Biology, College of Life Sciences, Zhejiang University, Hangzhou, China
| | - Ting Qiu
- School of Pharmacy, Hangzhou Normal University, Hangzhou, China
| | - Junhui Wang
- Institute of Genetics and Regenerative Biology, College of Life Sciences, Zhejiang University, Hangzhou, China
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5
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Seller CA, Schroeder JI. Distinct guard cell specific remodeling of chromatin accessibility during abscisic acid and CO 2 dependent stomatal regulation. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.05.11.540345. [PMID: 37215031 PMCID: PMC10197618 DOI: 10.1101/2023.05.11.540345] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
In plants, epidermal guard cells integrate and respond to numerous environmental signals to control stomatal pore apertures thereby regulating gas exchange. Chromatin structure controls transcription factor access to the genome, but whether large-scale chromatin remodeling occurs in guard cells during stomatal movements, and in response to the hormone abscisic acid (ABA) in general, remain unknown. Here we isolate guard cell nuclei from Arabidopsis thaliana plants to examine whether the physiological signals, ABA and CO2, regulate guard cell chromatin during stomatal movements. Our cell type specific analyses uncover patterns of chromatin accessibility specific to guard cells and define novel cis-regulatory sequences supporting guard cell specific gene expression. We find that ABA triggers extensive and dynamic chromatin remodeling in guard cells, roots, and mesophyll cells with clear patterns of cell-type specificity. DNA motif analyses uncover binding sites for distinct transcription factors enriched in ABA-induced and ABA-repressed chromatin. We identify the ABF/AREB bZIP-type transcription factors that are required for ABA-triggered chromatin opening in guard cells and implicate the inhibition of a set of bHLH-type transcription factors in controlling ABA-repressed chromatin. Moreover, we demonstrate that ABA and CO2 induce distinct programs of chromatin remodeling. We provide insight into the control of guard cell chromatin dynamics and propose that ABA-induced chromatin remodeling primes the genome for abiotic stress resistance.
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Affiliation(s)
- Charles A. Seller
- School of Biological Sciences, Cell and Developmental Biology Department University of California San Diego, La Jolla, CA 92093-0116
| | - Julian I. Schroeder
- School of Biological Sciences, Cell and Developmental Biology Department University of California San Diego, La Jolla, CA 92093-0116
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6
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Yu G, Zhang L, Wang K, Macho AP. Inoculation of Arabidopsis seedlings with Ralstonia solanacearum in sterile agar plates. STAR Protoc 2023; 4:102474. [PMID: 37515761 PMCID: PMC10400951 DOI: 10.1016/j.xpro.2023.102474] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2023] [Revised: 06/09/2023] [Accepted: 06/30/2023] [Indexed: 07/31/2023] Open
Abstract
Ralstonia solanacearum invades plants through their roots and causes devastating bacterial diseases in multiple crops. Here, we present a versatile inoculation assay in Arabidopsis thaliana seedlings grown in sterile agar plates. We describe steps for plant preparation, bacterial inoculation, tissue sampling, and bacterial quantification. This protocol can be used for accurate assessment of bacterial colonization and observation of plant response to infection. For complete details on the use and execution of this protocol, please refer to Dindas et al. (2022).1.
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Affiliation(s)
- Gang Yu
- Shanghai Center for Plant Stress Biology, CAS Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 201602, China; School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China.
| | - Lu Zhang
- Shanghai Center for Plant Stress Biology, CAS Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 201602, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Keke Wang
- Shanghai Center for Plant Stress Biology, CAS Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 201602, China
| | - Alberto P Macho
- Shanghai Center for Plant Stress Biology, CAS Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 201602, China.
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7
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Robe K, Barberon M. Nutrient carriers at the heart of plant nutrition and sensing. CURRENT OPINION IN PLANT BIOLOGY 2023; 74:102376. [PMID: 37182415 DOI: 10.1016/j.pbi.2023.102376] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/20/2023] [Revised: 03/30/2023] [Accepted: 04/12/2023] [Indexed: 05/16/2023]
Abstract
Plants require water and several essential nutrients for their development. The radial transport of nutrients from the soil to the root vasculature is achieved through a combination of three different pathways: apoplastic, symplastic, and transcellular. A common feature for these pathways is the requirement of carriers to transport nutrients across the plasma membrane. An efficient transport of nutrients across the root cell layers relies on a large number of carriers, each of them having their own substrate specificity, tissular and subcellular localization. Polarity is also emerging as a major feature allowing their function. Recent advances on radial transport of nutrients, especially carrier mediated nutrient transport will be discussed in this review, as well as the role of transporters as nutrient sensors.
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Affiliation(s)
- Kevin Robe
- Department of Plant Sciences, University of Geneva, 30 Quai Ernest Ansermet, 1211, Geneva, Switzerland
| | - Marie Barberon
- Department of Plant Sciences, University of Geneva, 30 Quai Ernest Ansermet, 1211, Geneva, Switzerland.
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8
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Kocaoglan EG, Radhakrishnan D, Nakayama N. Synthetic developmental biology: molecular tools to re-design plant shoots and roots. JOURNAL OF EXPERIMENTAL BOTANY 2023; 74:3864-3876. [PMID: 37155965 PMCID: PMC10826796 DOI: 10.1093/jxb/erad169] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/18/2023] [Accepted: 05/04/2023] [Indexed: 05/10/2023]
Abstract
Plant morphology and anatomy strongly influence agricultural yield. Crop domestication has strived for desirable growth and developmental traits, such as larger and more fruits and semi-dwarf architecture. Genetic engineering has accelerated rational, purpose-driven engineering of plant development, but it can be unpredictable. Developmental pathways are complex and riddled with environmental and hormonal inputs, as well as feedback and feedforward interactions, which occur at specific times and places in a growing multicellular organism. Rational modification of plant development would probably benefit from precision engineering based on synthetic biology approaches. This review outlines recently developed synthetic biology technologies for plant systems and highlights their potential for engineering plant growth and development. Streamlined and high-capacity genetic construction methods (Golden Gate DNA Assembly frameworks and toolkits) allow fast and variation-series cloning of multigene transgene constructs. This, together with a suite of gene regulation tools (e.g. cell type-specific promoters, logic gates, and multiplex regulation systems), is starting to enable developmental pathway engineering with predictable outcomes in model plant and crop species.
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Affiliation(s)
- Elif Gediz Kocaoglan
- Department of Bioengineering, Centre for Synthetic Biology, Imperial College London, London SW7 2AZ, UK
| | - Dhanya Radhakrishnan
- Department of Bioengineering, Centre for Synthetic Biology, Imperial College London, London SW7 2AZ, UK
| | - Naomi Nakayama
- Department of Bioengineering, Centre for Synthetic Biology, Imperial College London, London SW7 2AZ, UK
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9
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Giehl RFH, Flis P, Fuchs J, Gao Y, Salt DE, von Wirén N. Cell type-specific mapping of ion distribution in Arabidopsis thaliana roots. Nat Commun 2023; 14:3351. [PMID: 37311779 DOI: 10.1038/s41467-023-38880-0] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2022] [Accepted: 05/16/2023] [Indexed: 06/15/2023] Open
Abstract
Cell type-specific mapping of element distribution is critical to fully understand how roots partition nutrients and toxic elements with aboveground parts. In this study, we developed a method that combines fluorescence-activated cell sorting (FACS) with inductively coupled plasma mass spectrometry (ICP-MS) to assess the ionome of different cell populations within Arabidopsis thaliana roots. The method reveals that most elements exhibit a radial concentration gradient increasing from the rhizodermis to inner cell layers, and detected previously unknown ionomic changes resulting from perturbed xylem loading processes. With this approach, we also identify a strong accumulation of manganese in trichoblasts of iron-deficient roots. We demonstrate that confining manganese sequestration in trichoblasts but not in endodermal cells efficiently retains manganese in roots, therefore preventing toxicity in shoots. These results indicate the existence of cell type-specific constraints for efficient metal sequestration in roots. Thus, our approach opens an avenue to investigate element compartmentation and transport pathways in plants.
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Affiliation(s)
- Ricardo F H Giehl
- Leibniz-Institute of Plant Genetics and Crop Plant Research (IPK) OT Gatersleben, 06466, Seeland, Germany.
| | - Paulina Flis
- Future Food Beacon of Excellence & School of Biosciences, University of Nottingham, Nottingham, LE12 5RD, UK
| | - Jörg Fuchs
- Leibniz-Institute of Plant Genetics and Crop Plant Research (IPK) OT Gatersleben, 06466, Seeland, Germany
| | - Yiqun Gao
- Future Food Beacon of Excellence & School of Biosciences, University of Nottingham, Nottingham, LE12 5RD, UK
| | - David E Salt
- Future Food Beacon of Excellence & School of Biosciences, University of Nottingham, Nottingham, LE12 5RD, UK
| | - Nicolaus von Wirén
- Leibniz-Institute of Plant Genetics and Crop Plant Research (IPK) OT Gatersleben, 06466, Seeland, Germany.
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10
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Kobayashi NI, Takagi H, Yang X, Nishizawa-Yokoi A, Segawa T, Hoshina T, Oonishi T, Suzuki H, Iwata R, Toki S, Nakanishi TM, Tanoi K. Mutations in RZF1, a zinc-finger protein, reduce magnesium uptake in roots and translocation to shoots in rice. PLANT PHYSIOLOGY 2023; 192:342-355. [PMID: 36718554 PMCID: PMC10152673 DOI: 10.1093/plphys/kiad051] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/02/2022] [Revised: 01/04/2023] [Accepted: 01/04/2023] [Indexed: 05/03/2023]
Abstract
Magnesium (Mg) homeostasis is critical for maintaining many biological processes, but little information is available to comprehend the molecular mechanisms regulating Mg concentration in rice (Oryza sativa). To make up for the lack of information, we aimed to identify mutants defective in Mg homeostasis through a forward genetic approach. As a result of the screening of 2,825 M2 seedlings mutated by ion-beam irradiation, we found a rice mutant that showed reduced Mg content in leaves and slightly increased Mg content in roots. Radiotracer 28Mg experiments showed that this mutant, named low-magnesium content 1 (LMGC1), has decreased Mg2+ influx in the root and Mg2+ translocation from root to shoot. Consequently, LMGC1 is sensitive to the low Mg condition and prone to develop chlorosis in the young mature leaf. The MutMap method identified a 7.4-kbp deletion in the LMGC1 genome leading to a loss of two genes. Genome editing using CRISPR-Cas9 further revealed that one of the two lost genes, a gene belonging to the RanBP2-type zinc-finger family that we named RanBP2-TYPE ZINC FINGER1 (OsRZF1), was the causal gene of the low Mg phenotype. OsRZF1 is a nuclear protein and may have a fundamental role in maintaining Mg homeostasis in rice plants.
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Affiliation(s)
- Natsuko I Kobayashi
- Graduate School of Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan
| | - Hiroki Takagi
- Faculty of Bioresources and Environmental Sciences, Ishikawa Prefectural University, 1-308 Suematsu, Nonoichi, Ishikawa 921-8836, Japan
| | - Xiaoyu Yang
- Graduate School of Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan
| | - Ayako Nishizawa-Yokoi
- Institute of Agrobiological Sciences, National Agriculture and Food Research Organization (NARO), 3-1-3 Kannondai, Tsukuba 305-8604, Japan
| | - Tenta Segawa
- Faculty of Bioresources and Environmental Sciences, Ishikawa Prefectural University, 1-308 Suematsu, Nonoichi, Ishikawa 921-8836, Japan
| | - Tatsuaki Hoshina
- Graduate School of Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan
| | - Takayuki Oonishi
- Center for Education and Research of Community Collaboration, Utsunomiya University, Utsunomiya 321-8505, Japan
| | - Hisashi Suzuki
- National Institutes for Quantum and Radiological Science and Technology, 4-9-1 Anagawa, Inage-ku, Chiba 263-8555, Japan
| | - Ren Iwata
- Cyclotron and Radioisotope Center (CYRIC), Tohoku University, 6-3 Aramaki Aza-Aoba, Aoba-ku, Sendai 980-8572, Japan
| | - Seiichi Toki
- Institute of Agrobiological Sciences, National Agriculture and Food Research Organization (NARO), 3-1-3 Kannondai, Tsukuba 305-8604, Japan
- Faculty of Agriculture, Ryukoku University, 1-5 Yokotani, Seta Oe-cho, Otsu, Shiga 520-2194, Japan
- Graduate School of Nanobioscience, Yokohama City University, 22-2 Seto, Yokohama, Kanagawa 236-0027, Japan
| | - Tomoko M Nakanishi
- Graduate School of Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan
- Hoshi University, 2-4-41 Ebara, Shinagawa-Ku, Tokyo 142-8501, Japan
| | - Keitaro Tanoi
- Graduate School of Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan
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11
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Neubus Claus LA, Liu D, Hohmann U, Vukašinović N, Pleskot R, Liu J, Schiffner A, Jaillais Y, Wu G, Wolf S, Van Damme D, Hothorn M, Russinova E. BRASSINOSTEROID INSENSITIVE1 internalization can occur independent of ligand binding. PLANT PHYSIOLOGY 2023; 192:65-76. [PMID: 36617237 PMCID: PMC10152650 DOI: 10.1093/plphys/kiad005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/11/2022] [Revised: 11/16/2022] [Accepted: 12/07/2022] [Indexed: 05/03/2023]
Abstract
The brassinosteroid (BR) hormone and its plasma membrane (PM) receptor BR INSENSITIVE1 (BRI1) are one of the best-studied receptor-ligand pairs for understanding the interplay between receptor endocytosis and signaling in plants. BR signaling is mainly determined by the PM pool of BRI1, whereas BRI1 endocytosis ensures signal attenuation. As BRs are ubiquitously distributed in the plant, the tools available to study the BRI1 function without interference from endogenous BRs are limited. Here, we designed a BR binding-deficient Arabidopsis (Arabidopsis thaliana) mutant based on protein sequence-structure analysis and homology modeling of members of the BRI1 family. This tool allowed us to re-examine the BRI1 endocytosis and signal attenuation model. We showed that despite impaired phosphorylation and ubiquitination, BR binding-deficient BRI1 internalizes similarly to the wild type form. Our data indicate that BRI1 internalization relies on different endocytic machineries. In addition, the BR binding-deficient mutant provides opportunities to study non-canonical ligand-independent BRI1 functions.
