1
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Han E, Geng Z, Qin Y, Wang Y, Ma S. Single-cell network analysis reveals gene expression programs for Arabidopsis root development and metabolism. PLANT COMMUNICATIONS 2024:100978. [PMID: 38783601 DOI: 10.1016/j.xplc.2024.100978] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/03/2024] [Revised: 03/24/2024] [Accepted: 05/20/2024] [Indexed: 05/25/2024]
Abstract
Single-cell RNA-sequencing datasets of Arabidopsis roots have been generated, but related comprehensive gene co-expression network analyses are lacking. We conducted a single-cell gene co-expression network analysis with publicly available scRNA-seq datasets of Arabidopsis roots using a SingleCellGGM algorithm. The analysis identified 149 gene co-expression modules, which we considered to be gene expression programs (GEPs). By examining their spatiotemporal expression, we identified GEPs specifically expressed in major root cell types along their developmental trajectories. These GEPs define gene programs regulating root cell development at different stages and are enriched with relevant developmental regulators. As examples, a GEP specific for the quiescent center (QC) contains 20 genes regulating QC and stem cell niche homeostasis, and four GEPs are expressed in sieve elements (SEs) from early to late developmental stages, with the early-stage GEP containing 17 known SE developmental regulators. We also identified GEPs for metabolic pathways with cell-type-specific expression, suggesting the existence of cell-type-specific metabolism in roots. Using the GEPs, we discovered and verified a columella-specific gene, NRL27, as a regulator of the auxin-related root gravitropism response. Our analysis thus systematically reveals GEPs that regulate Arabidopsis root development and metabolism and provides ample resources for root biology studies.
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Affiliation(s)
- Ershang Han
- MOE Key Laboratory for Cellular Dynamics, School of Life Sciences, Division of Life Sciences and Medicine, University of Science and Technology of China, Innovation Academy for Seed Design, Chinese Academy of Sciences, Hefei 230027, China
| | - Zhenxing Geng
- MOE Key Laboratory for Cellular Dynamics, School of Life Sciences, Division of Life Sciences and Medicine, University of Science and Technology of China, Innovation Academy for Seed Design, Chinese Academy of Sciences, Hefei 230027, China
| | - Yue Qin
- MOE Key Laboratory for Cellular Dynamics, School of Life Sciences, Division of Life Sciences and Medicine, University of Science and Technology of China, Innovation Academy for Seed Design, Chinese Academy of Sciences, Hefei 230027, China
| | - Yuewei Wang
- MOE Key Laboratory for Cellular Dynamics, School of Life Sciences, Division of Life Sciences and Medicine, University of Science and Technology of China, Innovation Academy for Seed Design, Chinese Academy of Sciences, Hefei 230027, China
| | - Shisong Ma
- MOE Key Laboratory for Cellular Dynamics, School of Life Sciences, Division of Life Sciences and Medicine, University of Science and Technology of China, Innovation Academy for Seed Design, Chinese Academy of Sciences, Hefei 230027, China; School of Data Science, University of Science and Technology of China, Hefei 230027, China.
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2
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Wallner ES, Mair A, Handler D, McWhite C, Xu SL, Dolan L, Bergmann DC. Spatially resolved proteomics of the Arabidopsis stomatal lineage identifies polarity complexes for cell divisions and stomatal pores. Dev Cell 2024; 59:1096-1109.e5. [PMID: 38518768 DOI: 10.1016/j.devcel.2024.03.001] [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: 12/14/2023] [Revised: 02/23/2024] [Accepted: 03/05/2024] [Indexed: 03/24/2024]
Abstract
Cell polarity is used to guide asymmetric divisions and create morphologically diverse cells. We find that two oppositely oriented cortical polarity domains present during the asymmetric divisions in the Arabidopsis stomatal lineage are reconfigured into polar domains marking ventral (pore-forming) and outward-facing domains of maturing stomatal guard cells. Proteins that define these opposing polarity domains were used as baits in miniTurboID-based proximity labeling. Among differentially enriched proteins, we find kinases, putative microtubule-interacting proteins, and polar SOSEKIs with their effector ANGUSTIFOLIA. Using AI-facilitated protein structure prediction models, we identify potential protein-protein interaction interfaces among them. Functional and localization analyses of the polarity protein OPL2 and its putative interaction partners suggest a positive interaction with mitotic microtubules and a role in cytokinesis. This combination of proteomics and structural modeling with live-cell imaging provides insights into how polarity is rewired in different cell types and cell-cycle stages.
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Affiliation(s)
- Eva-Sophie Wallner
- Department of Biology, Stanford University, Stanford, CA 94305-5020, USA; Gregor Mendel Institute, Dr. Bohr-Gasse 3, 1030 Wien, Austria; Howard Hughes Medical Institute, Stanford, CA 94305, USA.
| | - Andrea Mair
- Howard Hughes Medical Institute, Stanford, CA 94305, USA
| | | | - Claire McWhite
- Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, NJ 08544, USA
| | - Shou-Ling Xu
- Carnegie Institution for Science, Stanford, CA 94305, USA; Carnegie Mass Spectrometry Facility, Carnegie Institution for Science, Stanford, CA 94305, USA
| | - Liam Dolan
- Gregor Mendel Institute, Dr. Bohr-Gasse 3, 1030 Wien, Austria
| | - Dominique C Bergmann
- Department of Biology, Stanford University, Stanford, CA 94305-5020, USA; Howard Hughes Medical Institute, Stanford, CA 94305, USA.
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3
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Chakraborty S. Retain in the membrane: Tinkering with the BRX-PAX-PIP5K auxin efflux machinery affects vascular tissue differentiation. THE PLANT CELL 2024; 36:1582-1583. [PMID: 38377470 PMCID: PMC11062424 DOI: 10.1093/plcell/koae058] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/02/2024] [Revised: 02/02/2024] [Accepted: 02/15/2024] [Indexed: 02/22/2024]
Affiliation(s)
- Sonhita Chakraborty
- Assistant Features Editor, The Plant Cell, American Society of Plant Biologists
- Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå Plant Science Centre, Umeå, Sweden
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4
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Aliaga Fandino AC, Jelínková A, Marhava P, Petrášek J, Hardtke CS. Ectopic assembly of an auxin efflux control machinery shifts developmental trajectories. THE PLANT CELL 2024; 36:1791-1805. [PMID: 38267818 PMCID: PMC11062438 DOI: 10.1093/plcell/koae023] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/15/2023] [Revised: 12/05/2023] [Accepted: 01/18/2024] [Indexed: 01/26/2024]
Abstract
Polar auxin transport in the Arabidopsis (Arabidopsis thaliana) root tip maintains high auxin levels around the stem cell niche that gradually decrease in dividing cells but increase again once they transition toward differentiation. Protophloem differentiates earlier than other proximal tissues and employs a unique auxin "canalization" machinery that is thought to balance auxin efflux with retention. It consists of a proposed activator of PIN-FORMED (PIN) auxin efflux carriers, the cAMP-, cGMP- and Calcium-dependent (AGC) kinase PROTEIN KINASE ASSOCIATED WITH BRX (PAX); its inhibitor, BREVIS RADIX (BRX); and PHOSPHATIDYLINOSITOL-4-PHOSPHATE-5-KINASE (PIP5K) enzymes, which promote polar PAX and BRX localization. Because of a dynamic PAX-BRX-PIP5K interplay, the net cellular output of this machinery remains unclear. In this study, we deciphered the dosage-sensitive regulatory interactions among PAX, BRX, and PIP5K by their ectopic expression in developing xylem vessels. The data suggest that the dominant collective output of the PAX-BRX-PIP5K module is a localized reduction in PIN abundance. This requires PAX-stimulated clathrin-mediated PIN endocytosis upon site-specific phosphorylation, which distinguishes PAX from other AGC kinases. An ectopic assembly of the PAX-BRX-PIP5K module is sufficient to cause cellular auxin retention and affects root growth vigor by accelerating the trajectory of xylem vessel development. Our data thus provide direct evidence that local manipulation of auxin efflux alters the timing of cellular differentiation in the root.
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Affiliation(s)
| | - Adriana Jelínková
- Institute of Experimental Botany, Czech Academy of Sciences, Prague 165 02, Czech Republic
| | - Petra Marhava
- Department of Plant Molecular Biology, University of Lausanne, Lausanne CH-1015, Switzerland
| | - Jan Petrášek
- Institute of Experimental Botany, Czech Academy of Sciences, Prague 165 02, Czech Republic
| | - Christian S Hardtke
- Department of Plant Molecular Biology, University of Lausanne, Lausanne CH-1015, Switzerland
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5
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Kulich I, Schmid J, Teplova A, Qi L, Friml J. Rapid translocation of NGR proteins driving polarization of PIN-activating D6 protein kinase during root gravitropism. eLife 2024; 12:RP91523. [PMID: 38441122 PMCID: PMC10942638 DOI: 10.7554/elife.91523] [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] [Indexed: 03/07/2024] Open
Abstract
Root gravitropic bending represents a fundamental aspect of terrestrial plant physiology. Gravity is perceived by sedimentation of starch-rich plastids (statoliths) to the bottom of the central root cap cells. Following gravity perception, intercellular auxin transport is redirected downwards leading to an asymmetric auxin accumulation at the lower root side causing inhibition of cell expansion, ultimately resulting in downwards bending. How gravity-induced statoliths repositioning is translated into asymmetric auxin distribution remains unclear despite PIN auxin efflux carriers and the Negative Gravitropic Response of roots (NGR) proteins polarize along statolith sedimentation, thus providing a plausible mechanism for auxin flow redirection. In this study, using a functional NGR1-GFP construct, we visualized the NGR1 localization on the statolith surface and plasma membrane (PM) domains in close proximity to the statoliths, correlating with their movements. We determined that NGR1 binding to these PM domains is indispensable for NGR1 functionality and relies on cysteine acylation and adjacent polybasic regions as well as on lipid and sterol PM composition. Detailed timing of the early events following graviperception suggested that both NGR1 repolarization and initial auxin asymmetry precede the visible PIN3 polarization. This discrepancy motivated us to unveil a rapid, NGR-dependent translocation of PIN-activating AGCVIII kinase D6PK towards lower PMs of gravity-perceiving cells, thus providing an attractive model for rapid redirection of auxin fluxes following gravistimulation.
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Affiliation(s)
- Ivan Kulich
- Institute of Science and Technology AustriaKlosterneuburgAustria
| | - Julia Schmid
- Institute of Science and Technology AustriaKlosterneuburgAustria
| | | | - Linlin Qi
- Institute of Science and Technology AustriaKlosterneuburgAustria
| | - Jiří Friml
- Institute of Science and Technology AustriaKlosterneuburgAustria
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6
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Tiwari S, Kumar MN, Kumar A, Dalal M. Wheat BREVIS RADIX (BRX) regulates organ size, stomatal density and enhances drought tolerance in Arabidopsis. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2024; 208:108500. [PMID: 38513518 DOI: 10.1016/j.plaphy.2024.108500] [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: 09/09/2023] [Revised: 02/08/2024] [Accepted: 03/02/2024] [Indexed: 03/23/2024]
Abstract
BREVIS RADIX (BRX) is a small plant-specific and evolutionary conserved gene family with divergent yet partially redundant biological functions including root and shoot growth, stomatal development and tiller angle in plants. We characterized a BRX family gene from wheat (Triticum aestivum) by gain-of-function in Arabidopsis. Overexpression of TaBRXL2A resulted in longer primary roots with increased root meristem size and higher root growth under control and exogenous hormone treatments as compared to wild type (Col-0) plants. Overexpression lines also exhibited significant differences with the wild type such as increased rosette size, higher leaf number and leaf size. At reproductive stage, overexpression lines exhibited wider siliques and higher grain weight per plant. Under drought stress, overexpression lines exhibited enhanced drought tolerance in terms of higher chlorophyll retention and lower oxidative stress, thereby leading to significant recovery from drought stress. The analysis suggests that the inherent lower stomatal density in the leaves of overexpression lines and higher stomatal closure in response to ABA might contribute to lower water loss from the overexpression lines. Furthermore, TaBRXL2A protein showed membrane localization, presence of conserved residues at N-terminal for palmitoylation, and phosphosites in the linker region which are prescribed for its potential role in protophloem differentiation and stomatal lineage. Thus, we identified a TaBRX family gene which is involved in developmental pathways essential for plant growth, and also enhances drought tolerance in Arabidopsis.
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Affiliation(s)
- Sneha Tiwari
- ICAR-National Institute for Plant Biotechnology, Pusa Campus, New Delhi, 110012, India; Amity Institute of Biotechnology, Amity University, Noida, Uttar Pradesh, 201301, India
| | - M Nagaraj Kumar
- Ramalingaswami Fellow, Division of Plant Physiology, ICAR- Indian Agricultural Research Institute, New Delhi, 110012, India
| | - Aruna Kumar
- Amity Institute of Biotechnology, Amity University, Noida, Uttar Pradesh, 201301, India
| | - Monika Dalal
- ICAR-National Institute for Plant Biotechnology, Pusa Campus, New Delhi, 110012, India.
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7
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Graf A, Bassukas AEL, Xiao Y, Barbosa ICR, Mergner J, Grill P, Michalke B, Kuster B, Schwechheimer C. D6PK plasma membrane polarity requires a repeated CXX(X)P motif and PDK1-dependent phosphorylation. NATURE PLANTS 2024; 10:300-314. [PMID: 38278951 PMCID: PMC10881395 DOI: 10.1038/s41477-023-01615-6] [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: 10/31/2022] [Accepted: 12/15/2023] [Indexed: 01/28/2024]
Abstract
D6 PROTEIN KINASE (D6PK) is a polarly localized plasma-membrane-associated kinase from Arabidopsis thaliana that activates polarly distributed PIN-FORMED auxin transporters. D6PK moves rapidly to and from the plasma membrane, independent of its PIN-FORMED targets. The middle D6PK domain, an insertion between kinase subdomains VII and VIII, is required and sufficient for association and polarity of the D6PK plasma membrane. How D6PK polarity is established and maintained remains to be shown. Here we show that cysteines from repeated middle domain CXX(X)P motifs are S-acylated and required for D6PK membrane association. While D6PK S-acylation is not detectably regulated during intracellular transport, phosphorylation of adjacent serine residues, in part in dependence on the upstream 3-PHOSPHOINOSITIDE-DEPENDENT PROTEIN KINASE, promotes D6PK transport, controls D6PK residence time at the plasma membrane and prevents its lateral diffusion. We thus identify new mechanisms for the regulation of D6PK plasma membrane interaction and polarity.
