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Datta S, Mandal D, Mitra S, Chakraborty S, Nag Chaudhuri R. ABI3 regulates ABI1 function to control cell length in primary root elongation zone. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2024; 120:2437-2455. [PMID: 39495594 DOI: 10.1111/tpj.17121] [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: 12/31/2023] [Accepted: 10/21/2024] [Indexed: 11/06/2024]
Abstract
Post-embryonic primary root growth is effectively an interplay of several hormone signalling pathways. Here, we show that the ABA-responsive transcription factor ABI3 controls primary root growth through the regulation of JA signalling molecule JAZ1 along with ABA-responsive factor ABI1. In the absence of ABI3, the primary root elongation zone is shortened with significantly reduced cell length. Expression analyses and ChIP-based assays indicate that ABI3 negatively regulates JAZ1 expression by occupying its upstream regulatory sequence and enriching repressive histone modification mark H3K27 trimethylation, thereby occluding RNAPII occupancy. Previous studies have shown that JAZ1 interacts with ABI1, the protein phosphatase 2C, that works during ABA signalling. Our results indicate that in the absence of ABI3, when JAZ1 expression levels are high, the ABI1 protein shows increased stability, compared to when JAZ1 is absent, or ABI3 is overexpressed. Consequently, in the abi3-6 mutant, due to the higher stability of ABI1, reduced phosphorylation of plasma membrane H+-ATPase (AHA2) occurs. HPTS staining further indicated that abi3-6 root cell apoplasts show reduced protonation, compared to wild-type and ABI3 overexpressing seedlings. Such impeded proton extrusion negatively affects cell length in the primary root elongation zone. ABI3 therefore controls cell elongation in the primary root by affecting the ABI1-dependent protonation of root cell apoplasts. In summary, ABI3 controls the expression of JAZ1 and in turn modulates the function of ABI1 to regulate cell length in the elongation zone during primary root growth.
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Affiliation(s)
- Saptarshi Datta
- Department of Biotechnology, St. Xavier's College, 30, Mother Teresa Sarani, Kolkata, 700016, India
| | - Drishti Mandal
- Department of Biotechnology, St. Xavier's College, 30, Mother Teresa Sarani, Kolkata, 700016, India
| | - Sicon Mitra
- Department of Biotechnology, St. Xavier's College, 30, Mother Teresa Sarani, Kolkata, 700016, India
| | - Swarnavo Chakraborty
- Department of Biotechnology, St. Xavier's College, 30, Mother Teresa Sarani, Kolkata, 700016, India
| | - Ronita Nag Chaudhuri
- Department of Biotechnology, St. Xavier's College, 30, Mother Teresa Sarani, Kolkata, 700016, India
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2
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Bosch M, Franklin-Tong V. Regulating programmed cell death in plant cells: Intracellular acidification plays a pivotal role together with calcium signaling. THE PLANT CELL 2024; 36:4692-4702. [PMID: 39197046 PMCID: PMC11530775 DOI: 10.1093/plcell/koae245] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/18/2024] [Revised: 07/03/2024] [Accepted: 08/22/2024] [Indexed: 08/30/2024]
Abstract
Programmed cell death (PCD) occurs in different tissues in response to a number of different signals in plant cells. Drawing from work in several different contexts, including root-cap cell differentiation, plant response to biotic and abiotic stress, and some self-incompatibility (SI) systems, the data suggest that, despite differences, there are underlying commonalities in the early decision-making stages of PCD. Here, we focus on how 2 cellular events, increased [Ca2+]cyt levels and cytosolic acidification, appear to act as early signals involved in regulating both developmental and stimulus-induced PCD in plant cells.
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Affiliation(s)
- Maurice Bosch
- Institute of Biological, Environmental and Rural Sciences (IBERS), Aberystwyth University, Plas Gogerddan, Aberystwyth SY23 3EE, UK
| | - Vernonica Franklin-Tong
- School of Biosciences, College of Life and Environmental Sciences, University of Birmingham, Edgbaston, Birmingham B15 2TT, UK
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3
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Cao D, Depaepe T, Sanchez-Muñoz R, Janssens H, Lemière F, Willems T, Winne J, Prinsen E, Van Der Straeten D. A UPLC-MS/MS method for quantification of metabolites in the ethylene biosynthesis pathway and its biological validation in Arabidopsis. THE NEW PHYTOLOGIST 2024; 243:1262-1275. [PMID: 38849316 DOI: 10.1111/nph.19878] [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: 04/11/2024] [Accepted: 05/14/2024] [Indexed: 06/09/2024]
Abstract
The plant hormone ethylene is of vital importance in the regulation of plant development and stress responses. Recent studies revealed that 1-aminocyclopropane-1-carboxylic acid (ACC) plays a role beyond its function as an ethylene precursor. However, the absence of reliable methods to quantify ACC and its conjugates malonyl-ACC (MACC), glutamyl-ACC (GACC), and jasmonyl-ACC (JA-ACC) hinders related research. Combining synthetic and analytical chemistry, we present the first, validated methodology to rapidly extract and quantify ACC and its conjugates using ultra-high-performance liquid chromatography coupled to tandem mass spectrometry (UPLC-MS/MS). Its relevance was confirmed by application to Arabidopsis mutants with altered ACC metabolism and wild-type plants under stress. Pharmacological and genetic suppression of ACC synthesis resulted in decreased ACC and MACC content, whereas induction led to elevated levels. Salt, wounding, and submergence stress enhanced ACC and MACC production. GACC and JA-ACC were undetectable in vivo; however, GACC was identified in vitro, underscoring the broad applicability of the method. This method provides an efficient tool to study individual functions of ACC and its conjugates, paving the road toward exploration of novel avenues in ACC and ethylene metabolism, and revisiting ethylene literature in view of the recent discovery of an ethylene-independent role of ACC.