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Affiliation(s)
- Lucas Alves Neubus Claus
- Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium
- Center for Plant Systems Biology, VIB, 9052 Ghent, Belgium
| | - Derui Liu
- Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium
- Center for Plant Systems Biology, VIB, 9052 Ghent, Belgium
| | - Ulrich Hohmann
- Structural Plant Biology Laboratory, Department of Botany and Plant Biology, University of Geneva, 1211 Geneva, Switzerland
| | - Nemanja Vukašinović
- Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium
- Center for Plant Systems Biology, VIB, 9052 Ghent, Belgium
| | - Roman Pleskot
- Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium
- Center for Plant Systems Biology, VIB, 9052 Ghent, Belgium
| | - Jing Liu
- College of Life Sciences, Shaanxi Normal University, Xi’an, 710062 Shaanxi, China
| | - Alexei Schiffner
- Center for Plant Molecular Biology (ZMBP), University of Tübingen, 72076 Tübingen, Germany
| | - Yvon Jaillais
- Laboratoire Reproduction et Développement des Plantes (RDP), Ecole Normale Supérieure de Lyon, Centre National de la Recherche Scientifique (CNRS), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Université de Lyon, 69342 Lyon, France
| | - Guang Wu
- College of Life Sciences, Shaanxi Normal University, Xi’an, 710062 Shaanxi, China
| | - Sebastian Wolf
- Center for Plant Molecular Biology (ZMBP), University of Tübingen, 72076 Tübingen, Germany
| | - Daniël Van Damme
- Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium
- Center for Plant Systems Biology, VIB, 9052 Ghent, Belgium
| | - Michael Hothorn
- Structural Plant Biology Laboratory, Department of Botany and Plant Biology, University of Geneva, 1211 Geneva, Switzerland
| | - Eugenia Russinova
- Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium
- Center for Plant Systems Biology, VIB, 9052 Ghent, Belgium
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12
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Chen J, Hu Y, Hao P, Tsering T, Xia J, Zhang Y, Roth O, Njo MF, Sterck L, Hu Y, Zhao Y, Geelen D, Geisler M, Shani E, Beeckman T, Vanneste S. ABCB-mediated shootward auxin transport feeds into the root clock. EMBO Rep 2023; 24:e56271. [PMID: 36718777 PMCID: PMC10074126 DOI: 10.15252/embr.202256271] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2022] [Revised: 11/29/2022] [Accepted: 01/10/2023] [Indexed: 02/01/2023] Open
Abstract
Although strongly influenced by environmental conditions, lateral root (LR) positioning along the primary root appears to follow obediently an internal spacing mechanism dictated by auxin oscillations that prepattern the primary root, referred to as the root clock. Surprisingly, none of the hitherto characterized PIN- and ABCB-type auxin transporters seem to be involved in this LR prepatterning mechanism. Here, we characterize ABCB15, 16, 17, 18, and 22 (ABCB15-22) as novel auxin-transporting ABCBs. Knock-down and genome editing of this genetically linked group of ABCBs caused strongly reduced LR densities. These phenotypes were correlated with reduced amplitude, but not reduced frequency of the root clock oscillation. High-resolution auxin transport assays and tissue-specific silencing revealed contributions of ABCB15-22 to shootward auxin transport in the lateral root cap (LRC) and epidermis, thereby explaining the reduced auxin oscillation. Jointly, these data support a model in which LRC-derived auxin contributes to the root clock amplitude.
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Affiliation(s)
- Jian Chen
- Department of Plant Biotechnology and BioinformaticsGhent UniversityGhentBelgium
- Center for Plant Systems Biology, VIBGhentBelgium
| | - Yangjie Hu
- School of Plant Sciences and Food SecurityTel‐Aviv UniversityTel‐AvivIsrael
| | - Pengchao Hao
- Department of BiologyUniversity of FribourgFribourgSwitzerland
| | - Tashi Tsering
- Department of BiologyUniversity of FribourgFribourgSwitzerland
| | - Jian Xia
- Department of BiologyUniversity of FribourgFribourgSwitzerland
| | - Yuqin Zhang
- School of Plant Sciences and Food SecurityTel‐Aviv UniversityTel‐AvivIsrael
| | - Ohad Roth
- School of Plant Sciences and Food SecurityTel‐Aviv UniversityTel‐AvivIsrael
| | - Maria F Njo
- Department of Plant Biotechnology and BioinformaticsGhent UniversityGhentBelgium
- Center for Plant Systems Biology, VIBGhentBelgium
| | - Lieven Sterck
- Department of Plant Biotechnology and BioinformaticsGhent UniversityGhentBelgium
- Center for Plant Systems Biology, VIBGhentBelgium
| | - Yun Hu
- Section of Cell and Developmental BiologyUniversity of California San DiegoLa JollaCAUSA
| | - Yunde Zhao
- Section of Cell and Developmental BiologyUniversity of California San DiegoLa JollaCAUSA
| | - Danny Geelen
- Department of Plants and CropsGhent UniversityGhentBelgium
| | - Markus Geisler
- Department of BiologyUniversity of FribourgFribourgSwitzerland
| | - Eilon Shani
- School of Plant Sciences and Food SecurityTel‐Aviv UniversityTel‐AvivIsrael
| | - Tom Beeckman
- Department of Plant Biotechnology and BioinformaticsGhent UniversityGhentBelgium
- Center for Plant Systems Biology, VIBGhentBelgium
| | - Steffen Vanneste
- Department of Plant Biotechnology and BioinformaticsGhent UniversityGhentBelgium
- Center for Plant Systems Biology, VIBGhentBelgium
- Department of Plants and CropsGhent UniversityGhentBelgium
- Lab of Plant Growth AnalysisGhent University Global CampusIncheonRepublic of Korea
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13
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Nolan TM, Vukašinović N, Hsu CW, Zhang J, Vanhoutte I, Shahan R, Taylor IW, Greenstreet L, Heitz M, Afanassiev A, Wang P, Szekely P, Brosnan A, Yin Y, Schiebinger G, Ohler U, Russinova E, Benfey PN. Brassinosteroid gene regulatory networks at cellular resolution in the Arabidopsis root. Science 2023; 379:eadf4721. [PMID: 36996230 PMCID: PMC10119888 DOI: 10.1126/science.adf4721] [Citation(s) in RCA: 21] [Impact Index Per Article: 21.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2022] [Accepted: 02/09/2023] [Indexed: 04/01/2023]
Abstract
Brassinosteroids are plant steroid hormones that regulate diverse processes, such as cell division and cell elongation, through gene regulatory networks that vary in space and time. By using time series single-cell RNA sequencing to profile brassinosteroid-responsive gene expression specific to different cell types and developmental stages of the Arabidopsis root, we identified the elongating cortex as a site where brassinosteroids trigger a shift from proliferation to elongation associated with increased expression of cell wall-related genes. Our analysis revealed HOMEOBOX FROM ARABIDOPSIS THALIANA 7 (HAT7) and GT-2-LIKE 1 (GTL1) as brassinosteroid-responsive transcription factors that regulate cortex cell elongation. These results establish the cortex as a site of brassinosteroid-mediated growth and unveil a brassinosteroid signaling network regulating the transition from proliferation to elongation, which illuminates aspects of spatiotemporal hormone responses.
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Affiliation(s)
| | - Nemanja Vukašinović
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- Center for Plant Systems Biology, VIB, Ghent, Belgium
| | - Che-Wei Hsu
- Department of Biology, Duke University, Durham, NC, USA
- Department of Biology, Humboldt Universitat zu Berlin, Berlin, Germany
- The Berlin Institute for Medical Systems Biology, Max Delbruck Center for Molecular Medicine, Berlin, Germany
| | | | - Isabelle Vanhoutte
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- Center for Plant Systems Biology, VIB, Ghent, Belgium
| | - Rachel Shahan
- Department of Biology, Duke University, Durham, NC, USA
- Howard Hughes Medical Institute, Duke University, Durham, NC, USA
| | | | - Laura Greenstreet
- Department of Mathematics, University of British Columbia, Vancouver, BC, Canada
| | - Matthieu Heitz
- Department of Mathematics, University of British Columbia, Vancouver, BC, Canada
| | - Anton Afanassiev
- Department of Mathematics, University of British Columbia, Vancouver, BC, Canada
| | - Ping Wang
- Department of Genetics, Development, and Cell Biology, Iowa State University, Ames, IA, USA
| | - Pablo Szekely
- Department of Biology, Duke University, Durham, NC, USA
- Howard Hughes Medical Institute, Duke University, Durham, NC, USA
| | - Aiden Brosnan
- Department of Biology, Duke University, Durham, NC, USA
| | - Yanhai Yin
- Department of Genetics, Development, and Cell Biology, Iowa State University, Ames, IA, USA
| | - Geoffrey Schiebinger
- Department of Mathematics, University of British Columbia, Vancouver, BC, Canada
| | - Uwe Ohler
- Department of Biology, Humboldt Universitat zu Berlin, Berlin, Germany
- Department of Genetics, Development, and Cell Biology, Iowa State University, Ames, IA, USA
- Department of Computer Science, Humboldt Universitat zu Berlin, Berlin, Germany
| | - Eugenia Russinova
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- Center for Plant Systems Biology, VIB, Ghent, Belgium
| | - Philip N Benfey
- Department of Biology, Duke University, Durham, NC, USA
- Howard Hughes Medical Institute, Duke University, Durham, NC, USA
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14
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Martínez-Vasallo C, Cole B, Gallego-Bartolomé J, Chory J, Kay SA, Nohales MA. Epidermal GIGANTEA adjusts the response to shade at dusk by directly impinging on PHYTOCHROME INTERACTING FACTOR 7 function. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.03.21.533699. [PMID: 36993677 PMCID: PMC10055326 DOI: 10.1101/2023.03.21.533699] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 05/11/2023]
Abstract
For plants adapted to bright light, a decrease in the amount of light received can be detrimental to their growth and survival. Consequently, in response to shade from surrounding vegetation, they initiate a suite of molecular and morphological changes known as the shade avoidance response (SAR) through which stems and petioles elongate in search for light. Under sunlight-night cycles, the plant's responsiveness to shade varies across the day, being maximal at dusk time. While a role for the circadian clock in this regulation has long been proposed, mechanistic understanding of how it is achieved is incomplete. Here we show that the clock component GIGANTEA (GI) directly interacts with the transcriptional regulator PHYTOCHROME INTERACTING FACTOR 7 (PIF7), a key player in the response to shade. GI represses PIF7 transcriptional activity and the expression of its target genes in response to shade, thereby fine-tuning the magnitude of the response to limiting light conditions. We find that, under light/dark cycles, this function of GI is required to adequately modulate the gating of the response to shade at dusk. Importantly, we also show that GI expression in epidermal cells is sufficient for proper SAR regulation.
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Affiliation(s)
- Carlos Martínez-Vasallo
- Instituto de Biologίa Molecular y Celular de Plantas, Consejo Superior de Investigaciones Cientίficas - Universidad Politécnica de Valencia, 46022 Valencia, Spain
| | - Benjamin Cole
- Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA
| | - Javier Gallego-Bartolomé
- Plant Biology Laboratory, Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, CA 92037, USA
| | - Joanne Chory
- Plant Biology Laboratory, Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, CA 92037, USA
- Howard Hughes Medical Institute, Salk Institute for Biological Studies, La Jolla, CA 92037, USA
| | - Steve A. Kay
- Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA
| | - Maria A. Nohales
- Instituto de Biologίa Molecular y Celular de Plantas, Consejo Superior de Investigaciones Cientίficas - Universidad Politécnica de Valencia, 46022 Valencia, Spain
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15
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Nakashima Y, Kobayashi Y, Murao M, Kato R, Endo H, Higo A, Iwasaki R, Kojima M, Takebayashi Y, Sato A, Nomoto M, Sakakibara H, Tada Y, Itami K, Kimura S, Hagihara S, Torii KU, Uchida N. Identification of a pluripotency-inducing small compound, PLU, that induces callus formation via Heat Shock Protein 90-mediated activation of auxin signaling. FRONTIERS IN PLANT SCIENCE 2023; 14:1099587. [PMID: 36968385 PMCID: PMC10030974 DOI: 10.3389/fpls.2023.1099587] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/16/2022] [Accepted: 01/13/2023] [Indexed: 06/18/2023]
Abstract
Plants retain the ability to generate a pluripotent tissue called callus by dedifferentiating somatic cells. A pluripotent callus can also be artificially induced by culturing explants with hormone mixtures of auxin and cytokinin, and an entire body can then be regenerated from the callus. Here we identified a pluripotency-inducing small compound, PLU, that induces the formation of callus with tissue regeneration potency without the external application of either auxin or cytokinin. The PLU-induced callus expressed several marker genes related to pluripotency acquisition via lateral root initiation processes. PLU-induced callus formation required activation of the auxin signaling pathway though the amount of active auxin was reduced by PLU treatment. RNA-seq analysis and subsequent experiments revealed that Heat Shock Protein 90 (HSP90) mediates a significant part of the PLU-initiated early events. We also showed that HSP90-dependent induction of TRANSPORT INHIBITOR RESPONSE 1, an auxin receptor gene, is required for the callus formation by PLU. Collectively, this study provides a new tool for manipulating and investigating the induction of plant pluripotency from a different angle from the conventional method with the external application of hormone mixtures.
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Affiliation(s)
- Yuki Nakashima
- Center for Gene Research, Nagoya University, Nagoya, Japan
- Graduate School of Science, Nagoya University, Nagoya, Japan
| | - Yuka Kobayashi
- Center for Gene Research, Nagoya University, Nagoya, Japan
- School of Science, Nagoya University, Nagoya, Japan
| | - Mizuki Murao
- Center for Gene Research, Nagoya University, Nagoya, Japan
- Graduate School of Science, Nagoya University, Nagoya, Japan
| | - Rika Kato
- Graduate School of Science, Nagoya University, Nagoya, Japan
- Center for Sustainable Resource Science, RIKEN, Saitama, Japan
| | - Hitoshi Endo
- Institute of Transformative Bio-Molecules, Nagoya University, Nagoya, Japan
| | - Asuka Higo
- Center for Gene Research, Nagoya University, Nagoya, Japan
- Institute for Advanced Research, Nagoya University, Nagoya, Japan
| | - Rie Iwasaki
- Institute of Transformative Bio-Molecules, Nagoya University, Nagoya, Japan
| | - Mikiko Kojima
- Center for Sustainable Resource Science, RIKEN, Yokohama, Japan
| | | | - Ayato Sato
- Institute of Transformative Bio-Molecules, Nagoya University, Nagoya, Japan
| | - Mika Nomoto
- Center for Gene Research, Nagoya University, Nagoya, Japan
- Graduate School of Science, Nagoya University, Nagoya, Japan
| | - Hitoshi Sakakibara
- Center for Sustainable Resource Science, RIKEN, Yokohama, Japan
- Graduate School of Bioagricultural Sciences, Nagoya University, Nagoya, Japan
| | - Yasuomi Tada
- Center for Gene Research, Nagoya University, Nagoya, Japan
- Graduate School of Science, Nagoya University, Nagoya, Japan
| | - Kenichiro Itami
- Graduate School of Science, Nagoya University, Nagoya, Japan
- Institute of Transformative Bio-Molecules, Nagoya University, Nagoya, Japan
| | - Seisuke Kimura
- Department of Industrial Life Sciences, Faculty of Life Science, Kyoto Sangyo University, Kyoto, Japan
- Center for Plant Sciences, Kyoto Sangyo University, Kyoto, Japan
| | - Shinya Hagihara
- Center for Sustainable Resource Science, RIKEN, Saitama, Japan
| | - Keiko U. Torii
- Institute of Transformative Bio-Molecules, Nagoya University, Nagoya, Japan
- Howard Hughes Medical Institute and Department of Molecular Biosciences, University of Texas at Austin, Austin, TX, United States
| | - Naoyuki Uchida
- Center for Gene Research, Nagoya University, Nagoya, Japan
- Graduate School of Science, Nagoya University, Nagoya, Japan
- Institute of Transformative Bio-Molecules, Nagoya University, Nagoya, Japan
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16
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Zhai N, Pan X, Zeng M, Xu L. Developmental trajectory of pluripotent stem cell establishment in Arabidopsis callus guided by a quiescent center-related gene network. Development 2023; 150:286991. [PMID: 36762604 DOI: 10.1242/dev.200879] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2022] [Accepted: 01/30/2023] [Indexed: 02/11/2023]
Abstract
In plant tissue culture, callus formation is induced by a high auxin concentration. Among the three cell layers (the outer, middle and inner cell layers) of the callus, pluripotency acquisition in the middle cell layer is required for the potential ability of the callus to regenerate organs. Here, we reveal the developmental trajectory of middle cell layer initiation and maintenance in callus tissue originating from Arabidopsis thaliana hypocotyls. The S phase of the cell cycle is essential for the expression of quiescent center-related SCARECROW (SCR), PLETHORA1 (PLT1) and WUSCHEL-RELATED HOMEOBOX5 (WOX5) genes during the division of callus founder cells to initiate the callus primordium. After callus initiation, SHOOT-ROOT (SHR) proteins move from the inner to the middle cell layer and act together with SCR to promote the expression of PLT1 and WOX5. WOX5 represses the expression of VASCULAR-RELATED NAC-DOMAIN (VND) genes, thereby preventing callus tissue from differentiating into xylem cells. PLT1 and PLT2 directly activate JACKDAW (JKD), which is necessary for pluripotency acquisition in the middle cell layer. We hypothesize that the middle cell layer could have pluripotent stem cell activity and its establishment requires the quiescent center-related SCR-SHR-WOX5-PLT1/2-JKD gene network.