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Affiliation(s)
- Alina Graf
- Plant Systems Biology, School of Life Sciences, Technical University of Munich, Freising, Germany
| | | | - Yao Xiao
- Plant Systems Biology, School of Life Sciences, Technical University of Munich, Freising, Germany
- Guangdong Provincial Key Laboratory of Plant Adaptation and Molecular Design, School of Life Sciences, Guangzhou University, Guangzhou, China
| | - Inês C R Barbosa
- Plant Systems Biology, School of Life Sciences, Technical University of Munich, Freising, Germany
| | - Julia Mergner
- Proteomics and Bioanalytics, School of Life Sciences, Technical University of Munich, Freising, Germany
- Bavarian Center for Biomolecular Mass Spectrometry at Klinikum rechts der Isar, Center for Translational Cancer Research, Munich, Germany
| | - Peter Grill
- Helmholtz Zentrum München, German Research Center for Environmental Health, Analytical BioGeoChemistry, Neuherberg, Germany
| | - Bernhard Michalke
- Helmholtz Zentrum München, German Research Center for Environmental Health, Analytical BioGeoChemistry, Neuherberg, Germany
| | - Bernhard Kuster
- Proteomics and Bioanalytics, School of Life Sciences, Technical University of Munich, Freising, Germany
| | - Claus Schwechheimer
- Plant Systems Biology, School of Life Sciences, Technical University of Munich, Freising, Germany.
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8
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Yu Y, Tang W, Lin W, Li W, Zhou X, Li Y, Chen R, Zheng R, Qin G, Cao W, Pérez-Henríquez P, Huang R, Ma J, Qiu Q, Xu Z, Zou A, Lin J, Jiang L, Xu T, Yang Z. ABLs and TMKs are co-receptors for extracellular auxin. Cell 2023; 186:5457-5471.e17. [PMID: 37979582 PMCID: PMC10827329 DOI: 10.1016/j.cell.2023.10.017] [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: 11/27/2022] [Revised: 09/03/2023] [Accepted: 10/18/2023] [Indexed: 11/20/2023]
Abstract
Extracellular perception of auxin, an essential phytohormone in plants, has been debated for decades. Auxin-binding protein 1 (ABP1) physically interacts with quintessential transmembrane kinases (TMKs) and was proposed to act as an extracellular auxin receptor, but its role was disputed because abp1 knockout mutants lack obvious morphological phenotypes. Here, we identified two new auxin-binding proteins, ABL1 and ABL2, that are localized to the apoplast and directly interact with the extracellular domain of TMKs in an auxin-dependent manner. Furthermore, functionally redundant ABL1 and ABL2 genetically interact with TMKs and exhibit functions that overlap with those of ABP1 as well as being independent of ABP1. Importantly, the extracellular domain of TMK1 itself binds auxin and synergizes with either ABP1 or ABL1 in auxin binding. Thus, our findings discovered auxin receptors ABL1 and ABL2 having functions overlapping with but distinct from ABP1 and acting together with TMKs as co-receptors for extracellular auxin.
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Affiliation(s)
- Yongqiang Yu
- Haixia Institute of Science and Technology, School of Future Technology, and College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P.R. China; Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 201602, P.R. China
| | - Wenxin Tang
- Haixia Institute of Science and Technology, School of Future Technology, and College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P.R. China
| | - Wenwei Lin
- Haixia Institute of Science and Technology, School of Future Technology, and College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P.R. China
| | - Wei Li
- Haixia Institute of Science and Technology, School of Future Technology, and College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P.R. China; College of Life Sciences, Nanjing Agricultural University, Nanjing, Jiangsu 210095, P.R. China
| | - Xiang Zhou
- Haixia Institute of Science and Technology, School of Future Technology, and College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P.R. China; Faculty of Synthetic Biology, Shenzhen Institute of Advanced Technology, Shenzhen, Guangdong 518055, P.R. China; Key Laboratory of Quantitative Synthetic Biology, Shenzhen Institute of Synthetic Biology, Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen, Guangdong 518055, P.R. China
| | - Ying Li
- Haixia Institute of Science and Technology, School of Future Technology, and College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P.R. China
| | - Rong Chen
- Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 201602, P.R. China
| | - Rui Zheng
- Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 201602, P.R. China
| | - Guochen Qin
- Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 201602, P.R. China; Peking University Institute of Advanced Agricultural Sciences, Shandong Laboratory of Advanced Agricultural Sciences at Weifang, Weifang, Shandong 261000, P.R. China
| | - Wenhan Cao
- School of Life Sciences, Centre for Cell and Developmental Biology and State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Hong Kong, P.R. China
| | - Patricio Pérez-Henríquez
- Institute of Integrative Genome Biology, and Department of Botany and Plant Sciences, University of California-Riverside, Riverside, CA 92507, USA
| | - Rongfeng Huang
- Haixia Institute of Science and Technology, School of Future Technology, and College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P.R. China
| | - Jun Ma
- Haixia Institute of Science and Technology, School of Future Technology, and College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P.R. China
| | - Qiqi Qiu
- College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P.R. China
| | - Ziwei Xu
- Haixia Institute of Science and Technology, School of Future Technology, and College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P.R. China
| | - Ailing Zou
- Haixia Institute of Science and Technology, School of Future Technology, and College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P.R. China
| | - Juncheng Lin
- Haixia Institute of Science and Technology, School of Future Technology, and College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P.R. China
| | - Liwen Jiang
- School of Life Sciences, Centre for Cell and Developmental Biology and State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Hong Kong, P.R. China
| | - Tongda Xu
- Haixia Institute of Science and Technology, School of Future Technology, and College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P.R. China; Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 201602, P.R. China.
| | - Zhenbiao Yang
- Haixia Institute of Science and Technology, School of Future Technology, and College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P.R. China; Faculty of Synthetic Biology, Shenzhen Institute of Advanced Technology, Shenzhen, Guangdong 518055, P.R. China; Key Laboratory of Quantitative Synthetic Biology, Shenzhen Institute of Synthetic Biology, Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen, Guangdong 518055, P.R. China; Institute of Integrative Genome Biology, and Department of Botany and Plant Sciences, University of California-Riverside, Riverside, CA 92507, USA.
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9
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Blanco-Touriñán N, Hardtke CS. Connecting emerging with existing vasculature above and below ground. CURRENT OPINION IN PLANT BIOLOGY 2023; 76:102461. [PMID: 37774454 DOI: 10.1016/j.pbi.2023.102461] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/31/2023] [Revised: 08/29/2023] [Accepted: 09/03/2023] [Indexed: 10/01/2023]
Abstract
The vascular system was essential for plants to colonize land by facilitating the transport of water, nutrients, and minerals throughout the body. Our current knowledge on the molecular-genetic control of vascular tissue specification and differentiation is mostly based on studies in the Arabidopsis primary root. To what degree these regulatory mechanisms in the root meristem can be extrapolated to vascular tissue development in other organs is a question of great interest. In this review, we discuss the most recent progress on cotyledon vein formation, with a focus on polar auxin transport-dependent and -independent mechanisms. We also provide an overview of vasculature formation in postembryonic organs, namely lateral roots, which is more complex than anticipated as several tissues of the parent root must act in a spatio-temporally coordinated manner.
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Affiliation(s)
- Noel Blanco-Touriñán
- Department of Plant Molecular Biology, University of Lausanne, Biophore Building, 1015 Lausanne, Switzerland.
| | - Christian S Hardtke
- Department of Plant Molecular Biology, University of Lausanne, Biophore Building, 1015 Lausanne, Switzerland.
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10
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Sharma M, Marhava P. Regulation of PIN polarity in response to abiotic stress. CURRENT OPINION IN PLANT BIOLOGY 2023; 76:102445. [PMID: 37714753 DOI: 10.1016/j.pbi.2023.102445] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/30/2023] [Revised: 08/01/2023] [Accepted: 08/14/2023] [Indexed: 09/17/2023]
Abstract
Plants have evolved robust adaptive mechanisms to withstand the ever-changing environment. Tightly regulated distribution of the hormone auxin throughout the plant body controls an impressive variety of developmental processes that tailor plant growth and morphology to environmental conditions. The proper flow and directionality of auxin between cells is mainly governed by asymmetrically localized efflux carriers - PINs - ensuring proper coordination of developmental processes in plants. Discerning the molecular players and cellular dynamics involved in the establishment and maintenance of PINs in specific membrane domains, as well as their ability to readjust in response to abiotic stressors is essential for understanding how plants balance adaptability and stability. While much is known about how PINs get polarized, there is still limited knowledge about how abiotic stresses alter PIN polarity by acting on these systems. In this review, we focus on the current understanding of mechanisms involved in (re)establishing and maintaining PIN polarity under abiotic stresses.
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Affiliation(s)
- Manvi Sharma
- Department of Forest Genetics and Plant Physiology, Umeå Plant Science Centre (UPSC), Swedish University of Agricultural Sciences (SLU), 90183, Umeå, Sweden
| | - Petra Marhava
- Department of Forest Genetics and Plant Physiology, Umeå Plant Science Centre (UPSC), Swedish University of Agricultural Sciences (SLU), 90183, Umeå, Sweden.
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11
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Sun Y, Yang B, De Rybel B. Hormonal control of the molecular networks guiding vascular tissue development in the primary root meristem of Arabidopsis. JOURNAL OF EXPERIMENTAL BOTANY 2023; 74:6964-6974. [PMID: 37343122 PMCID: PMC7615341 DOI: 10.1093/jxb/erad232] [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: 03/02/2023] [Accepted: 06/16/2023] [Indexed: 06/23/2023]
Abstract
Vascular tissues serve a dual function in plants, both providing physical support and controlling the transport of nutrients, water, hormones, and other small signaling molecules. Xylem tissues transport water from root to shoot; phloem tissues transfer photosynthates from shoot to root; while divisions of the (pro)cambium increase the number of xylem and phloem cells. Although vascular development constitutes a continuous process from primary growth in the early embryo and meristem regions to secondary growth in the mature plant organs, it can be artificially separated into distinct processes including cell type specification, proliferation, patterning, and differentiation. In this review, we focus on how hormonal signals orchestrate the molecular regulation of vascular development in the Arabidopsis primary root meristem. Although auxin and cytokinin have taken center stage in this aspect since their discovery, other hormones including brassinosteroids, abscisic acid, and jasmonic acid also take leading roles during vascular development. All these hormonal cues synergistically or antagonistically participate in the development of vascular tissues, forming a complex hormonal control network.
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Affiliation(s)
- Yanbiao Sun
- Ghent University, Department of Plant Biotechnology and Bioinformatics, Technologiepark 71, 9052 Ghent, Belgium
- VIB Centre for Plant Systems Biology, Technologiepark 71, 9052 Ghent, Belgium
| | - Baojun Yang
- Ghent University, Department of Plant Biotechnology and Bioinformatics, Technologiepark 71, 9052 Ghent, Belgium
- VIB Centre for Plant Systems Biology, Technologiepark 71, 9052 Ghent, Belgium
| | - Bert De Rybel
- Ghent University, Department of Plant Biotechnology and Bioinformatics, Technologiepark 71, 9052 Ghent, Belgium
- VIB Centre for Plant Systems Biology, Technologiepark 71, 9052 Ghent, Belgium
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12
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Maeng KH, Lee H, Cho HT. FAB1C, a phosphatidylinositol 3-phosphate 5-kinase, interacts with PIN-FORMEDs and modulates their lytic trafficking in Arabidopsis. Proc Natl Acad Sci U S A 2023; 120:e2310126120. [PMID: 37934824 PMCID: PMC10655590 DOI: 10.1073/pnas.2310126120] [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: 06/15/2023] [Accepted: 10/10/2023] [Indexed: 11/09/2023] Open
Abstract
PIN-FORMEDs (PINs) are auxin efflux carriers that asymmetrically target the plasma membrane (PM) and are critical for forming local auxin gradients and auxin responses. While the cytoplasmic hydrophilic loop domain of PIN (PIN-HL) is known to include some molecular cues (e.g., phosphorylation) for the modulation of PIN's intracellular trafficking and activity, the complexity of auxin responses suggests that additional regulatory modules may operate in the PIN-HL domain. Here, we have identified and characterized a PIN-HL-interacting protein (PIP) called FORMATION OF APLOID AND BINUCLEATE CELL 1C (FAB1C), a phosphatidylinositol-3-phosphate 5-kinase, which modulates PIN's lytic trafficking. FAB1C directly interacts with PIN-HL and is required for the polarity establishment and vacuolar trafficking of PINs. Unphosphorylated forms of PIN2 interact more readily with FAB1C and are more susceptible to vacuolar lytic trafficking compared to phosphorylated forms. FAB1C also affected lateral root formation by modulating the abundance of periclinally localized PIN1 and auxin maximum in the growing lateral root primordium. These findings suggest that a membrane-lipid modifier can target the cargo-including vesicle by directly interacting with the cargo and modulate its trafficking depending on the cargo's phosphorylation status.
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Affiliation(s)
- Kwang-Ho Maeng
- Department of Biological Sciences, Seoul National University, Seoul08826, South Korea
| | - Hyodong Lee
- Department of Biological Sciences, Seoul National University, Seoul08826, South Korea
| | - Hyung-Taeg Cho
- Department of Biological Sciences, Seoul National University, Seoul08826, South Korea
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13
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Ung KL, Schulz L, Stokes DL, Hammes UZ, Pedersen BP. Substrate recognition and transport mechanism of the PIN-FORMED auxin exporters. Trends Biochem Sci 2023; 48:937-948. [PMID: 37574372 PMCID: PMC10592131 DOI: 10.1016/j.tibs.2023.07.006] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2023] [Revised: 06/30/2023] [Accepted: 07/17/2023] [Indexed: 08/15/2023]
Abstract
Auxins are pivotal plant hormones that regulate plant growth and transmembrane polar auxin transport (PAT) direct patterns of development. The PIN-FORMED (PIN) family of membrane transporters mediate auxin export from the plant cell and play crucial roles in PAT. Here we describe the recently solved structures of PIN transporters, PIN1, PIN3, and PIN8, and also their mechanisms of substrate recognition and transport of auxin. We compare structures of PINs in both inward- and outward-facing conformations, as well as PINs with different binding configurations for auxin. By this comparative analysis, a model emerges for an elevator transport mechanism. Central structural elements necessary for function are identified, and we show that these are shared with other distantly related protein families.