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Affiliation(s)
- Da Cao
- Laboratory of Functional Plant Biology, Department of Biology, Faculty of Sciences, Ghent University, 9000, Ghent, Belgium
| | - Thomas Depaepe
- Laboratory of Functional Plant Biology, Department of Biology, Faculty of Sciences, Ghent University, 9000, Ghent, Belgium
| | - Raul Sanchez-Muñoz
- Laboratory of Functional Plant Biology, Department of Biology, Faculty of Sciences, Ghent University, 9000, Ghent, Belgium
| | - Hilde Janssens
- Department of Organic Chemistry, Polymer Chemistry Research Group and Laboratory for Organic Synthesis, Ghent University, 9000, Ghent, Belgium
| | - Filip Lemière
- Department of Chemistry, Biomolecular and Analytical Mass Spectrometry, University of Antwerp, 2020, Antwerp, Belgium
| | - Tim Willems
- Integrated Molecular Plant Physiology Research, Department of Biology, University of Antwerp, 2020, Antwerp, Belgium
| | - Johan Winne
- Department of Organic Chemistry, Polymer Chemistry Research Group and Laboratory for Organic Synthesis, Ghent University, 9000, Ghent, Belgium
| | - Els Prinsen
- Integrated Molecular Plant Physiology Research, Department of Biology, University of Antwerp, 2020, Antwerp, Belgium
| | - Dominique Van Der Straeten
- Laboratory of Functional Plant Biology, Department of Biology, Faculty of Sciences, Ghent University, 9000, Ghent, Belgium
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4
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Bosch G, Fuentes M, Erro J, Zamarreño ÁM, García-Mina JM. Hydrolysis of riboflavins in root exudates under iron deficiency and alkaline stress. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2024; 210:108573. [PMID: 38569423 DOI: 10.1016/j.plaphy.2024.108573] [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: 12/13/2023] [Revised: 03/06/2024] [Accepted: 03/26/2024] [Indexed: 04/05/2024]
Abstract
Riboflavins are secreted under iron deficiency as a part of the iron acquisition Strategy I, mainly when the external pH is acidic. In plants growing under Fe-deficiency and alkaline conditions, riboflavins have been reported to accumulate inside the roots, with very low or negligible secretion. However, the fact that riboflavins may undergo hydrolysis under alkaline conditions has been so far disregarded. In this paper, we report the presence of riboflavin derivatives and products of their alkaline hydrolysis (lumichrome, lumiflavin and carboxymethylflavin) in nutrient solutions of Cucumis sativus plants grown under different iron regimes (soluble Fe-EDDHA in the nutrient solution, total absence of iron in the nutrient solution, or two different doses of FeSO4 supplied as a foliar spray), either cultivated in slightly acidic (pH 6) or alkaline (pH 8.8, 10 mM bicarbonate) nutrient solutions. The results show that root synthesis and exudation of riboflavins is controlled by shoot iron status, and that exuded riboflavins undergo hydrolysis, especially at alkaline pH, with lumichrome being the main product of hydrolysis.
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Affiliation(s)
- Germán Bosch
- Universidad de Navarra, Instituto de Biodiversidad y Medioambiente BIOMA, Irunlarrea 1, 31008, Pamplona, Spain; Universidad de Navarra, Facultad de Ciencias, Departamento de Biología Ambiental, Grupo Química y Biología Agrícola, Irunlarrea 1, 31008, Pamplona, Spain.
| | - Marta Fuentes
- Universidad de Navarra, Instituto de Biodiversidad y Medioambiente BIOMA, Irunlarrea 1, 31008, Pamplona, Spain; Universidad de Navarra, Facultad de Ciencias, Departamento de Biología Ambiental, Grupo Química y Biología Agrícola, Irunlarrea 1, 31008, Pamplona, Spain.
| | - Javier Erro
- Universidad de Navarra, Instituto de Biodiversidad y Medioambiente BIOMA, Irunlarrea 1, 31008, Pamplona, Spain; Universidad de Navarra, Facultad de Ciencias, Departamento de Biología Ambiental, Grupo Química y Biología Agrícola, Irunlarrea 1, 31008, Pamplona, Spain.
| | - Ángel M Zamarreño
- Universidad de Navarra, Instituto de Biodiversidad y Medioambiente BIOMA, Irunlarrea 1, 31008, Pamplona, Spain; Universidad de Navarra, Facultad de Ciencias, Departamento de Biología Ambiental, Grupo Química y Biología Agrícola, Irunlarrea 1, 31008, Pamplona, Spain.
| | - José M García-Mina
- Universidad de Navarra, Instituto de Biodiversidad y Medioambiente BIOMA, Irunlarrea 1, 31008, Pamplona, Spain; Universidad de Navarra, Facultad de Ciencias, Departamento de Biología Ambiental, Grupo Química y Biología Agrícola, Irunlarrea 1, 31008, Pamplona, Spain.