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Affiliation(s)
- Ning Zhai
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, 300 Fenglin Road, Shanghai 200032, China
- University of Chinese Academy of Sciences, 19A Yuquan Road, Beijing 100049, China
| | - Xuan Pan
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, 300 Fenglin Road, Shanghai 200032, China
- University of Chinese Academy of Sciences, 19A Yuquan Road, Beijing 100049, China
| | - Minhuan Zeng
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, 300 Fenglin Road, Shanghai 200032, China
| | - Lin Xu
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, 300 Fenglin Road, Shanghai 200032, China
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17
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Rizzo P, Chavez BG, Leite Dias S, D'Auria JC. Plant synthetic biology: from inspiration to augmentation. Curr Opin Biotechnol 2023; 79:102857. [PMID: 36502769 DOI: 10.1016/j.copbio.2022.102857] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2022] [Accepted: 11/17/2022] [Indexed: 12/13/2022]
Abstract
Although it is still in its infancy, synthetic biology has the capacity to face scientific and societal problems related to modern agriculture. Innovations in cloning toolkits and genetic parts allow increased precision over gene expression in planta. We review the vast spectrum of available technologies providing a practical list of toolkits that take advantage of combinatorial power to introduce/alter metabolic pathways. We highlight that rational design is inspired by deep knowledge of natural and biochemical mechanisms. Finally, we provide several examples in which modern technologies have been applied to address these critical topics. Future applications in plants include not only pathway modifications but also prospects of augmenting plant anatomical features and developmental processes.
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Affiliation(s)
- Paride Rizzo
- Metabolite Diversity Group, Department of Molecular Genetics, Leibniz Institute for Plant Genetics and Crop Plant Research (IPK) OT Gatersleben, Correnstr. 3, D-06466 Seeland, Germany
| | - Benjamin G Chavez
- Metabolite Diversity Group, Department of Molecular Genetics, Leibniz Institute for Plant Genetics and Crop Plant Research (IPK) OT Gatersleben, Correnstr. 3, D-06466 Seeland, Germany
| | - Sara Leite Dias
- Metabolite Diversity Group, Department of Molecular Genetics, Leibniz Institute for Plant Genetics and Crop Plant Research (IPK) OT Gatersleben, Correnstr. 3, D-06466 Seeland, Germany
| | - John C D'Auria
- Metabolite Diversity Group, Department of Molecular Genetics, Leibniz Institute for Plant Genetics and Crop Plant Research (IPK) OT Gatersleben, Correnstr. 3, D-06466 Seeland, Germany.
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18
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Domka A, Jędrzejczyk R, Ważny R, Gustab M, Kowalski M, Nosek M, Bizan J, Puschenreiter M, Vaculίk M, Kováč J, Rozpądek P. Endophytic yeast protect plants against metal toxicity by inhibiting plant metal uptake through an ethylene-dependent mechanism. PLANT, CELL & ENVIRONMENT 2023; 46:268-287. [PMID: 36286193 PMCID: PMC10100480 DOI: 10.1111/pce.14473] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/15/2022] [Revised: 10/12/2022] [Accepted: 10/16/2022] [Indexed: 05/19/2023]
Abstract
Toxic metal pollution requires significant adjustments in plant metabolism. Here, we show that the plant microbiota plays an important role in this process. The endophytic Sporobolomyces ruberrimus isolated from a serpentine population of Arabidopsis arenosa protected plants against excess metals. Coculture with its native host and Arabidopsis thaliana inhibited Fe and Ni uptake. It had no effect on host Zn and Cd uptake. Fe uptake inhibition was confirmed in wheat and rape. Our investigations show that, for the metal inhibitory effect, the interference of microorganisms in plant ethylene homeostasis is necessary. Application of an ethylene synthesis inhibitor, as well as loss-of-function mutations in canonical ethylene signalling genes, prevented metal uptake inhibition by the fungus. Coculture with S. ruberrimus significantly changed the expression of Fe homeostasis genes: IRT1, OPT3, OPT6, bHLH38 and bHLH39 in wild-type (WT) A. thaliana. The expression pattern of these genes in WT plants and in the ethylene signalling defective mutants significantly differed and coincided with the plant accumulation phenotype. Most notably, down-regulation of the expression of IRT1 solely in WT was necessary for the inhibition of metal uptake in plants. This study shows that microorganisms optimize plant Fe and Ni uptake by fine-tuning plant metal homeostasis.
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Affiliation(s)
- Agnieszka Domka
- Malopolska Centre of BiotechnologyJagiellonian University in KrakówKrakówPoland
| | - Roman Jędrzejczyk
- Malopolska Centre of BiotechnologyJagiellonian University in KrakówKrakówPoland
| | - Rafał Ważny
- Malopolska Centre of BiotechnologyJagiellonian University in KrakówKrakówPoland
| | - Maciej Gustab
- Malopolska Centre of BiotechnologyJagiellonian University in KrakówKrakówPoland
| | - Michał Kowalski
- Malopolska Centre of BiotechnologyJagiellonian University in KrakówKrakówPoland
| | - Michał Nosek
- Institute of BiologyPedagogical University of KrakówKrakówPoland
| | - Jakub Bizan
- Malopolska Centre of BiotechnologyJagiellonian University in KrakówKrakówPoland
| | - Markus Puschenreiter
- Vienna, Department of Forest and Soil Sciences, Institute of Soil ResearchUniversity of Natural Resources and Life SciencesTullnAustria
| | - Marek Vaculίk
- Institute of Botany, Plant Science and Biodiversity CentreSlovak Academy of SciencesBratislavaSlovakia
- Department of Plant Physiology, Faculty of Natural SciencesComenius University in BratislavaBratislavaSlovakia
| | - Ján Kováč
- Institute of Botany, Plant Science and Biodiversity CentreSlovak Academy of SciencesBratislavaSlovakia
- Department of Plant Physiology, Faculty of Natural SciencesComenius University in BratislavaBratislavaSlovakia
| | - Piotr Rozpądek
- Malopolska Centre of BiotechnologyJagiellonian University in KrakówKrakówPoland
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19
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Spielmann J, Cointry V, Devime F, Ravanel S, Neveu J, Vert G. Differential metal sensing and metal-dependent degradation of the broad spectrum root metal transporter IRT1. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2022; 112:1252-1265. [PMID: 36269689 DOI: 10.1111/tpj.16010] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/27/2022] [Revised: 10/09/2022] [Accepted: 10/13/2022] [Indexed: 06/16/2023]
Abstract
Iron is an essential micronutrient for plant growth and development. Under low iron conditions, Arabidopsis plants take up soil iron using the root iron transporter IRT1. In addition to iron, IRT1 also transports others divalent metals, including cadmium, which consequently accumulates into plant tissues and enters the food chain. IRT1 expression was shown to be regulated at the transcriptional and post-translational levels by its essential metal substrates to maximize iron uptake while limiting the accumulation of zinc, manganese, or cobalt. Here, we characterized the regulation of IRT1 by cadmium. A short-term exposure to cadmium decreased the cell surface levels of IRT1 through endocytosis and degradation, but with a lower efficiency than observed for other IRT1 metal substrates. We demonstrated that IRT1 endocytosis in response to cadmium is mediated through the direct binding of cadmium to histidine residues within the regulatory loop of IRT1. However, we revealed that the affinity of the metal sensing motif is much lower for cadmium compared to other metal substrates of IRT1. Finally, we proved that cadmium-induced IRT1 degradation takes place through ubiquitin-mediated endocytosis driven by the UBC35/36 E2 ubiquitin-conjugating enzymes and the IDF1 E3 ubiquitin ligase. Altogether, this work sheds light on the mechanisms of cadmium-mediated downregulation of IRT1 and provides an additional molecular basis for cadmium accumulation and toxicity in plants.
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Affiliation(s)
- Julien Spielmann
- Plant Science Research Laboratory (LRSV), UMR5546 CNRS/Université Toulouse 3/Toulouse-INP, 24 chemin de Borde Rouge, 31320, Auzeville Tolosane, France
| | - Virginia Cointry
- Plant Science Research Laboratory (LRSV), UMR5546 CNRS/Université Toulouse 3/Toulouse-INP, 24 chemin de Borde Rouge, 31320, Auzeville Tolosane, France
| | - Fabienne Devime
- University of Grenoble Alpes, CEA, INRA, CNRS, IRIG, PCV, 17 Avenue des Martyrs, 38000, Grenoble, France
| | - Stéphane Ravanel
- University of Grenoble Alpes, CEA, INRA, CNRS, IRIG, PCV, 17 Avenue des Martyrs, 38000, Grenoble, France
| | - Julie Neveu
- Plant Science Research Laboratory (LRSV), UMR5546 CNRS/Université Toulouse 3/Toulouse-INP, 24 chemin de Borde Rouge, 31320, Auzeville Tolosane, France
| | - Grégory Vert
- Plant Science Research Laboratory (LRSV), UMR5546 CNRS/Université Toulouse 3/Toulouse-INP, 24 chemin de Borde Rouge, 31320, Auzeville Tolosane, France
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20
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Attuluri VPS, Sánchez López JF, Maier L, Paruch K, Robert HS. Comparing the efficiency of six clearing methods in developing seeds of Arabidopsis thaliana. PLANT REPRODUCTION 2022; 35:279-293. [PMID: 36378346 PMCID: PMC9705463 DOI: 10.1007/s00497-022-00453-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/12/2022] [Accepted: 11/02/2022] [Indexed: 06/16/2023]
Abstract
ClearSee alpha and FAST9 were optimized for imaging Arabidopsis seeds up to the torpedo stages. The methods preserve the fluorescence of reporter proteins and seed shape, allowing phenotyping embryos in intact seeds. Tissue clearing methods eliminate the need for sectioning, thereby helping better understand the 3D organization of tissues and organs. In the past fifteen years, clearing methods have been developed to preserve endogenous fluorescent protein tags. Some of these methods (ClearSee, TDE, PEA-Clarity, etc.) were adapted to clear various plant species, with the focus on roots, leaves, shoot apical meristems, and floral parts. However, these methods have not been used in developing seeds beyond the early globular stage. Tissue clearing is problematic in post-globular seeds due to various apoplastic barriers and secondary metabolites. In this study, we compared six methods for their efficiency in clearing Arabidopsis thaliana seeds at post-globular embryonic stages. Three methods (TDE, ClearSee, and ClearSee alpha) have already been reported in plants, whereas the others (fsDISCO, FAST9, and CHAPS clear) are used in this context for the first time. These methods were assessed for seed morphological changes, clearing capacity, removal of tannins, and spectral properties. We tested each method in seeds from globular to mature stages. The pros and cons of each method are listed herein. ClearSee alpha appears to be the method of choice as it preserves seed morphology and prevents tannin oxidation. However, FAST9 with 60% iohexol as a mounting medium is faster, clears better, and appears suitable for embryonic shape imaging. Our results may guide plant researchers to choose a suitable method for imaging fluorescent protein-labeled embryos in intact Arabidopsis seeds.
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Affiliation(s)
- Venkata Pardha Saradhi Attuluri
- Mendel Centre for Genomics and Proteomics of Plants, Central European Institute of Technology (CEITEC), Masaryk University, Brno, Czech Republic
| | - Juan Francisco Sánchez López
- Mendel Centre for Genomics and Proteomics of Plants, Central European Institute of Technology (CEITEC), Masaryk University, Brno, Czech Republic
- National Centre for Biomolecular Research, Faculty of Science, Masaryk University, Brno, Czech Republic
| | - Lukáš Maier
- Department of Chemistry, Faculty of Science, Masaryk University, Brno, Czech Republic
- International Clinical Research Center, Center for Biomolecular and Cellular Engineering, St. Anne's University Hospital Brno, 602 00, Brno, Czech Republic
| | - Kamil Paruch
- Department of Chemistry, Faculty of Science, Masaryk University, Brno, Czech Republic
- International Clinical Research Center, Center for Biomolecular and Cellular Engineering, St. Anne's University Hospital Brno, 602 00, Brno, Czech Republic
| | - Hélène S Robert
- Mendel Centre for Genomics and Proteomics of Plants, Central European Institute of Technology (CEITEC), Masaryk University, Brno, Czech Republic.
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21
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Synthetic memory circuits for stable cell reprogramming in plants. Nat Biotechnol 2022; 40:1862-1872. [PMID: 35788565 DOI: 10.1038/s41587-022-01383-2] [Citation(s) in RCA: 30] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2022] [Accepted: 06/01/2022] [Indexed: 01/14/2023]
Abstract
Plant biotechnology predominantly relies on a restricted set of genetic parts with limited capability to customize spatiotemporal and conditional expression patterns. Synthetic gene circuits have the potential to integrate multiple customizable input signals through a processing unit constructed from biological parts to produce a predictable and programmable output. Here we present a suite of functional recombinase-based gene circuits for use in plants. We first established a range of key gene circuit components compatible with plant cell functionality. We then used these to develop a range of operational logic gates using the identify function (activation) and negation function (repression) in Arabidopsis protoplasts and in vivo, demonstrating their utility for programmable manipulation of transcriptional activity in a complex multicellular organism. Specifically, using recombinases and plant control elements, we activated transgenes in YES, OR and AND gates and repressed them in NOT, NOR and NAND gates; we also implemented the A NIMPLY B gate that combines activation and repression. Through use of genetic recombination, these circuits create stable long-term changes in expression and recording of past stimuli. This highly compact programmable gene circuit platform provides new capabilities for engineering sophisticated transcriptional programs and previously unrealized traits into plants.
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22
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Feiguelman G, Cui X, Sternberg H, Hur EB, Higa T, Oda Y, Fu Y, Yalovsky S. Microtubule-associated ROP interactors affect microtubule dynamics and modulate cell wall patterning and root hair growth. Development 2022; 149:279331. [PMID: 36314989 PMCID: PMC9845754 DOI: 10.1242/dev.200811] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2022] [Accepted: 10/24/2022] [Indexed: 11/22/2022]
Abstract
Rho of plant (ROP) proteins and the interactor of constitutively active ROP (ICR) family member ICR5/MIDD1 have been implicated to function as signaling modules that regulate metaxylem secondary cell wall patterning. Yet, loss-of-function mutants of ICR5 and its closest homologs have not been studied and, hence, the functions of these ICR family members are not fully established. Here, we studied the functions of ICR2 and its homolog ICR5. We show that ICR2 is a microtubule-associated protein that affects microtubule dynamics. Secondary cell wall pits in the metaxylem of Arabidopsis icr2 and icr5 single mutants and icr2 icr5 double mutants are smaller than those in wild-type Col-0 seedlings; however, they are remarkably denser, implying a complex function of ICRs in secondary cell wall patterning. ICR5 has a unique function in protoxylem secondary cell wall patterning, whereas icr2, but not icr5, mutants develop split root hairs, demonstrating functional diversification. Taken together, our results show that ICR2 and ICR5 have unique and cooperative functions as microtubule-associated proteins and as ROP effectors.