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Affiliation(s)
- Kien Lam Ung
- Department of Molecular Biology and Genetics, Aarhus University, 8000 Aarhus C, Denmark
| | - Lukas Schulz
- Plant Systems Biology, School of Life Sciences Weihenstephan, Technical University of Munich, 85354 Freising, Germany
| | - David L Stokes
- Department of Biochemistry and Molecular Pharmacology, New York University School of Medicine, NY 10016, USA
| | - Ulrich Z Hammes
- Plant Systems Biology, School of Life Sciences Weihenstephan, Technical University of Munich, 85354 Freising, Germany
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14
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Jiang L, Li R, Yang J, Yao Z, Cao S. Ethylene response factor ERF022 is involved in regulating Arabidopsis root growth. PLANT MOLECULAR BIOLOGY 2023; 113:1-17. [PMID: 37553544 DOI: 10.1007/s11103-023-01373-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2023] [Accepted: 07/05/2023] [Indexed: 08/10/2023]
Abstract
Ethylene response factors (ERFs) are involved in the regulation of plant development processes and stress responses. In this study, we provide evidence for the role of ERF022, a member of the ERF transcription factor group III, in regulating Arabidopsis root growth. We found that ERF022-loss-of-function mutants exhibited increased primary root length and lateral root numbers, and also morphological growth advantages compared to wild-type. Further studies showed that mutants had enhanced cell size in length in the root elongation zones. These results were accompanied by significant increase in the expression of cell elongation and cell wall expansion related genes SAUR10, GASA14, LRX2, XTH19 in mutants. Moreover, ERF022-mediated root growth was associated with the enhanced endogenous auxin and gibberellins levels. Our results suggest that loss-of-function of ERF022 up-regulated the expression of cell elongation and cell wall related genes through auxin and gibberellins signal in the regulation of root growth. Unexpectedly, ERF022 overexpression lines also showed longer primary roots and more lateral roots compared to wild-type, and had longer root apical meristematic zone with increased cell numbers. Overexpression of ERF022 significantly up-regulated cell proliferation, organ growth and auxin biosynthesis genes EXO, HB2, GALK2, LBD26, YUC5, which contribute to enhanced root growth. Altogether, our results provide genetic evidence that ERF022 plays an important role in regulating root growth in Arabidopsis thaliana.
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Affiliation(s)
- Li Jiang
- School of Food and Biological Engineering, Hefei University of Technology, Hefei, 230009, China.
| | - Ruyin Li
- School of Food and Biological Engineering, Hefei University of Technology, Hefei, 230009, China
| | - Juan Yang
- School of Food and Biological Engineering, Hefei University of Technology, Hefei, 230009, China
| | - Zhicheng Yao
- School of Food and Biological Engineering, Hefei University of Technology, Hefei, 230009, China
| | - Shuqing Cao
- School of Food and Biological Engineering, Hefei University of Technology, Hefei, 230009, China
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15
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Wallner ES, Dolan L, Bergmann DC. Arabidopsis stomatal lineage cells establish bipolarity and segregate differential signaling capacity to regulate stem cell potential. Dev Cell 2023; 58:1643-1656.e5. [PMID: 37607546 DOI: 10.1016/j.devcel.2023.07.024] [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: 02/14/2023] [Revised: 04/04/2023] [Accepted: 07/31/2023] [Indexed: 08/24/2023]
Abstract
Cell polarity combined with asymmetric cell divisions (ACDs) generates cellular diversity. In the Arabidopsis stomatal lineage, a single cortical polarity domain marked by BASL orients ACDs and is segregated to the larger daughter to enforce cell fate. We discovered a second, oppositely positioned polarity domain defined by OCTOPUS-LIKE (OPL) proteins, which forms prior to ACD and is segregated to the smaller (meristemoid) daughter. Genetic and misexpression analyses show that OPLs promote meristemoid-amplifying divisions and delay stomatal fate progression. Polarity mediates OPL segregation into meristemoids but is not required for OPL function. OPL localization and activity are largely independent of other stomatal polarity genes and of the brassinosteroid signaling components associated with OPLs in other contexts. While OPLs are unique to seed plants, ectopic expression in the liverwort Marchantia suppressed epidermal fate progression, suggesting that OPLs engage ancient and broadly conserved pathways to regulate cell division and cell fate.
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Affiliation(s)
- Eva-Sophie Wallner
- Department of Biology, Stanford University, Stanford, CA 94305-5020, USA; Gregor Mendel Institute, Dr.-Bohr-Gasse 3, 1030 Wien, Austria; Howard Hughes Medical Institute, Stanford, CA 94305, USA.
| | - Liam Dolan
- Gregor Mendel Institute, Dr.-Bohr-Gasse 3, 1030 Wien, Austria
| | - Dominique C Bergmann
- Department of Biology, Stanford University, Stanford, CA 94305-5020, USA; Howard Hughes Medical Institute, Stanford, CA 94305, USA.
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16
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Yu C, Hou K, Zhang H, Liang X, Chen C, Wang Z, Wu Q, Chen G, He J, Bai E, Li X, Du T, Wang Y, Wang M, Feng S, Wang H, Shen C. Integrated mass spectrometry imaging and single-cell transcriptome atlas strategies provide novel insights into taxoid biosynthesis and transport in Taxus mairei stems. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2023; 115:1243-1260. [PMID: 37219365 DOI: 10.1111/tpj.16315] [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: 03/03/2023] [Revised: 04/30/2023] [Accepted: 05/18/2023] [Indexed: 05/24/2023]
Abstract
Taxol, which is a widely used important chemotherapeutic agent, was originally isolated from Taxus stem barks. However, little is known about the precise distribution of taxoids and the transcriptional regulation of taxoid biosynthesis across Taxus stems. Here, we used MALDI-IMS analysis to visualize the taxoid distribution across Taxus mairei stems and single-cell RNA sequencing to generate expression profiles. A single-cell T. mairei stem atlas was created, providing a spatial distribution pattern of Taxus stem cells. Cells were reordered using a main developmental pseudotime trajectory which provided temporal distribution patterns in Taxus stem cells. Most known taxol biosynthesis-related genes were primarily expressed in epidermal, endodermal, and xylem parenchyma cells, which caused an uneven taxoid distribution across T. mairei stems. We developed a single-cell strategy to screen novel transcription factors (TFs) involved in taxol biosynthesis regulation. Several TF genes, such as endodermal cell-specific MYB47 and xylem parenchyma cell-specific NAC2 and bHLH68, were implicated as potential regulators of taxol biosynthesis. Furthermore, an ATP-binding cassette family transporter gene, ABCG2, was proposed as a potential taxoid transporter candidate. In summary, we generated a single-cell Taxus stem metabolic atlas and identified molecular mechanisms underpinning the cell-specific transcriptional regulation of the taxol biosynthesis pathway.
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Affiliation(s)
- Chunna Yu
- College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 311121, China
- Zhejiang Provincial Key Laboratory for Genetic Improvement and Quality Control of Medicinal Plants, Hangzhou Normal University, Hangzhou, 311121, China
| | - Kailin Hou
- College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 311121, China
- Zhejiang Provincial Key Laboratory for Genetic Improvement and Quality Control of Medicinal Plants, Hangzhou Normal University, Hangzhou, 311121, China
| | - Hongshan Zhang
- College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 311121, China
- Zhejiang Provincial Key Laboratory for Genetic Improvement and Quality Control of Medicinal Plants, Hangzhou Normal University, Hangzhou, 311121, China
- Kharkiv Institute, Hangzhou Normal University, Hangzhou, 311121, China
| | - Xueshuang Liang
- College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 311121, China
- Zhejiang Provincial Key Laboratory for Genetic Improvement and Quality Control of Medicinal Plants, Hangzhou Normal University, Hangzhou, 311121, China
| | - Cheng Chen
- College of Pharmacy, Hangzhou Normal University, Hangzhou, 311121, China
| | - Zhijing Wang
- College of Pharmacy, Hangzhou Normal University, Hangzhou, 311121, China
| | - Qicong Wu
- College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 311121, China
- Zhejiang Provincial Key Laboratory for Genetic Improvement and Quality Control of Medicinal Plants, Hangzhou Normal University, Hangzhou, 311121, China
| | - Ganlin Chen
- College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 311121, China
- Zhejiang Provincial Key Laboratory for Genetic Improvement and Quality Control of Medicinal Plants, Hangzhou Normal University, Hangzhou, 311121, China
| | - Jiaxu He
- College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 311121, China
- Zhejiang Provincial Key Laboratory for Genetic Improvement and Quality Control of Medicinal Plants, Hangzhou Normal University, Hangzhou, 311121, China
| | - Enhui Bai
- College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 311121, China
- Zhejiang Provincial Key Laboratory for Genetic Improvement and Quality Control of Medicinal Plants, Hangzhou Normal University, Hangzhou, 311121, China
| | - Xinfen Li
- College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 311121, China
- Zhejiang Provincial Key Laboratory for Genetic Improvement and Quality Control of Medicinal Plants, Hangzhou Normal University, Hangzhou, 311121, China
| | - Tingrui Du
- College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 311121, China
- Zhejiang Provincial Key Laboratory for Genetic Improvement and Quality Control of Medicinal Plants, Hangzhou Normal University, Hangzhou, 311121, China
| | - Yifan Wang
- College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 311121, China
- Zhejiang Provincial Key Laboratory for Genetic Improvement and Quality Control of Medicinal Plants, Hangzhou Normal University, Hangzhou, 311121, China
| | - Mingshuang Wang
- College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 311121, China
- Zhejiang Provincial Key Laboratory for Genetic Improvement and Quality Control of Medicinal Plants, Hangzhou Normal University, Hangzhou, 311121, China
| | - Shangguo Feng
- College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 311121, China
- Zhejiang Provincial Key Laboratory for Genetic Improvement and Quality Control of Medicinal Plants, Hangzhou Normal University, Hangzhou, 311121, China
| | - Huizhong Wang
- College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 311121, China
- Zhejiang Provincial Key Laboratory for Genetic Improvement and Quality Control of Medicinal Plants, Hangzhou Normal University, Hangzhou, 311121, China
| | - Chenjia Shen
- College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 311121, China
- Zhejiang Provincial Key Laboratory for Genetic Improvement and Quality Control of Medicinal Plants, Hangzhou Normal University, Hangzhou, 311121, China
- Kharkiv Institute, Hangzhou Normal University, Hangzhou, 311121, China
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17
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Zhang WJ, Zhou Y, Zhang Y, Su YH, Xu T. Protein phosphorylation: A molecular switch in plant signaling. Cell Rep 2023; 42:112729. [PMID: 37405922 DOI: 10.1016/j.celrep.2023.112729] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2022] [Revised: 03/03/2023] [Accepted: 06/16/2023] [Indexed: 07/07/2023] Open
Abstract
Protein phosphorylation modification is crucial for signaling transduction in plant development and environmental adaptation. By precisely phosphorylating crucial components in signaling cascades, plants can switch on and off the specific signaling pathways needed for growth or defense. Here, we have summarized recent findings of key phosphorylation events in typical hormone signaling and stress responses. More interestingly, distinct phosphorylation patterns on proteins result in diverse biological functions of these proteins. Thus, we have also highlighted latest findings that show how the different phosphosites of a protein, also named phosphocodes, determine the specificity of downstream signaling in both plant development and stress responses.
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Affiliation(s)
- Wen Jie Zhang
- Plant Synthetic Biology Center, Haixia Institute of Science and Technology, College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China; State Key Laboratory of Crop Biology, College of Life Sciences, Shandong Agricultural University, Tai'an, Shandong, China
| | - Yewei Zhou
- Plant Synthetic Biology Center, Haixia Institute of Science and Technology, College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China
| | - Yi Zhang
- Plant Synthetic Biology Center, Haixia Institute of Science and Technology, College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China
| | - Ying Hua Su
- State Key Laboratory of Crop Biology, College of Life Sciences, Shandong Agricultural University, Tai'an, Shandong, China.
| | - Tongda Xu
- Plant Synthetic Biology Center, Haixia Institute of Science and Technology, College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China.
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18
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Hardtke CS. Phloem development. THE NEW PHYTOLOGIST 2023. [PMID: 37243530 DOI: 10.1111/nph.19003] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/29/2023] [Accepted: 04/13/2023] [Indexed: 05/29/2023]
Abstract
The evolution of the plant vascular system is a key process in Earth history because it enabled plants to conquer land and transform the terrestrial surface. Among the vascular tissues, the phloem is particularly intriguing because of its complex functionality. In angiosperms, its principal components are the sieve elements, which transport phloem sap, and their neighboring companion cells. Together, they form a functional unit that sustains sap loading, transport, and unloading. The developmental trajectory of sieve elements is unique among plant cell types because it entails selective organelle degradation including enucleation. Meticulous analyses of primary, so-called protophloem in the Arabidopsis thaliana root meristem have revealed key steps in protophloem sieve element formation at single-cell resolution. A transcription factor cascade connects specification with differentiation and also orchestrates phloem pole patterning via noncell-autonomous action of sieve element-derived effectors. Reminiscent of vascular tissue patterning in secondary growth, these involve receptor kinase pathways, whose antagonists guide the progression of sieve element differentiation. Receptor kinase pathways may also safeguard phloem formation by maintaining the developmental plasticity of neighboring cell files. Our current understanding of protophloem development in the A. thaliana root has reached sufficient detail to instruct molecular-level investigation of phloem formation in other organs.
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Affiliation(s)
- Christian S Hardtke
- Department of Plant Molecular Biology, University of Lausanne, CH-1015, Lausanne, Switzerland
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19
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Wallner ES, Tonn N, Shi D, Luzzietti L, Wanke F, Hunziker P, Xu Y, Jung I, Lopéz-Salmerón V, Gebert M, Wenzl C, Lohmann JU, Harter K, Greb T. OBERON3 and SUPPRESSOR OF MAX2 1-LIKE proteins form a regulatory module driving phloem development. Nat Commun 2023; 14:2128. [PMID: 37059727 PMCID: PMC10104830 DOI: 10.1038/s41467-023-37790-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2021] [Accepted: 03/31/2023] [Indexed: 04/16/2023] Open
Abstract
Spatial specificity of cell fate decisions is central for organismal development. The phloem tissue mediates long-distance transport of energy metabolites along plant bodies and is characterized by an exceptional degree of cellular specialization. How a phloem-specific developmental program is implemented is, however, unknown. Here we reveal that the ubiquitously expressed PHD-finger protein OBE3 forms a central module with the phloem-specific SMXL5 protein for establishing the phloem developmental program in Arabidopsis thaliana. By protein interaction studies and phloem-specific ATAC-seq analyses, we show that OBE3 and SMXL5 proteins form a complex in nuclei of phloem stem cells where they promote a phloem-specific chromatin profile. This profile allows expression of OPS, BRX, BAM3, and CVP2 genes acting as mediators of phloem differentiation. Our findings demonstrate that OBE3/SMXL5 protein complexes establish nuclear features essential for determining phloem cell fate and highlight how a combination of ubiquitous and local regulators generate specificity of developmental decisions in plants.
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Affiliation(s)
- Eva-Sophie Wallner
- Centre for Organismal Studies (COS), Heidelberg University, 69120, Heidelberg, Germany
- Gilbert Biological Sciences, Stanford University, Stanford, CA, 94305-5020, USA
| | - Nina Tonn
- Centre for Organismal Studies (COS), Heidelberg University, 69120, Heidelberg, Germany
| | - Dongbo Shi
- Centre for Organismal Studies (COS), Heidelberg University, 69120, Heidelberg, Germany
- Japan RIKEN Center for Sustainable Resource Science (CSRS), Yokohama, 230-0045, Japan
- Institute for Biochemistry and Biology (IBB), University of Potsdam, Potsdam, 14476, Germany
- Japan Science and Technology Agency (JST), Saitama, Kawaguchi, Japan
| | - Laura Luzzietti
- Centre for Organismal Studies (COS), Heidelberg University, 69120, Heidelberg, Germany
| | - Friederike Wanke
- Center for Plant Molecular Biology (ZMBP), University of Tübingen, 72076, Tübingen, Germany
| | - Pascal Hunziker
- Centre for Organismal Studies (COS), Heidelberg University, 69120, Heidelberg, Germany
| | - Yingqiang Xu
- Centre for Organismal Studies (COS), Heidelberg University, 69120, Heidelberg, Germany
| | - Ilona Jung
- Centre for Organismal Studies (COS), Heidelberg University, 69120, Heidelberg, Germany
| | - Vadir Lopéz-Salmerón
- Centre for Organismal Studies (COS), Heidelberg University, 69120, Heidelberg, Germany
- BD Bioscience, 69126, Heidelberg, Germany
| | - Michael Gebert
- Centre for Organismal Studies (COS), Heidelberg University, 69120, Heidelberg, Germany
| | - Christian Wenzl
- Centre for Organismal Studies (COS), Heidelberg University, 69120, Heidelberg, Germany
| | - Jan U Lohmann
- Centre for Organismal Studies (COS), Heidelberg University, 69120, Heidelberg, Germany
| | - Klaus Harter
- Center for Plant Molecular Biology (ZMBP), University of Tübingen, 72076, Tübingen, Germany
| | - Thomas Greb
- Centre for Organismal Studies (COS), Heidelberg University, 69120, Heidelberg, Germany.
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20
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Li Q, Liu N, Wu C. Novel insights into maize (Zea mays) development and organogenesis for agricultural optimization. PLANTA 2023; 257:94. [PMID: 37031436 DOI: 10.1007/s00425-023-04126-y] [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: 08/04/2022] [Accepted: 03/22/2023] [Indexed: 06/19/2023]
Abstract
In maize, intrinsic hormone activities and sap fluxes facilitate organogenesis patterning and plant holistic development; these hormone movements should be a primary focus of developmental biology and agricultural optimization strategies. Maize (Zea mays) is an important crop plant with distinctive life history characteristics and structural features. Genetic studies have extended our knowledge of maize developmental processes, genetics, and molecular ecophysiology. In this review, the classical life cycle and life history strategies of maize are analyzed to identify spatiotemporal organogenesis properties and develop a definitive understanding of maize development. The actions of genes and hormones involved in maize organogenesis and sex determination, along with potential molecular mechanisms, are investigated, with findings suggesting central roles of auxin and cytokinins in regulating maize holistic development. Furthermore, investigation of morphological and structural characteristics of maize, particularly node ubiquity and the alternate attachment pattern of lateral organs, yields a novel regulatory model suggesting that maize organ initiation and subsequent development are derived from the stimulation and interaction of auxin and cytokinin fluxes. Propositions that hormone activities and sap flow pathways control organogenesis are thoroughly explored, and initiation and development processes of distinctive maize organs are discussed. Analysis of physiological factors driving hormone and sap movement implicates cues of whole-plant activity for hormone and sap fluxes to stimulate maize inflorescence initiation and organ identity determination. The physiological origins and biogenetic mechanisms underlying maize floral sex determination occurring at the tassel and ear spikelet are thoroughly investigated. The comprehensive outline of maize development and morphogenetic physiology developed in this review will enable farmers to optimize field management and will provide a reference for de novo crop domestication and germplasm improvement using genome editing biotechnologies, promoting agricultural optimization.
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Affiliation(s)
- Qinglin Li
- Crop Genesis and Novel Agronomy Center, Yangling, 712100, Shaanxi, China.
| | - Ning Liu
- Shandong ZhongnongTiantai Seed Co., Ltd, Pingyi, 273300, Shandong, China
| | - Chenglai Wu
- State Key Laboratory of Crop Biology, Shandong Agricultural University, Tai'an, 271018, Shandong, China.
- College of Agronomy, Shandong Agricultural University, Tai'an, 271018, Shandong, China.
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21
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Mäkilä R, Wybouw B, Smetana O, Vainio L, Solé-Gil A, Lyu M, Ye L, Wang X, Siligato R, Jenness MK, Murphy AS, Mähönen AP. Gibberellins promote polar auxin transport to regulate stem cell fate decisions in cambium. NATURE PLANTS 2023; 9:631-644. [PMID: 36997686 PMCID: PMC10119023 DOI: 10.1038/s41477-023-01360-w] [Citation(s) in RCA: 8] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/15/2022] [Accepted: 01/30/2023] [Indexed: 06/01/2023]
Abstract
Vascular cambium contains bifacial stem cells, which produce secondary xylem to one side and secondary phloem to the other. However, how these fate decisions are regulated is unknown. Here we show that the positioning of an auxin signalling maximum within the cambium determines the fate of stem cell daughters. The position is modulated by gibberellin-regulated, PIN1-dependent polar auxin transport. Gibberellin treatment broadens auxin maximum from the xylem side of the cambium towards the phloem. As a result, xylem-side stem cell daughter preferentially differentiates into xylem, while phloem-side daughter retains stem cell identity. Occasionally, this broadening leads to direct specification of both daughters as xylem, and consequently, adjacent phloem-identity cell reverts to being stem cell. Conversely, reduced gibberellin levels favour specification of phloem-side stem cell daughter as phloem. Together, our data provide a mechanism by which gibberellin regulates the ratio of xylem and phloem production.
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Affiliation(s)
- Riikka Mäkilä
- Organismal and Evolutionary Biology Research Programme, Faculty of Biological and Environmental Sciences and Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland
- Institute of Biotechnology, HiLIFE, University of Helsinki, Helsinki, Finland
| | - Brecht Wybouw
- Organismal and Evolutionary Biology Research Programme, Faculty of Biological and Environmental Sciences and Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland
- Institute of Biotechnology, HiLIFE, University of Helsinki, Helsinki, Finland
| | - Ondřej Smetana
- Organismal and Evolutionary Biology Research Programme, Faculty of Biological and Environmental Sciences and Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland
- Institute of Biotechnology, HiLIFE, University of Helsinki, Helsinki, Finland
| | - Leo Vainio
- Organismal and Evolutionary Biology Research Programme, Faculty of Biological and Environmental Sciences and Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland
- Institute of Biotechnology, HiLIFE, University of Helsinki, Helsinki, Finland
| | - Anna Solé-Gil
- Organismal and Evolutionary Biology Research Programme, Faculty of Biological and Environmental Sciences and Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland
- Institute of Biotechnology, HiLIFE, University of Helsinki, Helsinki, Finland
| | - Munan Lyu
- Organismal and Evolutionary Biology Research Programme, Faculty of Biological and Environmental Sciences and Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland
- Institute of Biotechnology, HiLIFE, University of Helsinki, Helsinki, Finland
| | - Lingling Ye
- Organismal and Evolutionary Biology Research Programme, Faculty of Biological and Environmental Sciences and Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland
- Institute of Biotechnology, HiLIFE, University of Helsinki, Helsinki, Finland
| | - Xin Wang
- Organismal and Evolutionary Biology Research Programme, Faculty of Biological and Environmental Sciences and Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland
- Institute of Biotechnology, HiLIFE, University of Helsinki, Helsinki, Finland
| | - Riccardo Siligato
- Organismal and Evolutionary Biology Research Programme, Faculty of Biological and Environmental Sciences and Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland
- Institute of Biotechnology, HiLIFE, University of Helsinki, Helsinki, Finland
- European Commission, Joint Research Centre, Geel, Belgium
| | - Mark K Jenness
- Department of Plant Science and Landscape Architecture, University of Maryland, College Park, MD, USA
| | - Angus S Murphy
- Department of Plant Science and Landscape Architecture, University of Maryland, College Park, MD, USA
| | - Ari Pekka Mähönen
- Organismal and Evolutionary Biology Research Programme, Faculty of Biological and Environmental Sciences and Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland.
- Institute of Biotechnology, HiLIFE, University of Helsinki, Helsinki, Finland.
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22
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Tiwari S, Muthusamy SK, Roy P, Dalal M. Genome wide analysis of BREVIS RADIX gene family from wheat (Triticum aestivum): A conserved gene family differentially regulated by hormones and abiotic stresses. Int J Biol Macromol 2023; 232:123081. [PMID: 36592856 DOI: 10.1016/j.ijbiomac.2022.12.300] [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: 06/23/2022] [Revised: 12/10/2022] [Accepted: 12/22/2022] [Indexed: 12/31/2022]
Abstract
BREVIS RADIX is a plant specific gene family with unique protein-protein interaction domain. It regulates developmental processes viz. root elongation and tiller angle which are pertinent for crop improvement. In the present study, five BRX family genes were identified in wheat genome and clustered into five sub-groups. Phylogenetic and synteny analyses revealed evolutionary conservation among BRX proteins from monocot species. Expression analyses showed abundance of TaBRXL1 transcripts in vegetative and reproductive tissues except flag leaf. TaBRXL2, TaBRXL3 and TaBRXL4 showed differential, tissue specific and lower level expression as compared to TaBRXL1. TaBRXL5-A expressed exclusively in stamens. TaBRXL1 was upregulated under biotic stresses while TaBRXL2 expression was enhanced under abiotic stresses. TaBRXL2 and TaBRXL3 were upregulated by ABA and IAA in roots. In shoot, TaBRXL2 was upregulated by ABA while TaBRXL3 and TaBRXL4 were upregulated by IAA. Expression levels, tissue specificity and response time under different conditions suggest distinct as well as overlapping functions of TaBRX genes. This was also evident from global co-expression network of these genes. Further, TaBRX proteins exhibited homotypic and heterotypic interactions which corroborated with the role of BRX domain in protein-protein interaction. This study provides leads for functional characterization of TaBRX genes.
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Affiliation(s)
- Sneha Tiwari
- ICAR-National Institute for Plant Biotechnology, Pusa Campus, New Delhi 110012, India; Amity Institute of Biotechnology, Amity University, Noida, Uttar Pradesh 201301, India
| | | | - Pranita Roy
- Amity Institute of Biotechnology, Amity University, Noida, Uttar Pradesh 201301, India
| | - Monika Dalal
- ICAR-National Institute for Plant Biotechnology, Pusa Campus, New Delhi 110012, India.
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23
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Diaz-Ardila HN, Gujas B, Wang Q, Moret B, Hardtke CS. pH-dependent CLE peptide perception permits phloem differentiation in Arabidopsis roots. Curr Biol 2023; 33:597-605.e3. [PMID: 36693368 DOI: 10.1016/j.cub.2022.12.056] [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: 10/28/2022] [Revised: 12/03/2022] [Accepted: 12/21/2022] [Indexed: 01/24/2023]
Abstract
The plant vasculature delivers phloem sap to the growth apices of sink organs, the meristems, via the interconnected sieve elements of the protophloem.1,2,3 In the A. thaliana root meristem, the stem cells form two files of protophloem sieve elements (PPSEs), whose timely differentiation requires a set of positive genetic regulators. In corresponding loss-of-function mutants, signaling of secreted CLAVATA3/EMBRYO SURROUNDING REGION 45 (CLE45) peptide through the BARELY ANY MERISTEM 3 (BAM3) receptor is hyperactive and interferes with PPSE differentiation. This can be mimicked by an external CLE45 application to wild type. Because developing PPSEs express CLE45-BAM3 pathway components from early on until terminal differentiation, it remains unclear how they escape the autocrine inhibitory CLE45 signal. Here, we report that the wild type becomes insensitive to CLE45 treatment on neutral to alkaline pH media, as well as upon simultaneous treatment with a specific proton pump inhibitor at a standard pH of 5.7. We find that these observations can be explained by neither pH-dependent CLE45 uptake nor pH-dependent CLE45 charge. Moreover, pH-dependent perception specifically requires the CLE45 R4 residue and is not observed for the redundant PPSE-specific CLE25 and CLE26 peptides. Finally, pH-dependent CLE45 response in developing PPSEs as opposed to pH-independent response in neighboring cell files indicates that late-developing PPSEs can no longer sense CLE45. This is consistent with an apoplastic acidic to alkaline pH gradient we observed along developing PPSE cell files. In summary, we conclude that developing PPSEs self-organize their transition to differentiation by desensitizing themselves against autocrine CLE45 signaling through an apoplastic pH increase.
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Affiliation(s)
- H Nicholay Diaz-Ardila
- Department of Plant Molecular Biology, University of Lausanne, 1015 Lausanne, Switzerland
| | - Bojan Gujas
- Department of Plant Molecular Biology, University of Lausanne, 1015 Lausanne, Switzerland
| | - Qian Wang
- Department of Plant Molecular Biology, University of Lausanne, 1015 Lausanne, Switzerland
| | - Bernard Moret
- Department of Plant Molecular Biology, University of Lausanne, 1015 Lausanne, Switzerland
| | - Christian S Hardtke
- Department of Plant Molecular Biology, University of Lausanne, 1015 Lausanne, Switzerland.