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Affiliation(s)
- Gil Feiguelman
- School of Plant Sciences and Food Security, Tel Aviv University, Tel Aviv 6997801, Israel
| | - Xiankui Cui
- State Key Laboratory of Plant Physiology and Biochemistry, College of Biological Sciences, China Agricultural University, Beijing 100193, China
| | - Hasana Sternberg
- School of Plant Sciences and Food Security, Tel Aviv University, Tel Aviv 6997801, Israel
| | - Eliran Ben Hur
- School of Plant Sciences and Food Security, Tel Aviv University, Tel Aviv 6997801, Israel
| | - Takeshi Higa
- Department of Gene Phenomics and Function, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan
| | - Yoshihisa Oda
- Department of Gene Phenomics and Function, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan,Department of Genetics, School of Life Science, The Graduate University for Advanced Studies, SOKENDAI, Mishima, Shizuoka 411-8540, Japan
| | - Ying Fu
- State Key Laboratory of Plant Physiology and Biochemistry, College of Biological Sciences, China Agricultural University, Beijing 100193, China,Joint Laboratory for International Cooperation in Crop Molecular Breeding, Ministry of Education, Beijing 100193, China
| | - Shaul Yalovsky
- School of Plant Sciences and Food Security, Tel Aviv University, Tel Aviv 6997801, Israel,Author for correspondence (; )
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23
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Moreau H, Gaillard I, Paris N. Genetically encoded fluorescent sensors adapted to acidic pH highlight subdomains within the plant cell apoplast. JOURNAL OF EXPERIMENTAL BOTANY 2022; 73:6744-6757. [PMID: 35604912 DOI: 10.1093/jxb/erac210] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2021] [Accepted: 05/19/2022] [Indexed: 06/15/2023]
Abstract
Monitoring pH is one of the challenges in understanding diverse physiological regulations as well as ionic balance, especially in highly acidic environments such as the apoplast and the vacuole. To circumvent the poor efficiency of pH measurements below pH 5, we designed three genetically encoded sensors composed of two fluorescent proteins in tandem. We selected fluorescent protein pairs of low but sufficiently different pKa so that each protein could differentially sense the imposed pH. The generated tandems, named Acidin2, Acidin3, and Acidin4, were produced in Escherichia coli and extensively characterized. Altogether, these generated tandems cover a pH range of 3-8. The Acidins were targeted either for release in the apoplast (Apo) or for anchoring at the outer face of the plasma membrane (PM-Apo), with the fluorescent part exposed in the apoplast. Apoplastic Acidins in stably transformed Arabidopsis thaliana primary roots responded immediately and reversibly to pH changes, directly reporting physiological conditions related to cell elongation. In addition, membrane-anchored Acidins reveal a gradual acidification from the surface through the anticlinal wall of pavement cells, a process controlled at least partially by H+-ATPase activity.
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Affiliation(s)
- Hortense Moreau
- IPSiM, Univ Montpellier, CNRS, INRAE, Montpellier SupAgro, Montpellier, France
| | - Isabelle Gaillard
- IPSiM, Univ Montpellier, CNRS, INRAE, Montpellier SupAgro, Montpellier, France
| | - Nadine Paris
- IPSiM, Univ Montpellier, CNRS, INRAE, Montpellier SupAgro, Montpellier, France
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24
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Brophy JAN, Magallon KJ, Duan L, Zhong V, Ramachandran P, Kniazev K, Dinneny JR. Synthetic genetic circuits as a means of reprogramming plant roots. Science 2022; 377:747-751. [PMID: 35951698 DOI: 10.1126/science.abo4326] [Citation(s) in RCA: 52] [Impact Index Per Article: 26.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022]
Abstract
The shape of a plant's root system influences its ability to reach essential nutrients in the soil and to acquire water during drought. Progress in engineering plant roots to optimize water and nutrient acquisition has been limited by our capacity to design and build genetic programs that alter root growth in a predictable manner. We developed a collection of synthetic transcriptional regulators for plants that can be compiled to create genetic circuits. These circuits control gene expression by performing Boolean logic operations and can be used to predictably alter root structure. This work demonstrates the potential of synthetic genetic circuits to control gene expression across tissues and reprogram plant growth.
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Affiliation(s)
- Jennifer A N Brophy
- Department of Biology, Stanford University, Stanford, CA, USA.,Department of Bioengineering, Stanford University, Stanford, CA, USA
| | | | - Lina Duan
- Department of Biology, Stanford University, Stanford, CA, USA
| | - Vivian Zhong
- Department of Bioengineering, Stanford University, Stanford, CA, USA
| | | | - Kiril Kniazev
- Department of Biology, Stanford University, Stanford, CA, USA
| | - José R Dinneny
- Department of Biology, Stanford University, Stanford, CA, USA
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25
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Song M, Zhang X, Yang J, Gao C, Wei Y, Chen S, Liesche J. Arabidopsis plants engineered for high root sugar secretion enhance the diversity of soil microorganisms. Biotechnol J 2022; 17:e2100638. [PMID: 35894173 DOI: 10.1002/biot.202100638] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2021] [Revised: 07/21/2022] [Accepted: 07/23/2022] [Indexed: 11/06/2022]
Abstract
Plants secrete sugars from their roots into the soil, presumably to support beneficial plant-microbe interactions. Accordingly, manipulation of sugar secretion might be a viable strategy to enhance plant health and productivity. To evaluate the effect of increased root sugar secretion on plant performance and the soil microbiome, we overexpressed glucose and sucrose-specific membrane transporters in root epidermal cells of the model plant Arabidopsis thaliana. These plants showed strongly increased rates of sugar secretion in a hydroponic culture system. When grown on soil, the transporter-overexpressor plants displayed a higher photosynthesis rate, but reduced shoot growth compared to the wild-type control. Amplicon sequencing and qPCR analysis of rhizosphere soil samples indicated a limited effect on the total abundance of bacteria and fungi, but a strong effect on community structure in soil samples associated with the overexpressors. Notable changes included the increased abundance of bacteria belonging to the genus Rhodanobacter and the fungi belonging to the genus Cutaneotrichosporon, while Candida species abundance was reduced. The potential influences of the altered soil microbiome on plant health and productivity are discussed. The results indicate that the engineering of sugar secretion can be a viable pathway to enhancing the carbon sequestration rate and optimizing the soil microbiome. This article is protected by copyright. All rights reserved.
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Affiliation(s)
- Min Song
- College of Life Sciences, Northwest A&F University, Yangling, 712100, China.,Biomass Energy Center for Arid and Semiarid Lands, Northwest A&F University, Yangling, 712100, China.,State Key Laboratory of Stress Biology for Arid Areas, Northwest A&F University, Yangling, 712100, China
| | - Xingjian Zhang
- College of Life Sciences, Northwest A&F University, Yangling, 712100, China.,Biomass Energy Center for Arid and Semiarid Lands, Northwest A&F University, Yangling, 712100, China.,State Key Laboratory of Stress Biology for Arid Areas, Northwest A&F University, Yangling, 712100, China
| | - Jintao Yang
- College of Life Sciences, Northwest A&F University, Yangling, 712100, China.,Biomass Energy Center for Arid and Semiarid Lands, Northwest A&F University, Yangling, 712100, China.,State Key Laboratory of Stress Biology for Arid Areas, Northwest A&F University, Yangling, 712100, China
| | - Chen Gao
- Department of Plant and Environmental Sciences, University of Copenhagen, Frederiksberg, 1871, Denmark
| | - Yahong Wei
- College of Life Sciences, Northwest A&F University, Yangling, 712100, China.,Biomass Energy Center for Arid and Semiarid Lands, Northwest A&F University, Yangling, 712100, China
| | - Shaolin Chen
- College of Life Sciences, Northwest A&F University, Yangling, 712100, China.,Biomass Energy Center for Arid and Semiarid Lands, Northwest A&F University, Yangling, 712100, China
| | - Johannes Liesche
- College of Life Sciences, Northwest A&F University, Yangling, 712100, China.,Biomass Energy Center for Arid and Semiarid Lands, Northwest A&F University, Yangling, 712100, China.,State Key Laboratory of Stress Biology for Arid Areas, Northwest A&F University, Yangling, 712100, China
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26
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Neumann M, Xu X, Smaczniak C, Schumacher J, Yan W, Blüthgen N, Greb T, Jönsson H, Traas J, Kaufmann K, Muino JM. A 3D gene expression atlas of the floral meristem based on spatial reconstruction of single nucleus RNA sequencing data. Nat Commun 2022; 13:2838. [PMID: 35595749 PMCID: PMC9122980 DOI: 10.1038/s41467-022-30177-y] [Citation(s) in RCA: 21] [Impact Index Per Article: 10.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2021] [Accepted: 04/20/2022] [Indexed: 12/15/2022] Open
Abstract
Cellular heterogeneity in growth and differentiation results in organ patterning. Single-cell transcriptomics allows characterization of gene expression heterogeneity in developing organs at unprecedented resolution. However, the original physical location of the cell is lost during this methodology. To recover the original location of cells in the developing organ is essential to link gene activity with cellular identity and function in plants. Here, we propose a method to reconstruct genome-wide gene expression patterns of individual cells in a 3D flower meristem by combining single-nuclei RNA-seq with microcopy-based 3D spatial reconstruction. By this, gene expression differences among meristematic domains giving rise to different tissue and organ types can be determined. As a proof of principle, the method is used to trace the initiation of vascular identity within the floral meristem. Our work demonstrates the power of spatially reconstructed single cell transcriptome atlases to understand plant morphogenesis. The floral meristem 3D gene expression atlas can be accessed at http://threed-flower-meristem.herokuapp.com. Single-cell transcriptomics allows gene expression heterogeneity to be assessed at cellular resolution but the original location of each cell is unknown. Here the authors combine single nuclei RNA-seq with 3D spatial reconstruction of floral meristems to link gene activities with morphology.
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Affiliation(s)
- Manuel Neumann
- Plant Cell and Molecular Biology, Humboldt-Universität zu Berlin, Institute of Biology, Berlin, Germany
| | - Xiaocai Xu
- Plant Cell and Molecular Biology, Humboldt-Universität zu Berlin, Institute of Biology, Berlin, Germany
| | - Cezary Smaczniak
- Plant Cell and Molecular Biology, Humboldt-Universität zu Berlin, Institute of Biology, Berlin, Germany
| | - Julia Schumacher
- Plant Cell and Molecular Biology, Humboldt-Universität zu Berlin, Institute of Biology, Berlin, Germany
| | - Wenhao Yan
- Plant Cell and Molecular Biology, Humboldt-Universität zu Berlin, Institute of Biology, Berlin, Germany
| | - Nils Blüthgen
- Institute of Pathology, Charité - Universitätsmedizin Berlin, Charitéplatz 1, 10117, Berlin, Germany
| | - Thomas Greb
- Department of Developmental Physiology, Centre for Organismal Studies (COS), Heidelberg University, Im Neuenheimer Feld 360, 69120, Heidelberg, Germany
| | - Henrik Jönsson
- The Sainsbury Laboratory, University of Cambridge, Bateman Street, Cambridge, CB2 1LR, UK
| | - Jan Traas
- Laboratoire RDP, Université de Lyon 1, ENS-Lyon, INRAE, CNRS, UCBL, 69364, Lyon, France
| | - Kerstin Kaufmann
- Plant Cell and Molecular Biology, Humboldt-Universität zu Berlin, Institute of Biology, Berlin, Germany
| | - Jose M Muino
- Systems Biology of Gene Regulation, Humboldt-Universität zu Berlin, Institute of Biology, Berlin, Germany.
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27
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Quintana J, Bernal M, Scholle M, Holländer-Czytko H, Nguyen NT, Piotrowski M, Mendoza-Cózatl DG, Haydon MJ, Krämer U. Root-to-shoot iron partitioning in Arabidopsis requires IRON-REGULATED TRANSPORTER1 (IRT1) protein but not its iron(II) transport function. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2022; 109:992-1013. [PMID: 34839543 DOI: 10.1111/tpj.15611] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/22/2021] [Revised: 11/11/2021] [Accepted: 11/15/2021] [Indexed: 05/26/2023]
Abstract
IRON-REGULATED TRANSPORTER1 (IRT1) is the root high-affinity ferrous iron (Fe) uptake system and indispensable for the completion of the life cycle of Arabidopsis thaliana without vigorous Fe supplementation. Here we provide evidence supporting a second role of IRT1 in root-to-shoot partitioning of Fe. We show that irt1 mutants overaccumulate Fe in roots, most prominently in the cortex of the differentiation zone in irt1-2, compared to the wild type. Shoots of irt1-2 are severely Fe-deficient according to Fe content and marker transcripts, as expected. We generated irt1-2 lines producing IRT1 mutant variants carrying single amino-acid substitutions of key residues in transmembrane helices IV and V, Ser206 and His232, which are required for transport activity in yeast. Root short-term 55 Fe uptake rates were uninformative concerning IRT1-mediated transport. Overall irt1-like concentrations of the secondary substrate Mn suggested that the transgenic Arabidopsis lines also remain incapable of IRT1-mediated root Fe uptake. Yet, IRT1S206A partially complements rosette dwarfing and leaf chlorosis of irt1-2, as well as root-to-shoot Fe partitioning and gene expression defects of irt1-2, all of which are fully complemented by wild-type IRT1. Taken together, these results suggest a regulatory function for IRT1 in root-to-shoot Fe partitioning that does not require Fe transport activity of IRT1. Among the genes of which transcript levels are partially dependent on IRT1, we identify MYB DOMAIN PROTEIN10, MYB DOMAIN PROTEIN72 and NICOTIANAMINE SYNTHASE4 as candidates for effecting IRT1-dependent Fe mobilization in roots. Understanding the biological functions of IRT1 will help to improve Fe nutrition and the nutritional quality of agricultural crops.
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Affiliation(s)
- Julia Quintana
- Faculty of Biology and Biotechnology, Ruhr University Bochum, 44801, Bochum, Germany
| | - María Bernal
- Faculty of Biology and Biotechnology, Ruhr University Bochum, 44801, Bochum, Germany
- Department of Plant Nutrition, Estación Experimental de Aula Dei-CSIC, 50059, Zaragoza, Spain
| | - Marleen Scholle
- Faculty of Biology and Biotechnology, Ruhr University Bochum, 44801, Bochum, Germany
| | | | - Nga T Nguyen
- Division of Plant Sciences, MU-Columbia, Columbia, MO, 65211-7310, USA
| | - Markus Piotrowski
- Faculty of Biology and Biotechnology, Ruhr University Bochum, 44801, Bochum, Germany
| | | | - Michael J Haydon
- Faculty of Biology and Biotechnology, Ruhr University Bochum, 44801, Bochum, Germany
| | - Ute Krämer
- Faculty of Biology and Biotechnology, Ruhr University Bochum, 44801, Bochum, Germany
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28
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Quintana J, Bernal M, Scholle M, Holländer-Czytko H, Nguyen NT, Piotrowski M, Mendoza-Cózatl DG, Haydon MJ, Krämer U. Root-to-shoot iron partitioning in Arabidopsis requires IRON-REGULATED TRANSPORTER1 (IRT1) protein but not its iron(II) transport function. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2022; 109:992-1013. [PMID: 34839543 DOI: 10.1101/2021.02.08.430285] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/22/2021] [Revised: 11/11/2021] [Accepted: 11/15/2021] [Indexed: 05/29/2023]
Abstract
IRON-REGULATED TRANSPORTER1 (IRT1) is the root high-affinity ferrous iron (Fe) uptake system and indispensable for the completion of the life cycle of Arabidopsis thaliana without vigorous Fe supplementation. Here we provide evidence supporting a second role of IRT1 in root-to-shoot partitioning of Fe. We show that irt1 mutants overaccumulate Fe in roots, most prominently in the cortex of the differentiation zone in irt1-2, compared to the wild type. Shoots of irt1-2 are severely Fe-deficient according to Fe content and marker transcripts, as expected. We generated irt1-2 lines producing IRT1 mutant variants carrying single amino-acid substitutions of key residues in transmembrane helices IV and V, Ser206 and His232, which are required for transport activity in yeast. Root short-term 55 Fe uptake rates were uninformative concerning IRT1-mediated transport. Overall irt1-like concentrations of the secondary substrate Mn suggested that the transgenic Arabidopsis lines also remain incapable of IRT1-mediated root Fe uptake. Yet, IRT1S206A partially complements rosette dwarfing and leaf chlorosis of irt1-2, as well as root-to-shoot Fe partitioning and gene expression defects of irt1-2, all of which are fully complemented by wild-type IRT1. Taken together, these results suggest a regulatory function for IRT1 in root-to-shoot Fe partitioning that does not require Fe transport activity of IRT1. Among the genes of which transcript levels are partially dependent on IRT1, we identify MYB DOMAIN PROTEIN10, MYB DOMAIN PROTEIN72 and NICOTIANAMINE SYNTHASE4 as candidates for effecting IRT1-dependent Fe mobilization in roots. Understanding the biological functions of IRT1 will help to improve Fe nutrition and the nutritional quality of agricultural crops.