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24
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Zhang Y, Xu T, Dong J. Asymmetric cell division in plant development. JOURNAL OF INTEGRATIVE PLANT BIOLOGY 2023; 65:343-370. [PMID: 36610013 PMCID: PMC9975081 DOI: 10.1111/jipb.13446] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/09/2022] [Accepted: 01/05/2023] [Indexed: 05/03/2023]
Abstract
Asymmetric cell division (ACD) is a fundamental process that generates new cell types during development in eukaryotic species. In plant development, post-embryonic organogenesis driven by ACD is universal and more important than in animals, in which organ pattern is preset during embryogenesis. Thus, plant development provides a powerful system to study molecular mechanisms underlying ACD. During the past decade, tremendous progress has been made in our understanding of the key components and mechanisms involved in this important process in plants. Here, we present an overview of how ACD is determined and regulated in multiple biological processes in plant development and compare their conservation and specificity among different model cell systems. We also summarize the molecular roles and mechanisms of the phytohormones in the regulation of plant ACD. Finally, we conclude with the overarching paradigms and principles that govern plant ACD and consider how new technologies can be exploited to fill the knowledge gaps and make new advances in the field.
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Affiliation(s)
- Yi Zhang
- Plant Synthetic Biology Center, Haixia Institute of Science and Technology, and College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, China
- The Waksman Institute of Microbiology, Rutgers, the State University of New Jersey, Piscataway, NJ 08854, USA
- Correspondences: Yi Zhang (); Juan Dong (). Yi Zhang and Juan Dong are fully responsible for the distribution of all materials associated with this article
| | - Tongda Xu
- Plant Synthetic Biology Center, Haixia Institute of Science and Technology, and College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Juan Dong
- The Waksman Institute of Microbiology, Rutgers, the State University of New Jersey, Piscataway, NJ 08854, USA
- Department of Plant Biology, Rutgers, the State University of New Jersey, New Brunswick, NJ 08891, USA
- Correspondences: Yi Zhang (); Juan Dong (). Yi Zhang and Juan Dong are fully responsible for the distribution of all materials associated with this article
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25
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A phosphoinositide hub connects CLE peptide signaling and polar auxin efflux regulation. Nat Commun 2023; 14:423. [PMID: 36702874 PMCID: PMC9879999 DOI: 10.1038/s41467-023-36200-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2022] [Accepted: 01/17/2023] [Indexed: 01/27/2023] Open
Abstract
Auxin efflux through plasma-membrane-integral PIN-FORMED (PIN) carriers is essential for plant tissue organization and tightly regulated. For instance, a molecular rheostat critically controls PIN-mediated auxin transport in developing protophloem sieve elements of Arabidopsis roots. Plasma-membrane-association of the rheostat proteins, BREVIS RADIX (BRX) and PROTEIN KINASE ASSOCIATED WITH BRX (PAX), is reinforced by interaction with PHOSPHATIDYLINOSITOL-4-PHOSPHATE-5-KINASE (PIP5K). Genetic evidence suggests that BRX dampens autocrine signaling of CLAVATA3/EMBRYO SURROUNDING REGION-RELATED 45 (CLE45) peptide via its receptor BARELY ANY MERISTEM 3 (BAM3). How excess CLE45-BAM3 signaling interferes with protophloem development and whether it does so directly or indirectly remains unclear. Here we show that rheostat polarity is independent of PIN polarity, but interdependent with PIP5K. Catalytically inactive PIP5K confers rheostat polarity without reinforcing its localization, revealing a possible PIP5K scaffolding function. Moreover, PIP5K and PAX cooperatively control local PIN abundance. We further find that CLE45-BAM3 signaling branches via RLCK-VII/PBS1-LIKE (PBL) cytoplasmic kinases to destabilize rheostat localization. Our data thus reveal antagonism between CLE45-BAM3-PBL signaling and PIP5K that converges on auxin efflux regulation through dynamic control of PAX polarity. Because second-site bam3 mutation suppresses root as well as shoot phenotypes of pip5k mutants, CLE peptide signaling likely modulates phosphoinositide-dependent processes in various developmental contexts.
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26
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Ding Y, Fan B, Zhu C, Chen Z. Shared and Related Molecular Targets and Actions of Salicylic Acid in Plants and Humans. Cells 2023; 12:cells12020219. [PMID: 36672154 PMCID: PMC9856608 DOI: 10.3390/cells12020219] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2022] [Revised: 12/29/2022] [Accepted: 01/01/2023] [Indexed: 01/06/2023] Open
Abstract
Salicylic acid (SA) is a phenolic compound produced by all plants that has an important role in diverse processes of plant growth and stress responses. SA is also the principal metabolite of aspirin and is responsible for many of the anti-inflammatory, cardioprotective and antitumor activities of aspirin. As a result, the number of identified SA targets in both plants and humans is large and continues to increase. These SA targets include catalases/peroxidases, metabolic enzymes, protein kinases and phosphatases, nucleosomal and ribosomal proteins and regulatory and signaling proteins, which mediate the diverse actions of SA in plants and humans. While some of these SA targets and actions are unique to plants or humans, many others are conserved or share striking similarities in the two types of organisms, which underlie a host of common biological processes that are regulated or impacted by SA. In this review, we compare shared and related SA targets and activities to highlight the common nature of actions by SA as a hormone in plants versus a therapeutic agent in humans. The cross examination of SA targets and activities can help identify new actions of SA and better explain their underlying mechanisms in plants and humans.
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Affiliation(s)
- Yuanyuan Ding
- College of Life Sciences, China Jiliang University, Hangzhou 310018, China
| | - Baofang Fan
- Department of Botany and Plant Pathology and Purdue Center for Plant Biology, Purdue University, West Lafayette, IN 47907-2054, USA
| | - Cheng Zhu
- College of Life Sciences, China Jiliang University, Hangzhou 310018, China
- Correspondence: (C.Z.); (Z.C.); Tel.: +86-571-8683-6090 (C.Z.); +1-765-494-4657 (Z.C.)
| | - Zhixiang Chen
- College of Life Sciences, China Jiliang University, Hangzhou 310018, China
- Department of Botany and Plant Pathology and Purdue Center for Plant Biology, Purdue University, West Lafayette, IN 47907-2054, USA
- Correspondence: (C.Z.); (Z.C.); Tel.: +86-571-8683-6090 (C.Z.); +1-765-494-4657 (Z.C.)
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27
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Che X, Splitt BL, Eckholm MT, Miller ND, Spalding EP. BRXL4-LAZY1 interaction at the plasma membrane controls Arabidopsis branch angle and gravitropism. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2023; 113:211-224. [PMID: 36478485 PMCID: PMC10107345 DOI: 10.1111/tpj.16055] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/04/2022] [Revised: 11/28/2022] [Accepted: 12/03/2022] [Indexed: 06/17/2023]
Abstract
Gravitropism guides growth to shape plant architecture above and below ground. Mutations in LAZY1 impair stem gravitropism and cause less upright inflorescence branches (wider angles). The LAZY1 protein resides at the plasma membrane and in the nucleus. The plasma membrane pool is necessary and sufficient for setting branch angles. To investigate the molecular mechanism of LAZY1 function, we screened for LAZY1-interacting proteins in yeast. We identified BRXL4, a shoot-specific protein related to BREVIS RADIX. The BRXL4-LAZY1 interaction occurred at the plasma membrane in plant cells, and not detectably in the nucleus. Mutations in the C-terminus of LAZY1, but not other conserved regions, prevented the interaction. Opposite to lazy1, brxl4 mutants displayed faster gravitropism and more upright branches. Overexpressing BRXL4 produced strong lazy1 phenotypes. The apparent negative regulation of LAZY1 function is consistent with BRXL4 reducing LAZY1 expression or the amount of LAZY1 at the plasma membrane. Measurements indicated that both are true. LAZY1 mRNA was three-fold more abundant in brxl4 mutants and almost undetectable in BRXL4 overexpressors. Plasma membrane LAZY1 was higher and nuclear LAZY1 lower in brxl4 mutants compared with the wild type. To explain these results, we suggest that BRXL4 reduces the amount of LAZY1 at the plasma membrane where it functions in gravity signaling and promotes LAZY1 accumulation in the nucleus where it reduces LAZY1 expression, possibly by suppressing its own transcription. This explanation of how BRXL4 negatively regulates LAZY1 suggests ways to modify shoot system architecture for practical purposes.
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Affiliation(s)
- Ximing Che
- Department of BotanyUniversity of Wisconsin‐MadisonMadisonWI53706USA
| | - Bessie L. Splitt
- Department of BotanyUniversity of Wisconsin‐MadisonMadisonWI53706USA
| | - Magnus T. Eckholm
- Department of BotanyUniversity of Wisconsin‐MadisonMadisonWI53706USA
| | - Nathan D. Miller
- Department of BotanyUniversity of Wisconsin‐MadisonMadisonWI53706USA
| | - Edgar P. Spalding
- Department of BotanyUniversity of Wisconsin‐MadisonMadisonWI53706USA
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28
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Wang Y, Zhou G, Luo H, Li X, Zhang K, Wan Y. Genome-Wide Identification of PIN and PILS Gene Families in Areca catechu and the Potential Role of AcPIN6 in Lateral Brace Root Formation. PLANTS (BASEL, SWITZERLAND) 2022; 12:33. [PMID: 36616161 PMCID: PMC9824567 DOI: 10.3390/plants12010033] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/06/2022] [Revised: 12/06/2022] [Accepted: 12/16/2022] [Indexed: 06/17/2023]
Abstract
PIN-FORMED (PIN) and PIN-LIKES (PILS) are two families of auxin transporters that control the directional cell-to-cell transport and intracellular accumulation of auxin, thereby influencing plant growth and development. Most knowledge of PINs and PILSs was obtained from the dicot model plant Arabidopsis thaliana. Here, we focus on the distribution and expression of the PIN and PILS gene families in areca palm (Areca catechu), a monocot tree. The whole genomic dataset of areca palm was used to identify twelve AcPINs and eight AcPILSs, and a phylogenetic tree was constructed of PINS and PILS together with several other palm species, including the date palm (Phoenix dactylifera), oil palm (Elaeis guineensis), and coconut (Cocos nucifera). We further analyzed the expression patterns of AcPIN and AcPILS in areca palm, and found that AcPIN6 displayed an extremely high transcriptional abundance in the brace roots and was extremely stimulated in the lateral root primordium. This result implies that AcPIN6 plays an important role in the growth and formation of brace roots, especially in lateral root initiation. We also overexpressed AcPIN6 and AcPIN6-eGFP in Arabidopsis, and the results revealed that the PIN6 localized on the plasma membrane and affected auxin-related phenomena. Taken together, we analyzed the evolutionary relationships of PINs and PILSs in palm species, and the roles of PIN6 in areca palm root formation. The results will improve the understanding of root system construction in large palm trees.
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29
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Kawamoto N, Morita MT. Gravity sensing and responses in the coordination of the shoot gravitropic setpoint angle. THE NEW PHYTOLOGIST 2022; 236:1637-1654. [PMID: 36089891 PMCID: PMC9828789 DOI: 10.1111/nph.18474] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/27/2022] [Accepted: 08/13/2022] [Indexed: 06/15/2023]
Abstract
Gravity is one of the fundamental environmental cues that affect plant development. Indeed, the plant architecture in the shoots and roots is modulated by gravity. Stems grow vertically upward, whereas lateral organs, such as the lateral branches in shoots, tend to grow at a specific angle according to a gravity vector known as the gravitropic setpoint angle (GSA). During this process, gravity is sensed in specialised gravity-sensing cells named statocytes, which convert gravity information into biochemical signals, leading to asymmetric auxin distribution and driving asymmetric cell division/expansion in the organs to achieve gravitropism. As a hypothetical offset mechanism against gravitropism to determine the GSA, the anti-gravitropic offset (AGO) has been proposed. According to this concept, the GSA is a balance of two antagonistic growth components, that is gravitropism and the AGO. Although the nature of the AGO has not been clarified, studies have suggested that gravitropism and the AGO share a common gravity-sensing mechanism in statocytes. This review discusses the molecular mechanisms underlying gravitropism as well as the hypothetical AGO in the control of the GSA.
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Affiliation(s)
- Nozomi Kawamoto
- Division of Plant Environmental ResponsesNational Institute for Basic BiologyMyodaijiOkazaki444‐8556Japan
| | - Miyo Terao Morita
- Division of Plant Environmental ResponsesNational Institute for Basic BiologyMyodaijiOkazaki444‐8556Japan
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30
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Manna M, Rengasamy B, Ambasht NK, Sinha AK. Characterization and expression profiling of PIN auxin efflux transporters reveal their role in developmental and abiotic stress conditions in rice. FRONTIERS IN PLANT SCIENCE 2022; 13:1059559. [PMID: 36531415 PMCID: PMC9751476 DOI: 10.3389/fpls.2022.1059559] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/01/2022] [Accepted: 11/11/2022] [Indexed: 06/17/2023]
Abstract
The auxin efflux transporter proteins called PINs ferry auxin from its source to sinks in particular directions depending on their polar localizations in the plasma membrane, thus facilitating the development of the entire plant architecture. The rice genome has 12 PIN genes distributed over eight chromosomes. To study their roles in plant development, abiotic stress responsiveness, and shaping an auxin-dependent root architecture, a genome-wide analysis was carried out. Based on phylogeny, cellular localization, and hydrophilic loop domain size, the PINs were categorized into canonical and noncanonical PINs. PINs were found expressed in all of the organs of plants that emphasized their indispensable role throughout the plant's life cycle. We discovered that PIN5C and PIN9 were upregulated during salt and drought stress. We also found that regardless of its cellular level, auxin functioned as a molecular switch to turn on auxin biosynthesis genes. On the contrary, although PIN expression was upregulated upon initial treatment with auxin, prolonged auxin treatment not only led to their downregulation but also led to the development of auxin-dependent altered root formation in rice. Our study paves the way for developing stress-tolerant rice and plants with a desirable root architecture by genetic engineering.
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Affiliation(s)
- Mrinalini Manna
- National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi, India
| | | | | | - Alok Krishna Sinha
- National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi, India
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31
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Koh SWH, Diaz-Ardila HN, Bascom CS, Berenguer E, Ingram G, Estelle M, Hardtke CS. Heterologous expression of a lycophyte protein enhances angiosperm seedling vigor. Development 2022; 149:dev200917. [PMID: 36196593 PMCID: PMC10655917 DOI: 10.1242/dev.200917] [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: 05/06/2022] [Accepted: 09/26/2022] [Indexed: 03/15/2023]
Abstract
Seedling vigor is a key agronomic trait that determines juvenile plant performance. Angiosperm seeds develop inside fruits and are connected to the mother plant through vascular tissues. Their formation requires plant-specific genes, such as BREVIS RADIX (BRX) in Arabidopsis thaliana roots. BRX family proteins are found throughout the euphyllophytes but also occur in non-vascular bryophytes and non-seed lycophytes. They consist of four conserved domains, including the tandem BRX domains. We found that bryophyte or lycophyte BRX homologs can only partially substitute for Arabidopsis BRX (AtBRX) because they miss key features in the linker between the BRX domains. Intriguingly, however, expression of a BRX homolog from the lycophyte Selaginella moellendorffii (SmBRX) in an A. thaliana wild-type background confers robustly enhanced root growth vigor that persists throughout the life cycle. This effect can be traced to a substantial increase in seed and embryo size, is associated with enhanced vascular tissue proliferation, and can be reproduced with a modified, SmBRX-like variant of AtBRX. Our results thus suggest that BRX variants can boost seedling vigor and shed light on the activity of ancient, non-angiosperm BRX family proteins.
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Affiliation(s)
- Samuel W. H. Koh
- Department of Plant Molecular Biology, University of Lausanne, CH-1015 Lausanne, Switzerland
| | | | - Carlisle S. Bascom
- Section of Cell and Developmental Biology, University of California San Diego, La Jolla, CA 92093, USA
| | - Eduardo Berenguer
- Laboratoire Reproduction et Développement des Plantes, ENS de Lyon, 69364 Lyon, France
| | - Gwyneth Ingram
- Laboratoire Reproduction et Développement des Plantes, ENS de Lyon, 69364 Lyon, France
| | - Mark Estelle
- Section of Cell and Developmental Biology, University of California San Diego, La Jolla, CA 92093, USA
| | - Christian S. Hardtke
- Department of Plant Molecular Biology, University of Lausanne, CH-1015 Lausanne, Switzerland
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32
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Jinu J, Visarada KBRS, Kanti M, Malathi VM. Dehydration stress influences the expression of brevis radix gene family members in sorghum (Sorghum bicolor). PROCEEDINGS OF THE INDIAN NATIONAL SCIENCE ACADEMY 2022. [DOI: 10.1007/s43538-022-00088-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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33
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Guo X, Dong J. Protein polarization: Spatiotemporal precisions in cell division and differentiation. CURRENT OPINION IN PLANT BIOLOGY 2022; 68:102257. [PMID: 35816992 PMCID: PMC9968528 DOI: 10.1016/j.pbi.2022.102257] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/06/2022] [Revised: 05/01/2022] [Accepted: 06/01/2022] [Indexed: 05/16/2023]
Abstract
Specification of cell polarity is vital to normal cell growth, morphogenesis, and function. As other eukaryotes, plants generate cellular polarity that is coordinated with tissue polarity and organ axes. In development, new cell types are generated by stem-cell division and differentiation, a process often involving proteins that are polarized to cortical domains at the plasma membrane. In the past decade, pioneering work using the model plant Arabidopsis identified multiple proteins that are polarized in dividing cells to instruct divisional behaviors and/or specify cell fates. In this review, we use these polarized cell-division regulators as example to summarize key mechanisms underlying protein polarization in plant cells. Recent progress underscores that self-organizing amplification processes are commonly involved in establishing cell polarity, and cellular polarity is influenced by both tissue-level and local mechanochemical cues. In addition, protein polarization during asymmetric cell division shows a distinct feature of temporal control in the stomatal lineage. We further discuss possible coordination between protein polarization and the progression of cell cycle in this developmental context.
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Affiliation(s)
- Xiaoyu Guo
- Waksman Institute of Microbiology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, USA.
| | - Juan Dong
- Waksman Institute of Microbiology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, USA; Department of Plant Biology, Rutgers, The State University of New Jersey, New Brunswick, NJ 08901, USA.
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34
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Otero S, Gildea I, Roszak P, Lu Y, Di Vittori V, Bourdon M, Kalmbach L, Blob B, Heo JO, Peruzzo F, Laux T, Fernie AR, Tavares H, Helariutta Y. A root phloem pole cell atlas reveals common transcriptional states in protophloem-adjacent cells. NATURE PLANTS 2022; 8:954-970. [PMID: 35927456 DOI: 10.1038/s41477-022-01178-y] [Citation(s) in RCA: 24] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/07/2021] [Accepted: 05/24/2022] [Indexed: 06/15/2023]
Abstract
Single-cell sequencing has recently allowed the generation of exhaustive root cell atlases. However, some cell types are elusive and remain underrepresented. Here we use a second-generation single-cell approach, where we zoom in on the root transcriptome sorting with specific markers to profile the phloem poles at an unprecedented resolution. Our data highlight the similarities among the developmental trajectories and gene regulatory networks common to protophloem sieve element (PSE)-adjacent lineages in relation to PSE enucleation, a key event in phloem biology. As a signature for early PSE-adjacent lineages, we have identified a set of DNA-binding with one finger (DOF) transcription factors, the PINEAPPLEs (PAPL), that act downstream of PHLOEM EARLY DOF (PEAR) genes and are important to guarantee a proper root nutrition in the transition to autotrophy. Our data provide a holistic view of the phloem poles that act as a functional unit in root development.
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Affiliation(s)
- Sofia Otero
- The Sainsbury Laboratory, University of Cambridge, Cambridge, UK
| | - Iris Gildea
- Institute of Biotechnology, HiLIFE/Organismal and Evolutionary Biology Research Programme, Faculty of Biological and Environmental Sciences, Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland
- Department of Plant Biology and Genome Center, University of California, Davis, CA, USA
| | - Pawel Roszak
- The Sainsbury Laboratory, University of Cambridge, Cambridge, UK
| | - Yipeng Lu
- The Sainsbury Laboratory, University of Cambridge, Cambridge, UK
| | - Valerio Di Vittori
- Max-Planck-Institute of Molecular Plant Physiology, Potsdam-Golm, Germany
- Dipartimento di Scienze Agrarie, Alimentari ed Ambientali, Università Politecnica delle Marche, Ancona, Italy
| | - Matthieu Bourdon
- The Sainsbury Laboratory, University of Cambridge, Cambridge, UK
| | - Lothar Kalmbach
- The Sainsbury Laboratory, University of Cambridge, Cambridge, UK
| | - Bernhard Blob
- The Sainsbury Laboratory, University of Cambridge, Cambridge, UK
| | - Jung-Ok Heo
- The Sainsbury Laboratory, University of Cambridge, Cambridge, UK
| | | | - Thomas Laux
- Signalling Research Centres BIOSS and CIBSS, Freiburg, Germany
| | - Alisdair R Fernie
- Max-Planck-Institute of Molecular Plant Physiology, Potsdam-Golm, Germany
| | - Hugo Tavares
- The Sainsbury Laboratory, University of Cambridge, Cambridge, UK.
- Department of Genetics, University of Cambridge, Cambridge, UK.
| | - Yka Helariutta
- The Sainsbury Laboratory, University of Cambridge, Cambridge, UK.
- Institute of Biotechnology, HiLIFE/Organismal and Evolutionary Biology Research Programme, Faculty of Biological and Environmental Sciences, Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland.
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35
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Cheng S, Wang Y. Subcellular trafficking and post-translational modification regulate PIN polarity in plants. FRONTIERS IN PLANT SCIENCE 2022; 13:923293. [PMID: 35968084 PMCID: PMC9363823 DOI: 10.3389/fpls.2022.923293] [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: 04/19/2022] [Accepted: 07/06/2022] [Indexed: 06/15/2023]
Abstract
Auxin regulates plant growth and tropism responses. As a phytohormone, auxin is transported between its synthesis sites and action sites. Most natural auxin moves between cells via a polar transport system that is mediated by PIN-FORMED (PIN) auxin exporters. The asymmetrically localized PINs usually determine the directionality of intercellular auxin flow. Different internal cues and external stimuli modulate PIN polar distribution and activity at multiple levels, including transcription, protein stability, subcellular trafficking, and post-translational modification, and thereby regulate auxin-distribution-dependent development. Thus, the different regulation levels of PIN polarity constitute a complex network. For example, the post-translational modification of PINs can affect the subcellular trafficking of PINs. In this review, we focus on subcellular trafficking and post-translational modification of PINs to summarize recent progress in understanding PIN polarity.
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Affiliation(s)
- Shuyang Cheng
- Department of Agronomy, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, China
| | - Yizhou Wang
- Department of Agronomy, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, China
- Hainan Yazhou Bay Seed Laboratory, Sanya, China
- Zhejiang Provincial Key Laboratory of Crop Germplasm, Zhejiang University, Hangzhou, China
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36
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Peng Y, Zuo W, Zhou H, Miao F, Zhang Y, Qin Y, Liu Y, Long Y, Ma S. EXPLICIT-Kinase: A gene expression predictor for dissecting the functions of the Arabidopsis kinome. JOURNAL OF INTEGRATIVE PLANT BIOLOGY 2022; 64:1374-1393. [PMID: 35446465 DOI: 10.1111/jipb.13267] [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: 02/27/2022] [Accepted: 04/19/2022] [Indexed: 06/14/2023]
Abstract
Protein kinases regulate virtually all cellular processes, but it remains challenging to determine the functions of all protein kinases, collectively called the "kinome", in any species. We developed a computational approach called EXPLICIT-Kinase to predict the functions of the Arabidopsis kinome. Because the activities of many kinases can be regulated transcriptionally, their gene expression patterns provide clues to their functions. A universal gene expression predictor for Arabidopsis was constructed to predict the expression of 30,172 non-kinase genes based on the expression of 994 kinases. The model reconstituted highly accurate transcriptomes for diverse Arabidopsis samples. It identified the significant kinases as predictor kinases for predicting the expression of Arabidopsis genes and pathways. Strikingly, these predictor kinases were often regulators of related pathways, as exemplified by those involved in cytokinesis, tissue development, and stress responses. Comparative analyses revealed that portions of these predictor kinases are shared and conserved between Arabidopsis and maize. As an example, we identified a conserved predictor kinase, RAF6, from a stomatal movement module. We verified that RAF6 regulates stomatal closure. It can directly interact with SLAC1, a key anion channel for stomatal closure, and modulate its channel activity. Our approach enables a systematic dissection of the functions of the Arabidopsis kinome.
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Affiliation(s)
- Yuming Peng
- MOE Key Laboratory for Membraneless Organelles and Cellular Dynamics, School of Life Sciences, University of Science and Technology of China, Innovation Academy for Seed Design, Chinese Academy of Sciences, Hefei, 230027, China
| | - Wanzhu Zuo
- MOE Key Laboratory for Membraneless Organelles and Cellular Dynamics, School of Life Sciences, University of Science and Technology of China, Innovation Academy for Seed Design, Chinese Academy of Sciences, Hefei, 230027, China
| | - Hui Zhou
- State Key Laboratory of Crop Stress Adaptation and Improvement, School of Life Sciences, Henan University, Kaifeng, 475001, China
| | - Fenfen Miao
- State Key Laboratory for Plant Molecular Genetics, Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, 200032, China
| | - Yu Zhang
- MOE Key Laboratory for Membraneless Organelles and Cellular Dynamics, School of Life Sciences, University of Science and Technology of China, Innovation Academy for Seed Design, Chinese Academy of Sciences, Hefei, 230027, China
| | - Yue Qin
- MOE Key Laboratory for Membraneless Organelles and Cellular Dynamics, School of Life Sciences, University of Science and Technology of China, Innovation Academy for Seed Design, Chinese Academy of Sciences, Hefei, 230027, China
| | - Yi Liu
- MOE Key Laboratory for Membraneless Organelles and Cellular Dynamics, School of Life Sciences, University of Science and Technology of China, Innovation Academy for Seed Design, Chinese Academy of Sciences, Hefei, 230027, China
| | - Yu Long
- State Key Laboratory of Crop Stress Adaptation and Improvement, School of Life Sciences, Henan University, Kaifeng, 475001, China
| | - Shisong Ma
- MOE Key Laboratory for Membraneless Organelles and Cellular Dynamics, School of Life Sciences, University of Science and Technology of China, Innovation Academy for Seed Design, Chinese Academy of Sciences, Hefei, 230027, China
- School of Data Science, University of Science and Technology of China, Hefei, 230027, China
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37
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Heilmann M, Heilmann I. Regulators regulated: Different layers of control for plasma membrane phosphoinositides in plants. CURRENT OPINION IN PLANT BIOLOGY 2022; 67:102218. [PMID: 35504191 DOI: 10.1016/j.pbi.2022.102218] [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: 02/10/2022] [Revised: 03/09/2022] [Accepted: 03/18/2022] [Indexed: 06/14/2023]
Abstract
The membranes of plant cells serve diverse physiological roles, which are defined largely by the localized and dynamic recruitment of proteins. Signaling lipids, such as phosphoinositides, can aid protein recruitment to the plasma membrane via specific recognition of their head groups and influence vesicular trafficking, cytoskeletal dynamics and other processes, with ramifications for plant tissue architecture and development. Phosphoinositide abundance is dynamically regulated. Recent advances indicate various levels of control during development or upon environmental triggers, including transcriptional or posttranslational regulation of enzymes balancing biogenesis and degradation, or the nano-organization of membranes into self-organizing physiologically distinct microenvironments. As patterns of interlinked mechanisms emerge, the horizons of what we do not understand become more and more defined.
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Affiliation(s)
- Mareike Heilmann
- Department of Plant Biochemistry, Institute of Biochemistry and Biotechnology, Martin Luther University Halle-Wittenberg, Kurt-Mothes-Str. 3a, 06120 Halle (Saale), Germany
| | - Ingo Heilmann
- Department of Plant Biochemistry, Institute of Biochemistry and Biotechnology, Martin Luther University Halle-Wittenberg, Kurt-Mothes-Str. 3a, 06120 Halle (Saale), Germany.