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Affiliation(s)
- Julia Quintana
- Faculty of Biology and Biotechnology, Ruhr University Bochum, 44801, Bochum, Germany
| | - María Bernal
- Faculty of Biology and Biotechnology, Ruhr University Bochum, 44801, Bochum, Germany
- Department of Plant Nutrition, Estación Experimental de Aula Dei-CSIC, 50059, Zaragoza, Spain
| | - Marleen Scholle
- Faculty of Biology and Biotechnology, Ruhr University Bochum, 44801, Bochum, Germany
| | | | - Nga T Nguyen
- Division of Plant Sciences, MU-Columbia, Columbia, MO, 65211-7310, USA
| | - Markus Piotrowski
- Faculty of Biology and Biotechnology, Ruhr University Bochum, 44801, Bochum, Germany
| | | | - Michael J Haydon
- Faculty of Biology and Biotechnology, Ruhr University Bochum, 44801, Bochum, Germany
| | - Ute Krämer
- Faculty of Biology and Biotechnology, Ruhr University Bochum, 44801, Bochum, Germany
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29
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Noack LC, Bayle V, Armengot L, Rozier F, Mamode-Cassim A, Stevens FD, Caillaud MC, Munnik T, Mongrand S, Pleskot R, Jaillais Y. A nanodomain-anchored scaffolding complex is required for the function and localization of phosphatidylinositol 4-kinase alpha in plants. THE PLANT CELL 2022; 34:302-332. [PMID: 34010411 PMCID: PMC8774046 DOI: 10.1093/plcell/koab135] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/14/2020] [Accepted: 05/10/2021] [Indexed: 05/24/2023]
Abstract
Phosphoinositides are low-abundant lipids that participate in the acquisition of membrane identity through their spatiotemporal enrichment in specific compartments. Phosphatidylinositol 4-phosphate (PI4P) accumulates at the plant plasma membrane driving its high electrostatic potential, and thereby facilitating interactions with polybasic regions of proteins. PI4Kα1 has been suggested to produce PI4P at the plasma membrane, but how it is recruited to this compartment is unknown. Here, we pin-point the mechanism that tethers Arabidopsis thaliana phosphatidylinositol 4-kinase alpha1 (PI4Kα1) to the plasma membrane via a nanodomain-anchored scaffolding complex. We established that PI4Kα1 is part of a complex composed of proteins from the NO-POLLEN-GERMINATION, EFR3-OF-PLANTS, and HYCCIN-CONTAINING families. Comprehensive knockout and knockdown strategies revealed that subunits of the PI4Kα1 complex are essential for pollen, embryonic, and post-embryonic development. We further found that the PI4Kα1 complex is immobilized in plasma membrane nanodomains. Using synthetic mis-targeting strategies, we demonstrate that a combination of lipid anchoring and scaffolding localizes PI4Kα1 to the plasma membrane, which is essential for its function. Together, this work opens perspectives on the mechanisms and function of plasma membrane nanopatterning by lipid kinases.
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Affiliation(s)
- Lise C Noack
- Laboratoire Reproduction et Développement des Plantes, Univ Lyon, ENS de Lyon, Université Claude Bernard Lyon 1, CNRS, INRAE, F-69342, Lyon, France
| | - Vincent Bayle
- Laboratoire Reproduction et Développement des Plantes, Univ Lyon, ENS de Lyon, Université Claude Bernard Lyon 1, CNRS, INRAE, F-69342, Lyon, France
| | - Laia Armengot
- Laboratoire Reproduction et Développement des Plantes, Univ Lyon, ENS de Lyon, Université Claude Bernard Lyon 1, CNRS, INRAE, F-69342, Lyon, France
| | - Frédérique Rozier
- Laboratoire Reproduction et Développement des Plantes, Univ Lyon, ENS de Lyon, Université Claude Bernard Lyon 1, CNRS, INRAE, F-69342, Lyon, France
| | - Adiilah Mamode-Cassim
- Laboratoire de Biogenèse Membranaire, UMR5200, Université de Bordeaux, CNRS, 33140 Villenave d’Ornon, France
- Agroécologie, AgroSup Dijon, CNRS, INRA, University Bourgogne Franche-Comté, F-21000 Dijon, France
| | - Floris D Stevens
- Research Cluster Green Life Sciences, Section Plant Cell Biology, Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, 1090 GE, The Netherlands
| | - Marie-Cécile Caillaud
- Laboratoire Reproduction et Développement des Plantes, Univ Lyon, ENS de Lyon, Université Claude Bernard Lyon 1, CNRS, INRAE, F-69342, Lyon, France
| | - Teun Munnik
- Research Cluster Green Life Sciences, Section Plant Cell Biology, Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, 1090 GE, The Netherlands
| | - Sébastien Mongrand
- Laboratoire de Biogenèse Membranaire, UMR5200, Université de Bordeaux, CNRS, 33140 Villenave d’Ornon, France
| | - Roman Pleskot
- Institute of Experimental Botany, Academy of Sciences of the Czech Republic, 16502 Prague 6, Czech Republic
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30
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McKay DW, McFarlane HE, Qu Y, Situmorang A, Gilliham M, Wege S. Plant Trans-Golgi Network/Early Endosome pH regulation requires Cation Chloride Cotransporter (CCC1). eLife 2022; 11:70701. [PMID: 34989335 PMCID: PMC8791640 DOI: 10.7554/elife.70701] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2021] [Accepted: 01/05/2022] [Indexed: 01/04/2023] Open
Abstract
Plant cells maintain a low luminal pH in the trans-Golgi-network/early endosome (TGN/EE), the organelle in which the secretory and endocytic pathways intersect. Impaired TGN/EE pH regulation translates into severe plant growth defects. The identity of the proton pump and proton/ion antiporters that regulate TGN/EE pH have been determined, but an essential component required to complete the TGN/EE membrane transport circuit remains unidentified − a pathway for cation and anion efflux. Here, we have used complementation, genetically encoded fluorescent sensors, and pharmacological treatments to demonstrate that Arabidopsis cation chloride cotransporter (CCC1) is this missing component necessary for regulating TGN/EE pH and function. Loss of CCC1 function leads to alterations in TGN/EE-mediated processes including endocytic trafficking, exocytosis, and response to abiotic stress, consistent with the multitude of phenotypic defects observed in ccc1 knockout plants. This discovery places CCC1 as a central component of plant cellular function.
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Affiliation(s)
- Daniel W McKay
- School of Agriculture, Food and Wine, Waite Research Institute, ARC Centre of Excellence in Plant Energy Biology, University of Adelaide, Waite Campus, Adelaide, Australia
| | - Heather E McFarlane
- School of Biosciences, University of Melbourne, Melbourne, Australia.,Department of Cell and Systems Biology, University of Toronto, Toronto, Canada
| | - Yue Qu
- School of Agriculture, Food and Wine, Waite Research Institute, ARC Centre of Excellence in Plant Energy Biology, University of Adelaide, Waite Campus, Adelaide, Australia
| | - Apriadi Situmorang
- School of Agriculture, Food and Wine, Waite Research Institute, ARC Centre of Excellence in Plant Energy Biology, University of Adelaide, Waite Campus, Adelaide, Australia
| | - Matthew Gilliham
- School of Agriculture, Food and Wine, Waite Research Institute, ARC Centre of Excellence in Plant Energy Biology, University of Adelaide, Waite Campus, Adelaide, Australia
| | - Stefanie Wege
- School of Agriculture, Food and Wine, Waite Research Institute, ARC Centre of Excellence in Plant Energy Biology, University of Adelaide, Waite Campus, Adelaide, Australia
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31
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Li L, Verstraeten I, Roosjen M, Takahashi K, Rodriguez L, Merrin J, Chen J, Shabala L, Smet W, Ren H, Vanneste S, Shabala S, De Rybel B, Weijers D, Kinoshita T, Gray WM, Friml J. Cell surface and intracellular auxin signalling for H + fluxes in root growth. Nature 2021; 599:273-277. [PMID: 34707283 PMCID: PMC7612300 DOI: 10.1038/s41586-021-04037-6] [Citation(s) in RCA: 92] [Impact Index Per Article: 30.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2021] [Accepted: 09/17/2021] [Indexed: 11/09/2022]
Abstract
Growth regulation tailors development in plants to their environment. A prominent example of this is the response to gravity, in which shoots bend up and roots bend down1. This paradox is based on opposite effects of the phytohormone auxin, which promotes cell expansion in shoots while inhibiting it in roots via a yet unknown cellular mechanism2. Here, by combining microfluidics, live imaging, genetic engineering and phosphoproteomics in Arabidopsis thaliana, we advance understanding of how auxin inhibits root growth. We show that auxin activates two distinct, antagonistically acting signalling pathways that converge on rapid regulation of apoplastic pH, a causative determinant of growth. Cell surface-based TRANSMEMBRANE KINASE1 (TMK1) interacts with and mediates phosphorylation and activation of plasma membrane H+-ATPases for apoplast acidification, while intracellular canonical auxin signalling promotes net cellular H+ influx, causing apoplast alkalinization. Simultaneous activation of these two counteracting mechanisms poises roots for rapid, fine-tuned growth modulation in navigating complex soil environments.
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Affiliation(s)
- Lanxin Li
- Institute of Science and Technology (IST) Austria, Klosterneuburg, Austria
| | - Inge Verstraeten
- Institute of Science and Technology (IST) Austria, Klosterneuburg, Austria
| | - Mark Roosjen
- Laboratory of Biochemistry, Department of Agrotechnology and Food Sciences, Wageningen University, Wageningen, the Netherlands
| | - Koji Takahashi
- Institute of Transformative Bio-Molecules, Division of Biological Science, Nagoya University Chikusa, Nagoya, Japan
- Graduate School of Science, Nagoya University Chikusa, Nagoya, Japan
| | - Lesia Rodriguez
- Institute of Science and Technology (IST) Austria, Klosterneuburg, Austria
| | - Jack Merrin
- Institute of Science and Technology (IST) Austria, Klosterneuburg, Austria
| | - Jian Chen
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Lana Shabala
- Tasmanian Institute of Agriculture, College of Science and Engineering, University of Tasmania, Hobart, Tasmania, Australia
| | - Wouter Smet
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Hong Ren
- Department of Plant & Microbial Biology, University of Minnesota, St. Paul, MN, USA
| | - Steffen Vanneste
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- Laboratory of Plant Growth Analysis, Ghent University Global Campus, Incheon, Republic of Korea
- Department of Plants and Crops, HortiCell, Ghent University, Ghent, Belgium
| | - Sergey Shabala
- Tasmanian Institute of Agriculture, College of Science and Engineering, University of Tasmania, Hobart, Tasmania, Australia
- International Research Centre for Environmental Membrane Biology, Foshan University, Foshan, China
| | - Bert De Rybel
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Dolf Weijers
- Laboratory of Biochemistry, Department of Agrotechnology and Food Sciences, Wageningen University, Wageningen, the Netherlands
| | - Toshinori Kinoshita
- Institute of Transformative Bio-Molecules, Division of Biological Science, Nagoya University Chikusa, Nagoya, Japan
- Graduate School of Science, Nagoya University Chikusa, Nagoya, Japan
| | - William M Gray
- Department of Plant & Microbial Biology, University of Minnesota, St. Paul, MN, USA
| | - Jiří Friml
- Institute of Science and Technology (IST) Austria, Klosterneuburg, Austria.
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32
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Yang B, Minne M, Brunoni F, Plačková L, Petřík I, Sun Y, Nolf J, Smet W, Verstaen K, Wendrich JR, Eekhout T, Hoyerová K, Van Isterdael G, Haustraete J, Bishopp A, Farcot E, Novák O, Saeys Y, De Rybel B. Non-cell autonomous and spatiotemporal signalling from a tissue organizer orchestrates root vascular development. NATURE PLANTS 2021; 7:1485-1494. [PMID: 34782768 PMCID: PMC7612341 DOI: 10.1038/s41477-021-01017-6] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/05/2021] [Accepted: 10/06/2021] [Indexed: 05/28/2023]
Abstract
During plant development, a precise balance of cytokinin is crucial for correct growth and patterning, but it remains unclear how this is achieved across different cell types and in the context of a growing organ. Here we show that in the root apical meristem, the TMO5/LHW complex increases active cytokinin levels via two cooperatively acting enzymes. By profiling the transcriptomic changes of increased cytokinin at single-cell level, we further show that this effect is counteracted by a tissue-specific increase in CYTOKININ OXIDASE 3 expression via direct activation of the mobile transcription factor SHORTROOT. In summary, we show that within the root meristem, xylem cells act as a local organizer of vascular development by non-autonomously regulating cytokinin levels in neighbouring procambium cells via sequential induction and repression modules.
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Affiliation(s)
- BaoJun Yang
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium.
- VIB Center for Plant Systems Biology, Ghent, Belgium.
| | - Max Minne
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Federica Brunoni
- Laboratory of Growth Regulators, Institute of Experimental Botany of the Czech Academy of Sciences and Faculty of Science of Palacký University, Olomouc, Czech Republic
| | - Lenka Plačková
- Laboratory of Growth Regulators, Institute of Experimental Botany of the Czech Academy of Sciences and Faculty of Science of Palacký University, Olomouc, Czech Republic
| | - Ivan Petřík
- Laboratory of Growth Regulators, Institute of Experimental Botany of the Czech Academy of Sciences and Faculty of Science of Palacký University, Olomouc, Czech Republic
| | - Yanbiao Sun
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Jonah Nolf
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Wouter Smet
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Kevin Verstaen
- Department of Applied Mathematics, Computer Science and Statistics, Ghent University, Ghent, Belgium
- VIB Center for Inflammation Research, Data Mining and Modelling for Biomedicine, Ghent, Belgium
| | - Jos R Wendrich
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Thomas Eekhout
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Klára Hoyerová
- Laboratory of Hormonal Regulations in Plants, Institute of Experimental Botany, Czech Academy of Sciences, Prague, Czech Republic
| | - Gert Van Isterdael
- VIB Flow Core, VIB Center for Inflammation Research, Ghent, Belgium
- Department of Biomedical Molecular Biology, Ghent University, Ghent, Belgium
| | - Jurgen Haustraete
- Department of Biomedical Molecular Biology, Ghent University, Ghent, Belgium
- VIB Protein Service Facility, VIB Center for Inflammation Research, Ghent, Belgium
| | - Anthony Bishopp
- School of Biosciences, University of Nottingham, Loughborough, UK
| | - Etienne Farcot
- School of Mathematical Sciences, University of Nottingham, Nottingham, UK
| | - Ondřej Novák
- Laboratory of Growth Regulators, Institute of Experimental Botany of the Czech Academy of Sciences and Faculty of Science of Palacký University, Olomouc, Czech Republic
| | - Yvan Saeys
- Department of Applied Mathematics, Computer Science and Statistics, Ghent University, Ghent, Belgium
- VIB Center for Inflammation Research, Data Mining and Modelling for Biomedicine, Ghent, Belgium
| | - Bert De Rybel
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium.
- VIB Center for Plant Systems Biology, Ghent, Belgium.