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38
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DeFalco TA, Anne P, James SR, Willoughby AC, Schwanke F, Johanndrees O, Genolet Y, Derbyshire P, Wang Q, Rana S, Pullen AM, Menke FLH, Zipfel C, Hardtke CS, Nimchuk ZL. A conserved module regulates receptor kinase signalling in immunity and development. NATURE PLANTS 2022; 8:356-365. [PMID: 35422079 PMCID: PMC9639402 DOI: 10.1038/s41477-022-01134-w] [Citation(s) in RCA: 23] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/07/2022] [Accepted: 03/14/2022] [Indexed: 06/01/2023]
Abstract
Ligand recognition by cell-surface receptors underlies development and immunity in both animals and plants. Modulating receptor signalling is critical for appropriate cellular responses but the mechanisms ensuring this are poorly understood. Here, we show that signalling by plant receptors for pathogen-associated molecular patterns (PAMPs) in immunity and CLAVATA3/EMBRYO SURROUNDING REGION-RELATED peptides (CLEp) in development uses a similar regulatory module. In the absence of ligand, signalling is dampened through association with specific type-2C protein phosphatases. Upon activation, PAMP and CLEp receptors phosphorylate divergent cytosolic kinases, which, in turn, phosphorylate the phosphatases, thereby promoting receptor signalling. Our work reveals a regulatory circuit shared between immune and developmental receptor signalling, which may have broader important implications for plant receptor kinase-mediated signalling in general.
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Affiliation(s)
- Thomas A DeFalco
- Institute of Plant and Microbial Biology and Zürich-Basel Plant Science Center, University of Zürich, Zurich, Switzerland
- The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich, UK
| | - Pauline Anne
- Department of Plant Molecular Biology, University of Lausanne, Lausanne, Switzerland
| | - Sean R James
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Andrew C Willoughby
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Florian Schwanke
- Institute of Plant and Microbial Biology and Zürich-Basel Plant Science Center, University of Zürich, Zurich, Switzerland
| | - Oliver Johanndrees
- Institute of Plant and Microbial Biology and Zürich-Basel Plant Science Center, University of Zürich, Zurich, Switzerland
- Max Planck Institute for Plant Breeding Research, Cologne, Germany
| | - Yasmine Genolet
- Department of Plant Molecular Biology, University of Lausanne, Lausanne, Switzerland
| | - Paul Derbyshire
- The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich, UK
| | - Qian Wang
- Department of Plant Molecular Biology, University of Lausanne, Lausanne, Switzerland
| | - Surbhi Rana
- Department of Plant Molecular Biology, University of Lausanne, Lausanne, Switzerland
| | - Anne-Marie Pullen
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Frank L H Menke
- The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich, UK
| | - Cyril Zipfel
- Institute of Plant and Microbial Biology and Zürich-Basel Plant Science Center, University of Zürich, Zurich, Switzerland.
- The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich, UK.
| | - Christian S Hardtke
- Department of Plant Molecular Biology, University of Lausanne, Lausanne, Switzerland.
| | - Zachary L Nimchuk
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
- Curriculum in Genetics and Molecular Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
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39
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DeFalco TA, Anne P, James SR, Willoughby AC, Schwanke F, Johanndrees O, Genolet Y, Derbyshire P, Wang Q, Rana S, Pullen AM, Menke FLH, Zipfel C, Hardtke CS, Nimchuk ZL. A conserved module regulates receptor kinase signalling in immunity and development. NATURE PLANTS 2022; 8:356-365. [PMID: 35422079 DOI: 10.1101/2021.01.19.427293] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/07/2022] [Accepted: 03/14/2022] [Indexed: 05/22/2023]
Abstract
Ligand recognition by cell-surface receptors underlies development and immunity in both animals and plants. Modulating receptor signalling is critical for appropriate cellular responses but the mechanisms ensuring this are poorly understood. Here, we show that signalling by plant receptors for pathogen-associated molecular patterns (PAMPs) in immunity and CLAVATA3/EMBRYO SURROUNDING REGION-RELATED peptides (CLEp) in development uses a similar regulatory module. In the absence of ligand, signalling is dampened through association with specific type-2C protein phosphatases. Upon activation, PAMP and CLEp receptors phosphorylate divergent cytosolic kinases, which, in turn, phosphorylate the phosphatases, thereby promoting receptor signalling. Our work reveals a regulatory circuit shared between immune and developmental receptor signalling, which may have broader important implications for plant receptor kinase-mediated signalling in general.
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Affiliation(s)
- Thomas A DeFalco
- Institute of Plant and Microbial Biology and Zürich-Basel Plant Science Center, University of Zürich, Zurich, Switzerland
- The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich, UK
| | - Pauline Anne
- Department of Plant Molecular Biology, University of Lausanne, Lausanne, Switzerland
| | - Sean R James
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Andrew C Willoughby
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Florian Schwanke
- Institute of Plant and Microbial Biology and Zürich-Basel Plant Science Center, University of Zürich, Zurich, Switzerland
| | - Oliver Johanndrees
- Institute of Plant and Microbial Biology and Zürich-Basel Plant Science Center, University of Zürich, Zurich, Switzerland
- Max Planck Institute for Plant Breeding Research, Cologne, Germany
| | - Yasmine Genolet
- Department of Plant Molecular Biology, University of Lausanne, Lausanne, Switzerland
| | - Paul Derbyshire
- The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich, UK
| | - Qian Wang
- Department of Plant Molecular Biology, University of Lausanne, Lausanne, Switzerland
| | - Surbhi Rana
- Department of Plant Molecular Biology, University of Lausanne, Lausanne, Switzerland
| | - Anne-Marie Pullen
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Frank L H Menke
- The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich, UK
| | - Cyril Zipfel
- Institute of Plant and Microbial Biology and Zürich-Basel Plant Science Center, University of Zürich, Zurich, Switzerland.
- The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich, UK.
| | - Christian S Hardtke
- Department of Plant Molecular Biology, University of Lausanne, Lausanne, Switzerland.
| | - Zachary L Nimchuk
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
- Curriculum in Genetics and Molecular Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
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40
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Ortigosa F, Lobato-Fernández C, Shikano H, Ávila C, Taira S, Cánovas FM, Cañas RA. Ammonium regulates the development of pine roots through hormonal crosstalk and differential expression of transcription factors in the apex. PLANT, CELL & ENVIRONMENT 2022; 45:915-935. [PMID: 34724238 DOI: 10.1111/pce.14214] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/21/2021] [Accepted: 10/25/2021] [Indexed: 06/13/2023]
Abstract
Ammonium is a prominent source of inorganic nitrogen for plant nutrition, but excessive amounts can be toxic for many species. However, most conifers are tolerant to ammonium, a relevant physiological feature of this ancient evolutionary lineage. For a better understanding of the molecular basis of this trait, ammonium-induced changes in the transcriptome of maritime pine (Pinus pinaster Ait.) root apex have been determined by laser capture microdissection and RNA sequencing. Ammonium promoted changes in the transcriptional profiles of multiple transcription factors, such as SHORT-ROOT, and phytohormone-related transcripts, such as ACO, involved in the development of the root meristem. Nano-PALDI-MSI and transcriptomic analyses showed that the distributions of IAA and CKs were altered in the root apex in response to ammonium nutrition. Taken together, the data suggest that this early response is involved in the increased lateral root branching and principal root growth, which characterize the long-term response to ammonium supply in pine. All these results suggest that ammonium induces changes in the root system architecture through the IAA-CK-ET phytohormone crosstalk and transcriptional regulation.
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Affiliation(s)
- Francisco Ortigosa
- Grupo de Biología Molecular y Biotecnología, Departamento de Biología Molecular y Bioquímica, Universidad de Málaga, Campus Universitario de Teatinos, Málaga, Spain
| | - César Lobato-Fernández
- Grupo de Biología Molecular y Biotecnología, Departamento de Biología Molecular y Bioquímica, Universidad de Málaga, Campus Universitario de Teatinos, Málaga, Spain
| | - Hitomi Shikano
- Faculty of Food and Agricultural Sciences, Fukushima University, Kanayagawa, Fukushima, Japan
| | - Concepción Ávila
- Grupo de Biología Molecular y Biotecnología, Departamento de Biología Molecular y Bioquímica, Universidad de Málaga, Campus Universitario de Teatinos, Málaga, Spain
| | - Shu Taira
- Faculty of Food and Agricultural Sciences, Fukushima University, Kanayagawa, Fukushima, Japan
| | - Francisco M Cánovas
- Grupo de Biología Molecular y Biotecnología, Departamento de Biología Molecular y Bioquímica, Universidad de Málaga, Campus Universitario de Teatinos, Málaga, Spain
| | - Rafael A Cañas
- Grupo de Biología Molecular y Biotecnología, Departamento de Biología Molecular y Bioquímica, Universidad de Málaga, Campus Universitario de Teatinos, Málaga, Spain
- Integrative Molecular Biology Lab, Departamento de Biología Molecular y Bioquímica, Universidad de Málaga, Campus Universitario de Teatinos, Málaga, Spain
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41
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Rutten J, van den Berg T, Tusscher KT. Modeling Auxin Signaling in Roots: Auxin Computations. Cold Spring Harb Perspect Biol 2022; 14:a040089. [PMID: 34001532 PMCID: PMC8805645 DOI: 10.1101/cshperspect.a040089] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
Abstract
Auxin signaling and patterning is an inherently complex process, involving polarized auxin transport, metabolism, and signaling, its effect on developmental zones, as well as growth rates, and the feedback between all these different aspects. This complexity has led to an important role for computational modeling in unraveling the multifactorial roles of auxin in plant developmental and adaptive processes. Here we discuss the basic ingredients of auxin signaling and patterning models for root development as well as a series of key modeling studies in this area. These modeling studies have helped elucidate how plants use auxin signaling to compute the size of their root meristem, the direction in which to grow, and when and where to form lateral roots. Importantly, these models highlight how auxin, through patterning of and collaborating with other factors, can fulfill all these roles simultaneously.
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Affiliation(s)
- Jaap Rutten
- Computational Developmental Biology Group, Utrecht University, Utrecht 3584 CH, The Netherlands
| | - Thea van den Berg
- Computational Developmental Biology Group, Utrecht University, Utrecht 3584 CH, The Netherlands
| | - Kirsten Ten Tusscher
- Computational Developmental Biology Group, Utrecht University, Utrecht 3584 CH, The Netherlands
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42
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Lanassa Bassukas AE, Xiao Y, Schwechheimer C. Phosphorylation control of PIN auxin transporters. CURRENT OPINION IN PLANT BIOLOGY 2022; 65:102146. [PMID: 34974229 DOI: 10.1016/j.pbi.2021.102146] [Citation(s) in RCA: 15] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/12/2021] [Revised: 10/22/2021] [Accepted: 10/23/2021] [Indexed: 06/14/2023]
Abstract
The directional transport of the phytohormone auxin is required for proper plant development and tropic growth. Auxin cell-to-cell transport gains directionality through the polar distribution of 'canonical' long PIN-FORMED (PIN) auxin efflux carriers. In recent years, AGC kinases, MAP kinases, Ca2+/CALMODULIN-DEPENDENT PROTEIN KINASE-RELATED KINASEs and receptor kinases have been implicated in the control of PIN activity, polarity and trafficking. In this review, we summarize the current knowledge in understanding the posttranslational regulation of PINs by these different protein kinase families. The proposed regulation of PINs by AGC kinases after salt stress and by the stress-activated MAP kinases suggest that abiotic and biotic stress factors may modulate auxin transport and thereby plant growth.
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Affiliation(s)
- Alkistis E Lanassa Bassukas
- Plant Systems Biology, School of Life Sciences, Technical University of Munich, Emil-Ramann-Strasse 8, 85354, Freising, Germany
| | - Yao Xiao
- Plant Systems Biology, School of Life Sciences, Technical University of Munich, Emil-Ramann-Strasse 8, 85354, Freising, Germany
| | - Claus Schwechheimer
- Plant Systems Biology, School of Life Sciences, Technical University of Munich, Emil-Ramann-Strasse 8, 85354, Freising, Germany.
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43
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Aliaga Fandino AC, Hardtke CS. Auxin transport in developing protophloem: A case study in canalization. JOURNAL OF PLANT PHYSIOLOGY 2022; 269:153594. [PMID: 34953411 DOI: 10.1016/j.jplph.2021.153594] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/21/2021] [Revised: 11/03/2021] [Accepted: 12/14/2021] [Indexed: 06/14/2023]
Abstract
Spatiotemporal cues orchestrate the development of organs and cellular differentiation in multicellular organisms. For instance, in the root apical meristem an auxin gradient patterns the transition from stem cell maintenance to transit amplification and eventual differentiation. Among the proximal tissues generated by this growth apex, the early, so-called protophloem, is the first tissue to differentiate. This observation has been linked to increased auxin activity in the developing protophloem sieve element cell files as compared to the neighboring tissues. Here we review recent progress in the characterization of the unique mechanism by which auxin canalizes its activity in the developing protophloem and fine-tunes its own transport to guide proper timing of protophloem sieve element differentiation.
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Affiliation(s)
- Ana Cecilia Aliaga Fandino
- Department of Plant Molecular Biology, University of Lausanne, Biophore Building, 1015, Lausanne, Switzerland
| | - Christian S Hardtke
- Department of Plant Molecular Biology, University of Lausanne, Biophore Building, 1015, Lausanne, Switzerland.
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44
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Abstract
From embryogenesis to fruit formation, almost every aspect of plant development and differentiation is controlled by the cellular accumulation or depletion of auxin from cells and tissues. The respective auxin maxima and minima are generated by cell-to-cell auxin transport via transporter proteins. Differential auxin accumulation as a result of such transport processes dynamically regulates auxin distribution during differentiation. In this review, we introduce all auxin transporter (families) identified to date and discuss the knowledge on prominent family members, namely, the PIN-FORMED exporters, ATP-binding cassette B (ABCB)-type transporters, and AUX1/LAX importers. We then concentrate on the biochemical features of these transporters and their regulation by posttranslational modifications and interactors.