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33
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Gratz R, von der Mark C, Ivanov R, Brumbarova T. Fe acquisition at the crossroad of calcium and reactive oxygen species signaling. CURRENT OPINION IN PLANT BIOLOGY 2021; 63:102048. [PMID: 34015752 DOI: 10.1016/j.pbi.2021.102048] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/26/2021] [Revised: 03/10/2021] [Accepted: 03/30/2021] [Indexed: 06/12/2023]
Abstract
Due to its redox properties, iron is both essential and toxic. Therefore, soil iron availability variations pose a significant problem for plants. Recent evidence suggests that calcium and reactive oxygen species coordinate signaling events related to soil iron acquisition. Calcium was found to affect directly IRT1-mediated iron import through the lipid-binding protein EHB1 and to trigger a CBL-CIPK-mediated signaling influencing the activity of the key iron-acquisition transcription factor FIT. In parallel, under prolonged iron deficiency, reactive oxygen species both inhibit FIT function and depend on FIT through the function of the catalase CAT2. We discuss the role of calcium and reactive oxygen species signaling in iron acquisition, with post-translational mechanisms influencing the localization and activity of iron-acquisition regulators and effectors.
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Affiliation(s)
- Regina Gratz
- Department of Forest Ecology and Management, Swedish University of Agricultural Sciences, 90183 Umeå, Sweden
| | - Claudia von der Mark
- Group of Plant Vascular Development, Swiss Federal Institute of Technology (ETH) Zurich, 8092 Zurich, Switzerland
| | - Rumen Ivanov
- Institute of Botany, Heinrich Heine University, 40225 Düsseldorf, Germany
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34
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Betti F, Ladera-Carmona MJ, Weits DA, Ferri G, Iacopino S, Novi G, Svezia B, Kunkowska AB, Santaniello A, Piaggesi A, Loreti E, Perata P. Exogenous miRNAs induce post-transcriptional gene silencing in plants. NATURE PLANTS 2021; 7:1379-1388. [PMID: 34650259 PMCID: PMC8516643 DOI: 10.1038/s41477-021-01005-w] [Citation(s) in RCA: 41] [Impact Index Per Article: 13.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/12/2021] [Accepted: 08/25/2021] [Indexed: 05/04/2023]
Abstract
Plants seem to take up exogenous RNA that was artificially designed to target specific genes, followed by activation of the RNA interference (RNAi) machinery. It is, however, not known whether plants use RNAs themselves as signalling molecules in plant-to-plant communication, other than evidence that an exchange of small RNAs occurs between parasitic plants and their hosts. Exogenous RNAs from the environment, if taken up by some living organisms, can indeed induce RNAi. This phenomenon has been observed in nematodes and insects, and host Arabidopsis cells secrete exosome-like extracellular vesicles to deliver plant small RNAs into Botrytis cinerea. Here we show that micro-RNAs (miRNAs) produced by plants act as signalling molecules affecting gene expression in other, nearby plants. Exogenous miRNAs, such as miR156 and miR399, trigger RNAi via a mechanism requiring both AGO1 and RDR6. This emphasizes that the production of secondary small interfering RNAs is required. This evidence highlights the existence of a mechanism in which miRNAs represent signalling molecules that enable communication between plants.
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Affiliation(s)
- Federico Betti
- PlantLab, Institute of Life Sciences, Sant'Anna School of Advanced Studies, Pisa, Italy
| | | | - Daan A Weits
- PlantLab, Institute of Life Sciences, Sant'Anna School of Advanced Studies, Pisa, Italy
| | | | | | - Giacomo Novi
- PlantLab, Institute of Life Sciences, Sant'Anna School of Advanced Studies, Pisa, Italy
| | - Benedetta Svezia
- PlantLab, Institute of Life Sciences, Sant'Anna School of Advanced Studies, Pisa, Italy
| | - Alicja B Kunkowska
- PlantLab, Institute of Life Sciences, Sant'Anna School of Advanced Studies, Pisa, Italy
| | | | | | - Elena Loreti
- Institute of Agricultural Biology and Biotechnology, National Research Council, Pisa, Italy.
| | - Pierdomenico Perata
- PlantLab, Institute of Life Sciences, Sant'Anna School of Advanced Studies, Pisa, Italy.
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35
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The receptor-like kinases BAM1 and BAM2 are required for root xylem patterning. Proc Natl Acad Sci U S A 2021; 118:2022547118. [PMID: 33723062 DOI: 10.1073/pnas.2022547118] [Citation(s) in RCA: 24] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Xylem patterning in the root is established through the creation of opposing gradients of miRNAs and their targets, transcripts of the HD-ZIP III family of transcriptions factors, enabled by the cell-to-cell spread of the former. The miRNAs regulating xylem patterning, miR165/6, move through plasmodesmata, but how their trafficking is regulated remains elusive. Here, we describe that simultaneous mutation of the plasma membrane- and plasmodesmata-localized receptor-like kinases (RLKs) BARELY ANY MERISTEM (BAM) 1 and 2 or expression of the geminivirus-encoded BAM1/2-interactor C4 results in higher accumulation and broader distribution of the HD-ZIP III transcripts despite normal total accumulation of miR165/6, and ultimately causes defects in xylem patterning, which depend on the function of the aforementioned miRNA targets. Taken together, our results show that BAM1 and BAM2 are redundantly required for proper xylem patterning in the Arabidopsis root, by ensuring the proper distribution and accumulation of miR165/6-targeted transcripts.
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36
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Gaillochet C, Develtere W, Jacobs TB. CRISPR screens in plants: approaches, guidelines, and future prospects. THE PLANT CELL 2021; 33:794-813. [PMID: 33823021 PMCID: PMC8226290 DOI: 10.1093/plcell/koab099] [Citation(s) in RCA: 42] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/29/2021] [Accepted: 04/02/2021] [Indexed: 05/20/2023]
Abstract
Clustered regularly interspaced short palindromic repeat (CRISPR)-associated systems have revolutionized genome engineering by facilitating a wide range of targeted DNA perturbations. These systems have resulted in the development of powerful new screens to test gene functions at the genomic scale. While there is tremendous potential to map and interrogate gene regulatory networks at unprecedented speed and scale using CRISPR screens, their implementation in plants remains in its infancy. Here we discuss the general concepts, tools, and workflows for establishing CRISPR screens in plants and analyze the handful of recent reports describing the use of this strategy to generate mutant knockout collections or to diversify DNA sequences. In addition, we provide insight into how to design CRISPR knockout screens in plants given the current challenges and limitations and examine multiple design options. Finally, we discuss the unique multiplexing capabilities of CRISPR screens to investigate redundant gene functions in highly duplicated plant genomes. Combinatorial mutant screens have the potential to routinely generate higher-order mutant collections and facilitate the characterization of gene networks. By integrating this approach with the numerous genomic profiles that have been generated over the past two decades, the implementation of CRISPR screens offers new opportunities to analyze plant genomes at deeper resolution and will lead to great advances in functional and synthetic biology.
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Affiliation(s)
- Christophe Gaillochet
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent 9052, Belgium
- VIB Center for Plant Systems Biology, Ghent 9052, Belgium
| | - Ward Develtere
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent 9052, Belgium
- VIB Center for Plant Systems Biology, Ghent 9052, Belgium
| | - Thomas B Jacobs
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent 9052, Belgium
- VIB Center for Plant Systems Biology, Ghent 9052, Belgium
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37
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Vukašinović N, Wang Y, Vanhoutte I, Fendrych M, Guo B, Kvasnica M, Jiroutová P, Oklestkova J, Strnad M, Russinova E. Local brassinosteroid biosynthesis enables optimal root growth. NATURE PLANTS 2021; 7:619-632. [PMID: 34007032 DOI: 10.1038/s41477-021-00917-x] [Citation(s) in RCA: 46] [Impact Index Per Article: 15.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/01/2020] [Accepted: 03/29/2021] [Indexed: 05/27/2023]
Abstract
Brassinosteroid (BR) hormones are indispensable for root growth and control both cell division and cell elongation through the establishment of an increasing signalling gradient along the longitudinal root axis. Because of their limited mobility, the importance of BR distribution in achieving a signalling maximum is largely overlooked. Expression pattern analysis of all known BR biosynthetic enzymes revealed that not all cells in the Arabidopsis thaliana root possess full biosynthetic machinery, and that completion of biosynthesis relies on cell-to-cell movement of hormone precursors. We demonstrate that BR biosynthesis is largely restricted to the root elongation zone, where it overlaps with BR signalling maxima. Moreover, optimal root growth requires hormone concentrations to be low in the meristem and high in the root elongation zone, attributable to increased biosynthesis. Our finding that spatiotemporal regulation of hormone synthesis results in local hormone accumulation provides a paradigm for hormone-driven organ growth in the absence of long-distance hormone transport in plants.
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Affiliation(s)
- Nemanja Vukašinović
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium.
- Center for Plant Systems Biology, VIB, Ghent, Belgium.
| | - Yaowei Wang
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- Center for Plant Systems Biology, VIB, Ghent, Belgium
| | - Isabelle Vanhoutte
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- Center for Plant Systems Biology, VIB, Ghent, Belgium
| | - Matyáš Fendrych
- Department of Experimental Plant Biology, Faculty of Science, Charles University, Prague, Czech Republic
| | - Boyu Guo
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- Center for Plant Systems Biology, VIB, Ghent, Belgium
- College of Life Sciences, Wuhan University, Wuhan, China
| | - Miroslav Kvasnica
- Laboratory of Growth Regulators, Institute of Experimental Botany, The Czech Academy of Sciences and Palacký University, Olomouc, Czech Republic
| | - Petra Jiroutová
- Laboratory of Growth Regulators, Institute of Experimental Botany, The Czech Academy of Sciences and Palacký University, Olomouc, Czech Republic
| | - Jana Oklestkova
- Laboratory of Growth Regulators, Institute of Experimental Botany, The Czech Academy of Sciences and Palacký University, Olomouc, Czech Republic
| | - Miroslav Strnad
- Laboratory of Growth Regulators, Institute of Experimental Botany, The Czech Academy of Sciences and Palacký University, Olomouc, Czech Republic
| | - Eugenia Russinova
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium.
- Center for Plant Systems Biology, VIB, Ghent, Belgium.
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38
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Doumane M, Lebecq A, Colin L, Fangain A, Stevens FD, Bareille J, Hamant O, Belkhadir Y, Munnik T, Jaillais Y, Caillaud MC. Inducible depletion of PI(4,5)P 2 by the synthetic iDePP system in Arabidopsis. NATURE PLANTS 2021; 7:587-597. [PMID: 34007035 PMCID: PMC7610831 DOI: 10.1038/s41477-021-00907-z] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/14/2020] [Accepted: 03/25/2021] [Indexed: 05/04/2023]
Abstract
Phosphatidylinositol 4,5-bisphosphate (PI(4,5)P2) is a low-abundance membrane lipid essential for plasma membrane function1,2. In plants, mutations in phosphatidylinositol 4-phosphate (PI4P) 5-kinases (PIP5K) suggest that PI(4,5)P2 production is involved in development, immunity and reproduction3-5. However, phospholipid synthesis is highly intricate6. It is thus likely that steady-state depletion of PI(4,5)P2 triggers confounding indirect effects. Furthermore, inducible tools available in plants allow PI(4,5)P2 to increase7-9 but not decrease, and no PIP5K inhibitors are available. Here, we introduce iDePP (inducible depletion of PI(4,5)P2 in plants), a system for the inducible and tunable depletion of PI(4,5)P2 in plants in less than three hours. Using this strategy, we confirm that PI(4,5)P2 is critical for various aspects of plant development, including root growth, root-hair elongation and organ initiation. We show that PI(4,5)P2 is required to recruit various endocytic proteins, including AP2-µ, to the plasma membrane, and thus to regulate clathrin-mediated endocytosis. Finally, we find that inducible PI(4,5)P2 perturbation impacts the dynamics of the actin cytoskeleton as well as microtubule anisotropy. Together, we propose that iDePP is a simple and efficient genetic tool to test the importance of PI(4,5)P2 in given cellular or developmental responses, and also to evaluate the importance of this lipid in protein localization.
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Affiliation(s)
- Mehdi Doumane
- Laboratoire Reproduction et Développement des Plantes (RDP), Université de Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE, Lyon, France
| | - Alexis Lebecq
- Laboratoire Reproduction et Développement des Plantes (RDP), Université de Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE, Lyon, France
| | - Léia Colin
- Laboratoire Reproduction et Développement des Plantes (RDP), Université de Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE, Lyon, France
| | - Aurélie Fangain
- Laboratoire Reproduction et Développement des Plantes (RDP), Université de Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE, Lyon, France
| | - Floris D Stevens
- Plant Cell Biology, Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, the Netherlands
| | - Joseph Bareille
- Laboratoire Reproduction et Développement des Plantes (RDP), Université de Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE, Lyon, France
| | - Olivier Hamant
- Laboratoire Reproduction et Développement des Plantes (RDP), Université de Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE, Lyon, France
| | - Youssef Belkhadir
- Gregor Mendel Institute (GMI), Austrian Academy of Sciences, Vienna Biocenter (VBC), Vienna, Austria
| | - Teun Munnik
- Plant Cell Biology, Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, the Netherlands
| | - Yvon Jaillais
- Laboratoire Reproduction et Développement des Plantes (RDP), Université de Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE, Lyon, France.
| | - Marie-Cécile Caillaud
- Laboratoire Reproduction et Développement des Plantes (RDP), Université de Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE, Lyon, France.
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Winkler J, De Meyer A, Mylle E, Storme V, Grones P, Van Damme D. Nanobody-Dependent Delocalization of Endocytic Machinery in Arabidopsis Root Cells Dampens Their Internalization Capacity. FRONTIERS IN PLANT SCIENCE 2021; 12:538580. [PMID: 33815429 PMCID: PMC8018273 DOI: 10.3389/fpls.2021.538580] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/24/2020] [Accepted: 02/23/2021] [Indexed: 05/08/2023]
Abstract
Plant cells perceive and adapt to an ever-changing environment by modifying their plasma membrane (PM) proteome. Whereas secretion deposits new integral membrane proteins, internalization by endocytosis removes membrane proteins and associated ligands, largely with the aid of adaptor protein (AP) complexes and the scaffolding molecule clathrin. Two AP complexes function in clathrin-mediated endocytosis at the PM in plant cells, the heterotetrameric AP-2 complex and the hetero-octameric TPLATE complex (TPC). Whereas single subunit mutants in AP-2 develop into viable plants, genetic mutation of a single TPC subunit causes fully penetrant male sterility and silencing single subunits leads to seedling lethality. To address TPC function in somatic root cells, while minimizing indirect effects on plant growth, we employed nanobody-dependent delocalization of a functional, GFP-tagged TPC subunit, TML, in its respective homozygous genetic mutant background. In order to decrease the amount of functional TPC at the PM, we targeted our nanobody construct to the mitochondria and fused it to TagBFP2 to visualize it independently of its bait. We furthermore limited the effect of our delocalization to those tissues that are easily accessible for live-cell imaging by expressing it from the PIN2 promoter, which is active in root epidermal and cortex cells. With this approach, we successfully delocalized TML from the PM. Moreover, we also show co-recruitment of TML-GFP and AP2A1-TagRFP to the mitochondria, suggesting that our approach delocalized complexes, rather than individual adaptor complex subunits. In line with the specific expression domain, we only observed minor effects on root growth, yet realized a clear reduction of endocytic flux in epidermal root cells. Nanobody-dependent delocalization in plants, here exemplified using a TPC subunit, has the potential to be widely applicable to achieve specific loss-of-function analysis of otherwise lethal mutants.