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Affiliation(s)
- Ulrich Z Hammes
- Plant Systems Biology, School of Life Sciences, Technical University of Munich, 85354 Freising, Germany
| | - Angus S Murphy
- Department of Plant Science and Landscape Architecture
- Agriculture Biotechnology Center, University of Maryland, College Park, Maryland 20742, USA
| | - Claus Schwechheimer
- Plant Systems Biology, School of Life Sciences, Technical University of Munich, 85354 Freising, Germany
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45
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Ramalho JJ, Jones VAS, Mutte S, Weijers D. Pole position: How plant cells polarize along the axes. THE PLANT CELL 2022; 34:174-192. [PMID: 34338785 PMCID: PMC8774072 DOI: 10.1093/plcell/koab203] [Citation(s) in RCA: 24] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/07/2021] [Accepted: 07/30/2021] [Indexed: 05/10/2023]
Abstract
Having a sense of direction is a fundamental cellular trait that can determine cell shape, division orientation, or function, and ultimately the formation of a functional, multicellular body. Cells acquire and integrate directional information by establishing discrete subcellular domains along an axis with distinct molecular profiles, a process known as cell polarization. Insight into the principles and mechanisms underlying cell polarity has been propelled by decades of extensive research mostly in yeast and animal models. Our understanding of cell polarity establishment in plants, which lack most of the regulatory molecules identified in other eukaryotes, is more limited, but significant progress has been made in recent years. In this review, we explore how plant cells coordinately establish stable polarity axes aligned with the organ axes, highlighting similarities in the molecular logic used to polarize both plant and animal cells. We propose a classification system for plant cell polarity events and nomenclature guidelines. Finally, we provide a deep phylogenetic analysis of polar proteins and discuss the evolution of polarity machineries in plants.
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Affiliation(s)
| | | | - Sumanth Mutte
- Laboratory of Biochemistry, Wageningen University, Stippeneng 4, 6703WE Wageningen, The Netherlands
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46
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Guo X, Liang J, Lin R, Zhang L, Wu J, Wang X. Series-Spatial Transcriptome Profiling of Leafy Head Reveals the Key Transition Leaves for Head Formation in Chinese Cabbage. FRONTIERS IN PLANT SCIENCE 2022; 12:787826. [PMID: 35069646 PMCID: PMC8770947 DOI: 10.3389/fpls.2021.787826] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/01/2021] [Accepted: 12/08/2021] [Indexed: 05/12/2023]
Abstract
Chinese cabbage is an important leaf heading vegetable crop. At the heading stage, its leaves across inner to outer show significant morphological differentiation. However, the genetic control of this complex leaf morphological differentiation remains unclear. Here, we reported the transcriptome profiling of Chinese cabbage plant at the heading stage using 24 spatially dissected tissues representing different regions of the inner to outer leaves. Genome-wide transcriptome analysis clearly separated the inner leaf tissues from the outer leaf tissues. In particular, we identified the key transition leaf by the spatial expression analysis of key genes for leaf development and sugar metabolism. We observed that the key transition leaves were the first inwardly curved ones. Surprisingly, most of the heading candidate genes identified by domestication selection analysis obviously showed a corresponding expression transition, supporting that key transition leaves are related to leafy head formation. The key transition leaves were controlled by a complex signal network, including not only internal hormones and protein kinases but also external light and other stimuli. Our findings provide new insights and the rich resource to unravel the genetic control of heading traits.
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47
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Hu C, Zhu Y, Cui Y, Zeng L, Li S, Meng F, Huang S, Wang W, Kui H, Yi J, Li J, Wan D, Gou X. A CLE-BAM-CIK signalling module controls root protophloem differentiation in Arabidopsis. THE NEW PHYTOLOGIST 2022; 233:282-296. [PMID: 34651321 DOI: 10.1111/nph.17791] [Citation(s) in RCA: 23] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/29/2021] [Accepted: 10/03/2021] [Indexed: 06/13/2023]
Abstract
Exogenous application of CLAVATA3 (CLV3)/EMBRYO SURROUNDING REGION (CLE) peptides suppresses protophloem differentiation and leads to the consumption of the proximal root meristem. However, the exact CLE peptides and the corresponding receptor complex regulating protophloem differentiation have not yet been clarified. Through expression pattern and phylogenetic analyses, CLE25/26/45 were identified as candidate peptides. Further genetic analyses, physiological assays and specific protophloem marker observations indicated that CLE25/26/45, BARELY ANY MERISTEM1/3 (BAM1/3) and CLV3 INSENSITIVE KINASEs (CIKs) are involved in regulating protophloem differentiation. The cle25 26 45 and cik2 3 4 5 6 mutation can greatly rescue the root defects of brevis radix (brx) and octopus (ops) mutants. The protophloem differentiation and proximal root meristem consumption of clv1 bam1 3 and cik2 3 4 5 6 were insensitive to CLE25/26/45 treatments. cle25 26 45, clv1 bam1 3 and cik2 3 4 5 6 displayed similar premature protophloem. In addition, CLE25/26/45 induced the interactions between BAMs and CIKs in vivo. Furthermore, CLE25/26/45 enhanced the phosphorylation levels of CIKs, which were greatly impaired in clv1 bam1 3 mutant. Our work clarifies that the CLE25/26/45-BAM1/3-CIK2/3/4/5/6 signalling module genetically acts downstream of BRX and OPS to suppress protophloem differentiation.
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Affiliation(s)
- Chong Hu
- Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou, 730000, China
| | - Yafen Zhu
- Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou, 730000, China
| | - Yanwei Cui
- Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou, 730000, China
| | - Li Zeng
- Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou, 730000, China
| | - Sunjingnan Li
- Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou, 730000, China
| | - Fanhui Meng
- Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou, 730000, China
| | - Shuting Huang
- Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou, 730000, China
| | - Wenping Wang
- Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou, 730000, China
| | - Hong Kui
- Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou, 730000, China
| | - Jing Yi
- Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou, 730000, China
| | - Jia Li
- Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou, 730000, China
| | - Dongshi Wan
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, 730000, China
| | - Xiaoping Gou
- Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou, 730000, China
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48
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Marhava P. Recent developments in the understanding of PIN polarity. THE NEW PHYTOLOGIST 2022; 233:624-630. [PMID: 34882802 DOI: 10.1111/nph.17867] [Citation(s) in RCA: 18] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/13/2021] [Accepted: 10/05/2021] [Indexed: 05/20/2023]
Abstract
Polar localization of PIN-FORMED proteins (PINs) at the plasma membrane is essential for plant development as they direct the transport of phytohormone auxin between cells. PIN polar localization to certain sides of a given cell is dynamic, strictly regulated and provides directionality to auxin flow. Signals that act upstream to control subcellular PIN localization modulate auxin distribution, thereby regulating diverse aspects of plant development. Here I summarize the current understanding of mechanisms by which PIN polarity is established, maintained and rearranged to provide a glimpse into the complexity of PIN polarity.
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Affiliation(s)
- Petra Marhava
- Department of Forest Genetics and Plant Physiology, Umeå Plant Science Centre (UPSC), University of Agricultural Sciences (SLU), 90183, Umeå, Sweden
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49
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Roszak P, Heo JO, Blob B, Toyokura K, Sugiyama Y, de Luis Balaguer MA, Lau WWY, Hamey F, Cirrone J, Madej E, Bouatta AM, Wang X, Guichard M, Ursache R, Tavares H, Verstaen K, Wendrich J, Melnyk CW, Oda Y, Shasha D, Ahnert SE, Saeys Y, De Rybel B, Heidstra R, Scheres B, Grossmann G, Mähönen AP, Denninger P, Göttgens B, Sozzani R, Birnbaum KD, Helariutta Y. Cell-by-cell dissection of phloem development links a maturation gradient to cell specialization. Science 2021; 374:eaba5531. [PMID: 34941412 PMCID: PMC8730638 DOI: 10.1126/science.aba5531] [Citation(s) in RCA: 52] [Impact Index Per Article: 17.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
In the plant meristem, tissue-wide maturation gradients are coordinated with specialized cell networks to establish various developmental phases required for indeterminate growth. Here, we used single-cell transcriptomics to reconstruct the protophloem developmental trajectory from the birth of cell progenitors to terminal differentiation in the Arabidopsis thaliana root. PHLOEM EARLY DNA-BINDING-WITH-ONE-FINGER (PEAR) transcription factors mediate lineage bifurcation by activating guanosine triphosphatase signaling and prime a transcriptional differentiation program. This program is initially repressed by a meristem-wide gradient of PLETHORA transcription factors. Only the dissipation of PLETHORA gradient permits activation of the differentiation program that involves mutual inhibition of early versus late meristem regulators. Thus, for phloem development, broad maturation gradients interface with cell-type-specific transcriptional regulators to stage cellular differentiation.
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Affiliation(s)
- Pawel Roszak
- The Sainsbury Laboratory, University of Cambridge, Cambridge, UK
| | - Jung-Ok Heo
- The Sainsbury Laboratory, University of Cambridge, Cambridge, UK
- Institute of Biotechnology, HiLIFE/Organismal and Evolutionary Biology Research Programme, Faculty of Biological and Environmental Sciences, Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland
| | - Bernhard Blob
- The Sainsbury Laboratory, University of Cambridge, Cambridge, UK
| | - Koichi Toyokura
- The Sainsbury Laboratory, University of Cambridge, Cambridge, UK
- Department of Biological Sciences, Graduate School of Science, Osaka University, Osaka, Japan
- Faculty of Science and Engineering, Konan University, Kobe, Japan
- GRA&GREEN Inc., Incubation Facility, Nagoya University, Furo-cho, Chikusa-ku, Nagoya, Japan
| | - Yuki Sugiyama
- The Sainsbury Laboratory, University of Cambridge, Cambridge, UK
- Department of Gene Function and Phenomics, National Institute of Genetics, Mishima, Japan
| | | | - Winnie W Y Lau
- Wellcome Trust and MRC Cambridge Stem Cell Institute and Department of Haematology, University of Cambridge, Cambridge, UK
| | - Fiona Hamey
- Wellcome Trust and MRC Cambridge Stem Cell Institute and Department of Haematology, University of Cambridge, Cambridge, UK
| | - Jacopo Cirrone
- Computer Science Department, Courant Institute for Mathematical Sciences, New York University, New York, NY, USA
| | - Ewelina Madej
- Faculty of Biochemistry, Biophysics and Biotechnology, Jagiellonian University, Kraków, Poland
| | - Alida M Bouatta
- Plant Systems Biology, Technical University of Munich, Freising, Germany
| | - Xin Wang
- Institute of Biotechnology, HiLIFE/Organismal and Evolutionary Biology Research Programme, Faculty of Biological and Environmental Sciences, Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland
| | - Marjorie Guichard
- Institute of Cell and Interaction Biology, CEPLAS, Heinrich-Heine-University Düsseldorf, Düsseldorf, Germany
- Centre for Organismal Studies, Heidelberg University, Heidelberg, Germany
| | - Robertas Ursache
- The Sainsbury Laboratory, University of Cambridge, Cambridge, UK
| | - Hugo Tavares
- The Sainsbury Laboratory, University of Cambridge, Cambridge, UK
- Bioinformatics Training Facility, Department of Genetics, University of Cambridge, Cambridge, UK
| | - Kevin Verstaen
- Data Mining and Modelling for Biomedicine, VIB Center for Inflammation Research, Ghent, Belgium
- Department of Applied Mathematics, Computer Science and Statistics, Ghent University, Ghent, Belgium
| | - Jos Wendrich
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Charles W Melnyk
- Department of Plant Biology, Swedish University of Agricultural Sciences, Uppsala, Sweden
| | - Yoshihisa Oda
- Department of Gene Function and Phenomics, National Institute of Genetics, Mishima, Japan
- Department of Genetics, the Graduate University for Advanced Studies, SOKENDAI, Mishima, Japan
| | - Dennis Shasha
- Computer Science Department, Courant Institute for Mathematical Sciences, New York University, New York, NY, USA
| | - Sebastian E Ahnert
- The Sainsbury Laboratory, University of Cambridge, Cambridge, UK
- Department of Chemical Engineering and Biotechnology, University of Cambridge, Cambridge, UK
- The Alan Turing Institute, British Library, London, UK
| | - Yvan Saeys
- Data Mining and Modelling for Biomedicine, VIB Center for Inflammation Research, Ghent, Belgium
- Department of Applied Mathematics, Computer Science and Statistics, Ghent University, Ghent, Belgium
| | - Bert De Rybel
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Renze Heidstra
- Department of Plant Sciences, Wageningen University and Research, Wageningen, Netherlands
| | - Ben Scheres
- Department of Plant Sciences, Wageningen University and Research, Wageningen, Netherlands
- Rijk Zwaan R&D, 4793 Fijnaart, Netherlands
| | - Guido Grossmann
- Institute of Cell and Interaction Biology, CEPLAS, Heinrich-Heine-University Düsseldorf, Düsseldorf, Germany
- Centre for Organismal Studies, Heidelberg University, Heidelberg, Germany
| | - Ari Pekka Mähönen
- Institute of Biotechnology, HiLIFE/Organismal and Evolutionary Biology Research Programme, Faculty of Biological and Environmental Sciences, Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland
| | - Philipp Denninger
- Plant Systems Biology, Technical University of Munich, Freising, Germany
| | - Berthold Göttgens
- Wellcome Trust and MRC Cambridge Stem Cell Institute and Department of Haematology, University of Cambridge, Cambridge, UK
| | - Rosangela Sozzani
- Plant and Microbial Biology Department, North Carolina State University, Raleigh, NC, USA
| | - Kenneth D Birnbaum
- Center for Genomics and Systems Biology, New York University, New York, NY, USA
| | - Yrjö Helariutta
- The Sainsbury Laboratory, University of Cambridge, Cambridge, UK
- Institute of Biotechnology, HiLIFE/Organismal and Evolutionary Biology Research Programme, Faculty of Biological and Environmental Sciences, Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland
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50
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Furutani M, Morita MT. LAZY1-LIKE-mediated gravity signaling pathway in root gravitropic set-point angle control. PLANT PHYSIOLOGY 2021; 187:1087-1095. [PMID: 34734273 PMCID: PMC8566294 DOI: 10.1093/plphys/kiab219] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/30/2020] [Accepted: 03/10/2021] [Indexed: 06/13/2023]
Abstract
Gravity signaling components contribute to the control of root gravitropic set-point angle through protein polarization relay within columella.
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Affiliation(s)
- Masahiko Furutani
- College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, China
- FAFU-UCR Joint Center and Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Haixia Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, China
| | - Miyo Terao Morita
- Division of Plant Environmental Responses, National Institute for Basic Biology, Myodaiji, Okazaki 444-8556, Japan
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