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Affiliation(s)
- Joanna Winkler
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Andreas De Meyer
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Evelien Mylle
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Veronique Storme
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Peter Grones
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Daniël Van Damme
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
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40
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Okada K, Kubota Y, Hirase T, Otani K, Goh T, Hiruma K, Saijo Y. Uncoupling root hair formation and defence activation from growth inhibition in response to damage-associated Pep peptides in Arabidopsis thaliana. THE NEW PHYTOLOGIST 2021; 229:2844-2858. [PMID: 33131060 DOI: 10.1111/nph.17064] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/22/2020] [Accepted: 10/28/2020] [Indexed: 06/11/2023]
Abstract
In Arabidopsis thaliana, PROPEPs and their derived elicitor-active Pep epitopes provide damage-associated molecular patterns (DAMPs), which trigger defence responses through cell-surface receptors PEPR1 and PEPR2. In addition, Pep peptides induce root growth inhibition and root hair formation, however their relationships and coordinating mechanisms are poorly understood. Here, we reveal that Pep1-mediated root hair formation requires PEPR-associated kinases BAK1/BKK1 and BIK1/PBL1, ethylene, auxin and root hair differentiation regulators, in addition to PEPR2. Our analysis on 69 accessions unravels intraspecies variations in Pep1-induced root hair formation and growth inhibition. The absence of a positive correlation between the two traits suggests their separate regulation and diversification in natural populations of A. thaliana. Restricted PEPR2 expression to certain root tissues is sufficient to induce root hair formation and growth inhibition in response to Pep1, indicating the capacity of non-cell-autonomous receptor signalling in different root tissues. Of particular note, root hair cell-specific PEPR2 expression uncouples defence activation from root growth inhibition and root hair formation, suggesting a unique property of root hairs in root defence activation following Pep1 recognition.
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Affiliation(s)
- Kentaro Okada
- Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, 630-0192, Japan
| | - Yuki Kubota
- Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, 630-0192, Japan
| | - Taishi Hirase
- Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, 630-0192, Japan
| | - Koichi Otani
- Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, 630-0192, Japan
| | - Tatsuaki Goh
- Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, 630-0192, Japan
| | - Kei Hiruma
- Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, 630-0192, Japan
- Japan Science and Technology (JST), Precursory Research for Embryonic Science and Technology (PRESTO), Kawaguchi, 332-0012, Japan
| | - Yusuke Saijo
- Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, 630-0192, Japan
- Japan Science and Technology (JST), Precursory Research for Embryonic Science and Technology (PRESTO), Kawaguchi, 332-0012, Japan
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41
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Fischer S, Sánchez-Bermejo E, Xu X, Flis P, Ramakrishna P, Guerinot ML, Zhao FJ, Salt DE. Targeted expression of the arsenate reductase HAC1 identifies cell type specificity of arsenic metabolism and transport in plant roots. JOURNAL OF EXPERIMENTAL BOTANY 2021; 72:415-425. [PMID: 33038235 PMCID: PMC7853597 DOI: 10.1093/jxb/eraa465] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/10/2020] [Accepted: 10/05/2020] [Indexed: 05/14/2023]
Abstract
High Arsenic Concentration 1 (HAC1), an Arabidopsis thaliana arsenate reductase, plays a key role in arsenate [As(V)] tolerance. Through conversion of As(V) to arsenite [As(III)], HAC1 enables As(III) export from roots, and restricts translocation of As(V) to shoots. To probe the ability of different root tissues to detoxify As(III) produced by HAC1, we generated A. thaliana lines expressing HAC1 in different cell types. We investigated the As(V) tolerance phenotypes: root growth, As(III) efflux, As translocation, and As chemical speciation. We showed that HAC1 can function in the outer tissues of the root (epidermis, cortex, and endodermis) to confer As(V) tolerance, As(III) efflux, and limit As accumulation in shoots. HAC1 is less effective in the stele at conferring As(V) tolerance phenotypes. The exception is HAC1 activity in the protoxylem, which we found to be sufficient to restrict As translocation, but not to confer As(V) tolerance. In conclusion, we describe cell type-specific functions of HAC1 that spatially separate the control of As(V) tolerance and As translocation. Further, we identify a key function of protoxylem cells in As(V) translocation, consistent with the model where endodermal passage cells, above protoxylem pericycle cells, form a 'funnel' loading nutrients and potentially toxic elements into the vasculature.
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Affiliation(s)
- Sina Fischer
- Future Food Beacon of Excellence and the School of Biosciences, University of Nottingham, Nottingham, UK
| | - Eduardo Sánchez-Bermejo
- Future Food Beacon of Excellence and the School of Biosciences, University of Nottingham, Nottingham, UK
| | - Xuejie Xu
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, China
| | - Paulina Flis
- Future Food Beacon of Excellence and the School of Biosciences, University of Nottingham, Nottingham, UK
| | - Priya Ramakrishna
- Future Food Beacon of Excellence and the School of Biosciences, University of Nottingham, Nottingham, UK
| | - Mary Lou Guerinot
- Department of Biological Sciences, Dartmouth College, Hanover, NH, USA
| | - Fang-Jie Zhao
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, China
| | - David E Salt
- Future Food Beacon of Excellence and the School of Biosciences, University of Nottingham, Nottingham, UK
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42
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Mielke S, Zimmer M, Meena MK, Dreos R, Stellmach H, Hause B, Voiniciuc C, Gasperini D. Jasmonate biosynthesis arising from altered cell walls is prompted by turgor-driven mechanical compression. SCIENCE ADVANCES 2021; 7:7/7/eabf0356. [PMID: 33568489 PMCID: PMC7875531 DOI: 10.1126/sciadv.abf0356] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/29/2020] [Accepted: 12/22/2020] [Indexed: 05/15/2023]
Abstract
Despite the vital roles of jasmonoyl-isoleucine (JA-Ile) in governing plant growth and environmental acclimation, it remains unclear what intracellular processes lead to its induction. Here, we provide compelling genetic evidence that mechanical and osmotic regulation of turgor pressure represents a key elicitor of JA-Ile biosynthesis. After identifying cell wall mutant alleles in KORRIGAN1 (KOR1) with elevated JA-Ile in seedling roots, we found that ectopic JA-Ile resulted from cell nonautonomous signals deriving from enlarged cortex cells compressing inner tissues and stimulating JA-Ile production. Restoring cortex cell size by cell type-specific KOR1 complementation, by isolating a genetic kor1 suppressor, and by lowering turgor pressure with hyperosmotic treatments abolished JA-Ile signaling. Conversely, hypoosmotic treatment activated JA-Ile signaling in wild-type plants. Furthermore, constitutive JA-Ile levels guided mutant roots toward greater water availability. Collectively, these findings enhance our understanding on JA-Ile biosynthesis initiation and reveal a previously undescribed role of JA-Ile in orchestrating environmental resilience.
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Affiliation(s)
- Stefan Mielke
- Department of Molecular Signal Processing, Leibniz Institute of Plant Biochemistry, 06120 Halle (Saale), Germany
| | - Marlene Zimmer
- Department of Molecular Signal Processing, Leibniz Institute of Plant Biochemistry, 06120 Halle (Saale), Germany
| | - Mukesh Kumar Meena
- Department of Molecular Signal Processing, Leibniz Institute of Plant Biochemistry, 06120 Halle (Saale), Germany
| | - René Dreos
- Center for Integrative Genomics, University of Lausanne, 1015 Lausanne, Switzerland
| | - Hagen Stellmach
- Department of Cell and Metabolic Biology, Leibniz Institute of Plant Biochemistry, 06120 Halle (Saale), Germany
| | - Bettina Hause
- Department of Cell and Metabolic Biology, Leibniz Institute of Plant Biochemistry, 06120 Halle (Saale), Germany
| | - Cătălin Voiniciuc
- Independent Junior Research Group-Designer Glycans, Leibniz Institute of Plant Biochemistry, 06120 Halle (Saale), Germany
| | - Debora Gasperini
- Department of Molecular Signal Processing, Leibniz Institute of Plant Biochemistry, 06120 Halle (Saale), Germany.
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43
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Barker R, Fernandez Garcia MN, Powers SJ, Vaughan S, Bennett MJ, Phillips AL, Thomas SG, Hedden P. Mapping sites of gibberellin biosynthesis in the Arabidopsis root tip. THE NEW PHYTOLOGIST 2021; 229:1521-1534. [PMID: 32989730 DOI: 10.1111/nph.16967] [Citation(s) in RCA: 26] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/06/2020] [Accepted: 09/05/2020] [Indexed: 05/20/2023]
Abstract
Root elongation depends on the action of the gibberellin (GA) growth hormones, which promote cell production in the root meristem and cell expansion in the elongation zone. Sites of GA biosynthesis in the roots of 7-d-old Arabidopsis thaliana seedlings were investigated using tissue-specific GA inactivation in wild-type (Col-0) or rescue of GA-deficient dwarf mutants. Tissue-specific GA depletion was achieved by ectopic expression of the GA-inactivating enzyme AtGA2ox2, which is specific for C19 -GAs, and AtGA2ox7, which acts on C20 -GA precursors. In addition, tissue-specific rescue of ga20ox triple and ga3ox double mutants was shown. Furthermore, GUS reporter lines for major GA20ox, GA3ox and GA2ox genes were used to observe their expression domains in the root. The effects of expressing these constructs on the lengths of the root apical meristem and cortical cells in the elongation zone confirmed that roots are autonomous for GA biosynthesis, which occurs in multiple tissues, with the endodermis a major site of synthesis. The results are consistent with the early stages of GA biosynthesis within the root occurring in the meristematic region and indicate that the penultimate step of GA biosynthesis, GA 20-oxidation, is required in both the meristem and elongation zone.
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Affiliation(s)
- Richard Barker
- Rothamsted Research, Harpenden, Hertfordshire,, AL5 2JQ, UK
- Plant & Crop Sciences, School of Biosciences, University of Nottingham, Sutton Bonington,, LE12 5RD, UK
| | - Maria Nieves Fernandez Garcia
- Department of Abiotic Stress and Plant Pathology, Centro de Edafología y Biología Aplicada del Segura (CSIC), Murcia, Spain
| | | | - Simon Vaughan
- Rothamsted Research, Harpenden, Hertfordshire,, AL5 2JQ, UK
| | - Malcolm J Bennett
- Plant & Crop Sciences, School of Biosciences, University of Nottingham, Sutton Bonington,, LE12 5RD, UK
| | | | | | - Peter Hedden
- Rothamsted Research, Harpenden, Hertfordshire,, AL5 2JQ, UK
- Laboratory of Growth Regulators,Centre of the Region Haná for Biotechnological and Agricultural Research, Institute of Experimental Botany, Czech Academy of Sciences, Olomouc, CZ-783 71, Czech Republic
- Faculty of Science, Palacký University, Olomouc, CZ-783 71, Czech Republic
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44
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Emonet A, Zhou F, Vacheron J, Heiman CM, Dénervaud Tendon V, Ma KW, Schulze-Lefert P, Keel C, Geldner N. Spatially Restricted Immune Responses Are Required for Maintaining Root Meristematic Activity upon Detection of Bacteria. Curr Biol 2021; 31:1012-1028.e7. [PMID: 33508217 DOI: 10.1016/j.cub.2020.12.048] [Citation(s) in RCA: 38] [Impact Index Per Article: 12.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2020] [Revised: 10/27/2020] [Accepted: 12/24/2020] [Indexed: 02/07/2023]
Abstract
Plants restrict immune responses to vulnerable root parts. Spatially restricted responses are thought to be necessary to avoid constitutive responses to rhizosphere microbiota. To directly demonstrate the importance of spatially restricted responses, we expressed the plant flagellin receptor (FLS2) in different tissues, combined with fluorescent defense markers for immune readouts at cellular resolution. Our analysis distinguishes responses appearing cell autonomous from apparently non-cell-autonomous responses. It reveals lignification as a general immune response, contrasting suberization. Importantly, our analysis divides the root meristem into a central zone refractory to FLS2 expression and a cortex that is sensitized by FLS2 expression, causing meristem collapse upon stimulation. Meristematic epidermal expression generates super-competent lines that detect native bacterial flagellin and bypass the weak or absent response to commensals, providing a powerful tool for studying root immunity. Our manipulations and readouts demonstrate incompatibility of meristematic activity and defense and the importance of cell-resolved studies of plant immune responses.
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Affiliation(s)
- Aurélia Emonet
- Department of Plant Molecular Biology, University of Lausanne, Biophore, UNIL-Sorge, 1015 Lausanne, Switzerland
| | - Feng Zhou
- Department of Plant Molecular Biology, University of Lausanne, Biophore, UNIL-Sorge, 1015 Lausanne, Switzerland
| | - Jordan Vacheron
- Department of Fundamental Microbiology, University of Lausanne, Biophore, UNIL-Sorge, 1015 Lausanne, Switzerland
| | - Clara Margot Heiman
- Department of Fundamental Microbiology, University of Lausanne, Biophore, UNIL-Sorge, 1015 Lausanne, Switzerland
| | - Valérie Dénervaud Tendon
- Department of Plant Molecular Biology, University of Lausanne, Biophore, UNIL-Sorge, 1015 Lausanne, Switzerland
| | - Ka-Wai Ma
- Department of Plant Microbe Interactions, Max Planck Institute for Plant Breeding Research, Carl-von-Linné-Weg 10, 50829 Cologne, Germany
| | - Paul Schulze-Lefert
- Department of Plant Microbe Interactions, Max Planck Institute for Plant Breeding Research, Carl-von-Linné-Weg 10, 50829 Cologne, Germany
| | - Christoph Keel
- Department of Fundamental Microbiology, University of Lausanne, Biophore, UNIL-Sorge, 1015 Lausanne, Switzerland
| | - Niko Geldner
- Department of Plant Molecular Biology, University of Lausanne, Biophore, UNIL-Sorge, 1015 Lausanne, Switzerland.
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45
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Abstract
Flow cytometry and sorting represents a valuable and mature experimental platform for the analysis of cellular populations. Applications involving higher plants started to emerge around 40 years ago and are now widely employed both to provide unique information regarding basic and applied questions in the biosciences and to advance agricultural productivity in practical ways. Further development of this platform is being actively pursued, and this promises additional progress in our understanding of the interactions of cells within complex tissues and organs. Higher plants offer unique challenges in terms of flow cytometric analysis, first since their organs and tissues are, almost without exception, three-dimensional assemblies of different cell types held together by tough cell walls, and, second, because individual plant cells are generally larger than those of mammals.This chapter, which updates work last reviewed in 2014 [Galbraith DW (2014) Flow cytometry and sorting in Arabidopsis. In: Sanchez Serrano JJ, Salinas J (eds) Arabidopsis Protocols, 3rd ed. Methods in molecular biology, vol 1062. Humana Press, Totowa, pp 509-537], describes the application of techniques of flow cytometry and sorting to the model plant species Arabidopsis thaliana, in particular emphasizing (a) fluorescence labeling in vivo of specific cell types and of subcellular components, (b) analysis using both conventional cytometers and spectral analyzers, (c) fluorescence-activated sorting of protoplasts and nuclei, and (d) transcriptome analyses using sorted protoplasts and nuclei, focusing on population analyses at the level of single protoplasts and nuclei. Since this is an update, details of new experimental methods are emphasized.
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Affiliation(s)
- David W Galbraith
- University of Arizona, School of Plant Sciences and Bio5 Institute, Tucson, AZ, USA. .,Henan University, Institute of Plant Stress Biology, School of Life Sciences, Kaifeng, China.
| | - Guiling Sun
- Henan University, Institute of Plant Stress Biology, School of Life Sciences, Kaifeng, China
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46
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Winkler J, De Meyer A, Mylle E, Storme V, Grones P, Van Damme D. Nanobody-Dependent Delocalization of Endocytic Machinery in Arabidopsis Root Cells Dampens Their Internalization Capacity. FRONTIERS IN PLANT SCIENCE 2021. [PMID: 33815429 DOI: 10.1101/2020.02.27.968446] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/03/2023]
Abstract
Plant cells perceive and adapt to an ever-changing environment by modifying their plasma membrane (PM) proteome. Whereas secretion deposits new integral membrane proteins, internalization by endocytosis removes membrane proteins and associated ligands, largely with the aid of adaptor protein (AP) complexes and the scaffolding molecule clathrin. Two AP complexes function in clathrin-mediated endocytosis at the PM in plant cells, the heterotetrameric AP-2 complex and the hetero-octameric TPLATE complex (TPC). Whereas single subunit mutants in AP-2 develop into viable plants, genetic mutation of a single TPC subunit causes fully penetrant male sterility and silencing single subunits leads to seedling lethality. To address TPC function in somatic root cells, while minimizing indirect effects on plant growth, we employed nanobody-dependent delocalization of a functional, GFP-tagged TPC subunit, TML, in its respective homozygous genetic mutant background. In order to decrease the amount of functional TPC at the PM, we targeted our nanobody construct to the mitochondria and fused it to TagBFP2 to visualize it independently of its bait. We furthermore limited the effect of our delocalization to those tissues that are easily accessible for live-cell imaging by expressing it from the PIN2 promoter, which is active in root epidermal and cortex cells. With this approach, we successfully delocalized TML from the PM. Moreover, we also show co-recruitment of TML-GFP and AP2A1-TagRFP to the mitochondria, suggesting that our approach delocalized complexes, rather than individual adaptor complex subunits. In line with the specific expression domain, we only observed minor effects on root growth, yet realized a clear reduction of endocytic flux in epidermal root cells. Nanobody-dependent delocalization in plants, here exemplified using a TPC subunit, has the potential to be widely applicable to achieve specific loss-of-function analysis of otherwise lethal mutants.
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Affiliation(s)
- Joanna Winkler
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Andreas De Meyer
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Evelien Mylle
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Veronique Storme
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Peter Grones
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Daniël Van Damme
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
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47
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Marquès-Bueno MM, Armengot L, Noack LC, Bareille J, Rodriguez L, Platre MP, Bayle V, Liu M, Opdenacker D, Vanneste S, Möller BK, Nimchuk ZL, Beeckman T, Caño-Delgado AI, Friml J, Jaillais Y. Auxin-Regulated Reversible Inhibition of TMK1 Signaling by MAKR2 Modulates the Dynamics of Root Gravitropism. Curr Biol 2020; 31:228-237.e10. [PMID: 33157019 PMCID: PMC7809621 DOI: 10.1016/j.cub.2020.10.011] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2019] [Revised: 09/04/2020] [Accepted: 10/07/2020] [Indexed: 12/14/2022]
Abstract
Plants are able to orient their growth according to gravity, which ultimately controls both shoot and root architecture.1 Gravitropism is a dynamic process whereby gravistimulation induces the asymmetric distribution of the plant hormone auxin, leading to asymmetric growth, organ bending, and subsequent reset of auxin distribution back to the original pre-gravistimulation situation.1, 2, 3 Differential auxin accumulation during the gravitropic response depends on the activity of polarly localized PIN-FORMED (PIN) auxin-efflux carriers.1, 2, 3, 4 In particular, the timing of this dynamic response is regulated by PIN2,5,6 but the underlying molecular mechanisms are poorly understood. Here, we show that MEMBRANE ASSOCIATED KINASE REGULATOR2 (MAKR2) controls the pace of the root gravitropic response. We found that MAKR2 is required for the PIN2 asymmetry during gravitropism by acting as a negative regulator of the cell-surface signaling mediated by the receptor-like kinase TRANSMEMBRANE KINASE1 (TMK1).2,7, 8, 9, 10 Furthermore, we show that the MAKR2 inhibitory effect on TMK1 signaling is antagonized by auxin itself, which triggers rapid MAKR2 membrane dissociation in a TMK1-dependent manner. Our findings suggest that the timing of the root gravitropic response is orchestrated by the reversible inhibition of the TMK1 signaling pathway at the cell surface. MAKR2 is co-expressed with PIN2 and regulates the pace of root gravitropism MAKR2 controls PIN2 asymmetric accumulation at the root level during gravitropism MAKR2 binds to and is a negative regulator of the TMK1 receptor kinase Auxin antagonizes the MAKR2 inhibition of TMK1 by delocalizing MAKR2 in the cytosol
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Affiliation(s)
- Maria Mar Marquès-Bueno
- Laboratoire Reproduction et Développement des Plantes, Université de Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE, 69342 Lyon, France; Department of Molecular Genetics, Center for Research in Agricultural Genomics (CRAG), CSIC-IRTA-UAB-UB, Campus UAB, Bellaterra (Cerdanyola del Vallès), 08193 Barcelona, Spain
| | - Laia Armengot
- Laboratoire Reproduction et Développement des Plantes, Université de Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE, 69342 Lyon, France
| | - Lise C Noack
- Laboratoire Reproduction et Développement des Plantes, Université de Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE, 69342 Lyon, France
| | - Joseph Bareille
- Laboratoire Reproduction et Développement des Plantes, Université de Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE, 69342 Lyon, France
| | - Lesia Rodriguez
- Institute of Science and Technology Austria (IST Austria), Am Campus 1, 3400 Klosterneuburg, Austria
| | - Matthieu Pierre Platre
- Laboratoire Reproduction et Développement des Plantes, Université de Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE, 69342 Lyon, France
| | - Vincent Bayle
- Laboratoire Reproduction et Développement des Plantes, Université de Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE, 69342 Lyon, France
| | - Mengying Liu
- Laboratoire Reproduction et Développement des Plantes, Université de Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE, 69342 Lyon, France
| | - Davy Opdenacker
- Center for Plant Systems Biology, VIB, Technologiepark 71, 9052 Ghent, Belgium; Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 71, 9052 Ghent, Belgium
| | - Steffen Vanneste
- Center for Plant Systems Biology, VIB, Technologiepark 71, 9052 Ghent, Belgium; Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 71, 9052 Ghent, Belgium; Lab of Plant Growth Analysis, Ghent University Global Campus, Songdomunhwa-Ro, 119, Yeonsu-gu, Incheon 21985, Republic of Korea
| | - Barbara K Möller
- Center for Plant Systems Biology, VIB, Technologiepark 71, 9052 Ghent, Belgium; Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 71, 9052 Ghent, Belgium
| | - Zachary L Nimchuk
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
| | - Tom Beeckman
- Center for Plant Systems Biology, VIB, Technologiepark 71, 9052 Ghent, Belgium; Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 71, 9052 Ghent, Belgium
| | - Ana I Caño-Delgado
- Department of Molecular Genetics, Center for Research in Agricultural Genomics (CRAG), CSIC-IRTA-UAB-UB, Campus UAB, Bellaterra (Cerdanyola del Vallès), 08193 Barcelona, Spain
| | - Jiří Friml
- Institute of Science and Technology Austria (IST Austria), Am Campus 1, 3400 Klosterneuburg, Austria
| | - Yvon Jaillais
- Laboratoire Reproduction et Développement des Plantes, Université de Lyon, ENS de Lyon, UCB Lyon 1, CNRS, INRAE, 69342 Lyon, France.
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48
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Martín-Barranco A, Spielmann J, Dubeaux G, Vert G, Zelazny E. Dynamic Control of the High-Affinity Iron Uptake Complex in Root Epidermal Cells. PLANT PHYSIOLOGY 2020; 184:1236-1250. [PMID: 32873629 PMCID: PMC7608170 DOI: 10.1104/pp.20.00234] [Citation(s) in RCA: 51] [Impact Index Per Article: 12.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/27/2020] [Accepted: 08/20/2020] [Indexed: 05/05/2023]
Abstract
In plants, iron uptake from the soil is tightly regulated to ensure optimal growth and development. Iron absorption in Arabidopsis root epidermal cells requires the IRT1 transporter that also allows the entry of certain non-iron metals, such as Zn, Mn, and Co. Recent work demonstrated that IRT1 endocytosis and degradation are controlled by IRT1 non-iron metal substrates in a ubiquitin-dependent manner. To better understand how metal uptake is regulated, we identified IRT1-interacting proteins in Arabidopsis roots by mass spectrometry and established an interactome of IRT1. Interestingly, the AHA2 proton pump and the FRO2 reductase, both of which work in concert with IRT1 in the acidification-reduction-transport strategy of iron uptake, were part of this interactome. We confirmed that IRT1, FRO2, and AHA2 associate through co-immunopurification and split-ubiquitin analyses, and uncovered that they form tripartite direct interactions. We characterized the dynamics of the iron uptake complex and showed that FRO2 and AHA2 ubiquitination is independent of the non-iron metal substrates transported by IRT1. In addition, FRO2 and AHA2 are not largely endocytosed in response to non-iron metal excess, unlike IRT1. Indeed, we provide evidence that the phosphorylation of IRT1 in response to high levels of non-iron metals likely triggers dissociation of the complex. Overall, we propose that a dedicated iron-acquisition protein complex exists at the cell surface of Arabidopsis root epidermal cells to optimize iron uptake.
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Affiliation(s)
- Amanda Martín-Barranco
- Institute for Integrative Biology of the Cell, Unité Mixte de Recherche 9198, Centre National de la Recherche Scientifique/Commissariat à l'Énergie Atomique et aux Énergies Alternatives/Université Paris Sud, Université Paris-Saclay, 91198 Gif-sur-Yvette, France
| | - Julien Spielmann
- Plant Science Research Laboratory, Unité Mixte de Recherche 5546, Centre National de la Recherche Scientifique/University of Toulouse 3, 31320 Auzeville Tolosane, France
| | - Guillaume Dubeaux
- Division of Biological Sciences, Cell and Developmental Biology Section, University of California San Diego, La Jolla, California 92093
| | - Grégory Vert
- Plant Science Research Laboratory, Unité Mixte de Recherche 5546, Centre National de la Recherche Scientifique/University of Toulouse 3, 31320 Auzeville Tolosane, France
| | - Enric Zelazny
- Institute for Integrative Biology of the Cell, Unité Mixte de Recherche 9198, Centre National de la Recherche Scientifique/Commissariat à l'Énergie Atomique et aux Énergies Alternatives/Université Paris Sud, Université Paris-Saclay, 91198 Gif-sur-Yvette, France
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49
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Mutanwad KV, Zangl I, Lucyshyn D. The Arabidopsis O-fucosyltransferase SPINDLY regulates root hair patterning independently of gibberellin signaling. Development 2020; 147:dev.192039. [PMID: 32928908 PMCID: PMC7567127 DOI: 10.1242/dev.192039] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2020] [Accepted: 09/07/2020] [Indexed: 12/11/2022]
Abstract
Root hairs are able to sense soil composition and play an important role in water and nutrient uptake. In Arabidopsis thaliana, root hairs are distributed in the epidermis in a specific pattern, regularly alternating with non-root hair cells in continuous cell files. This patterning is regulated by internal factors such as a number of hormones, as well as by external factors like nutrient availability. Thus, root hair patterning is an excellent model for studying the plasticity of cell fate determination in response to environmental changes. Here, we report that loss-of-function mutants for the Protein O-fucosyltransferase SPINDLY (SPY) show defects in root hair patterning. Using transcriptional reporters, we show that patterning in spy-22 is affected upstream of GLABRA2 (GL2) and WEREWOLF (WER). O-fucosylation of nuclear and cytosolic proteins is an important post-translational modification that is still not very well understood. So far, SPY is best characterized for its role in gibberellin signaling via fucosylation of the growth-repressing DELLA protein REPRESSOR OF ga1-3 (RGA). Our data suggest that the epidermal patterning defects in spy-22 are independent of RGA and gibberellin signaling.
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Affiliation(s)
- Krishna Vasant Mutanwad
- Institute of Molecular Plant Biology, Department of Applied Genetics and Cell Biology, University of Natural Resources and Life Sciences, Muthgasse 18, 1190 Vienna, Austria
| | - Isabella Zangl
- Institute of Molecular Plant Biology, Department of Applied Genetics and Cell Biology, University of Natural Resources and Life Sciences, Muthgasse 18, 1190 Vienna, Austria
| | - Doris Lucyshyn
- Institute of Molecular Plant Biology, Department of Applied Genetics and Cell Biology, University of Natural Resources and Life Sciences, Muthgasse 18, 1190 Vienna, Austria
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50
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Smokvarska M, Francis C, Platre MP, Fiche JB, Alcon C, Dumont X, Nacry P, Bayle V, Nollmann M, Maurel C, Jaillais Y, Martiniere A. A Plasma Membrane Nanodomain Ensures Signal Specificity during Osmotic Signaling in Plants. Curr Biol 2020; 30:4654-4664.e4. [PMID: 33035478 DOI: 10.1016/j.cub.2020.09.013] [Citation(s) in RCA: 32] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2019] [Revised: 07/13/2020] [Accepted: 09/04/2020] [Indexed: 01/09/2023]
Abstract
In the course of their growth and development, plants have to constantly perceive and react to their environment. This is achieved in cells by the coordination of complex combinatorial signaling networks. However, how signal integration and specificity are achieved in this context is unknown. With a focus on the hyperosmotic stimulus, we use live super-resolution light imaging methods to demonstrate that a Rho GTPase, Rho-of-Plant 6 (ROP6), forms stimuli-dependent nanodomains within the plasma membrane (PM). These nanodomains are necessary and sufficient to transduce production of reactive oxygen species (ROS) that act as secondary messengers and trigger several plant adaptive responses to osmotic constraints. Furthermore, osmotic signal triggers interaction between ROP6 and two NADPH oxidases that subsequently generate ROS. ROP6 nanoclustering is also needed for cell surface auxin signaling, but short-time auxin treatment does not induce ROS accumulation. We show that auxin-induced ROP6 nanodomains, unlike osmotically driven ROP6 clusters, do not recruit the NADPH oxidase, RBOHD. Together, our results suggest that Rho GTPase nano-partitioning at the PM ensures signal specificity downstream of independent stimuli.
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Affiliation(s)
- Marija Smokvarska
- BPMP, Univ Montpellier, CNRS, INRAE, Institut Agro, Montpellier, France
| | - Charbel Francis
- BPMP, Univ Montpellier, CNRS, INRAE, Institut Agro, Montpellier, France
| | - Matthieu Pierre Platre
- Laboratoire Reproduction et Développement des Plantes, Université Lyon, École Normale Supérieure de Lyon, Université Claude Bernard Lyon 1, Centre National de la Recherche Scientifique, Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement, F-69342 Lyon, France
| | - Jean-Bernard Fiche
- Centre de Biochimie Structurale, Centre National de la Recherche Scientifique Unité Mixte de Recherche 5048, Institut National de la Santé et de la Recherche Médicale U1054, Université de Montpellier, 34090 Montpellier, France
| | - Carine Alcon
- BPMP, Univ Montpellier, CNRS, INRAE, Institut Agro, Montpellier, France
| | - Xavier Dumont
- BPMP, Univ Montpellier, CNRS, INRAE, Institut Agro, Montpellier, France
| | - Philippe Nacry
- BPMP, Univ Montpellier, CNRS, INRAE, Institut Agro, Montpellier, France
| | - Vincent Bayle
- Laboratoire Reproduction et Développement des Plantes, Université Lyon, École Normale Supérieure de Lyon, Université Claude Bernard Lyon 1, Centre National de la Recherche Scientifique, Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement, F-69342 Lyon, France
| | - Marcelo Nollmann
- Centre de Biochimie Structurale, Centre National de la Recherche Scientifique Unité Mixte de Recherche 5048, Institut National de la Santé et de la Recherche Médicale U1054, Université de Montpellier, 34090 Montpellier, France
| | - Christophe Maurel
- BPMP, Univ Montpellier, CNRS, INRAE, Institut Agro, Montpellier, France
| | - Y Jaillais
- Laboratoire Reproduction et Développement des Plantes, Université Lyon, École Normale Supérieure de Lyon, Université Claude Bernard Lyon 1, Centre National de la Recherche Scientifique, Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement, F-69342 Lyon, France
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