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Feng Y, Ma X, Yang Y, Tao S, Ahmed A, Gong Z, Cheng X, Zhang W. The roles of DNA methylation on pH dependent i-motif (iM) formation in rice. Nucleic Acids Res 2024; 52:1243-1257. [PMID: 38180820 PMCID: PMC10853798 DOI: 10.1093/nar/gkad1245] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2023] [Revised: 12/14/2023] [Accepted: 12/19/2023] [Indexed: 01/07/2024] Open
Abstract
I-motifs (iMs) are four-stranded non-B DNA structures containing C-rich DNA sequences. The formation of iMs is sensitive to pH conditions and DNA methylation, although the extent of which is still unknown in both humans and plants. To investigate this, we here conducted iMab antibody-based immunoprecipitation and sequencing (iM-IP-seq) along with bisulfite sequencing using CK (original genomic DNA without methylation-related treatments) and hypermethylated or demethylated DNA at both pH 5.5 and 7.0 in rice, establishing a link between pH, DNA methylation and iM formation on a genome-wide scale. We found that iMs folded at pH 7.0 displayed higher methylation levels than those formed at pH 5.5. DNA demethylation and hypermethylation differently influenced iM formation at pH 7.0 and 5.5. Importantly, CG hypo-DMRs (differentially methylated regions) and CHH (H = A, C and T) hyper-DMRs alone or coordinated with CG/CHG hyper-DMRs may play determinant roles in the regulation of pH dependent iM formation. Thus, our study shows that the nature of DNA sequences alone or combined with their methylation status plays critical roles in determining pH-dependent formation of iMs. It therefore deepens the understanding of the pH and methylation dependent modulation of iM formation, which has important biological implications and practical applications.
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Affiliation(s)
- Yilong Feng
- State Key Laboratory of Crop Genetics and Germplasm Enhancement and Utilization, CIC-MCP, Nanjing Agricultural University, No.1 Weigang, Nanjing, Jiangsu 210095, China
| | - Xing Ma
- State Key Laboratory of Crop Genetics and Germplasm Enhancement and Utilization, CIC-MCP, Nanjing Agricultural University, No.1 Weigang, Nanjing, Jiangsu 210095, China
| | - Ying Yang
- State Key Laboratory of Crop Genetics and Germplasm Enhancement and Utilization, CIC-MCP, Nanjing Agricultural University, No.1 Weigang, Nanjing, Jiangsu 210095, China
| | - Shentong Tao
- State Key Laboratory of Crop Genetics and Germplasm Enhancement and Utilization, CIC-MCP, Nanjing Agricultural University, No.1 Weigang, Nanjing, Jiangsu 210095, China
| | - Asgar Ahmed
- State Key Laboratory of Crop Genetics and Germplasm Enhancement and Utilization, CIC-MCP, Nanjing Agricultural University, No.1 Weigang, Nanjing, Jiangsu 210095, China
- Bangladesh Wheat and Maize Research Institute (BWMRI), Nashipur, Dinajpur 5200, Bangladesh
| | - Zhiyun Gong
- Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding, Agricultural College of Yangzhou University, Yangzhou 225009, China
| | - Xuejiao Cheng
- State Key Laboratory of Crop Genetics and Germplasm Enhancement and Utilization, CIC-MCP, Nanjing Agricultural University, No.1 Weigang, Nanjing, Jiangsu 210095, China
| | - Wenli Zhang
- State Key Laboratory of Crop Genetics and Germplasm Enhancement and Utilization, CIC-MCP, Nanjing Agricultural University, No.1 Weigang, Nanjing, Jiangsu 210095, China
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Kim SJ, Zemelis-Durfee S, Mckinley B, Sokoloski R, Aufdemberge W, Mullet J, Brandizzi F. Cell- and development-specific degradation controls the levels of mixed-linkage glucan in sorghum leaves. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2023; 116:360-374. [PMID: 37395650 DOI: 10.1111/tpj.16376] [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: 04/21/2023] [Revised: 06/20/2023] [Accepted: 06/27/2023] [Indexed: 07/04/2023]
Abstract
Mixed-linkage glucan (MLG) is a component of the cell wall (CW) of grasses and is composed of glucose monomers linked by β-1,3 and β-1,4 bonds. MLG is believed to have several biological functions, such as the mobilizable storage of carbohydrates and structural support of the CW. The extracellular levels of MLG are largely controlled by rates of synthesis mediated by cellulose synthase-like (CSL) enzymes, and turnover by lichenases. Economically important crops like sorghum accumulate MLG to variable levels during development. While in sorghum, like other grasses, there is one major MLG synthase (CSLF6), the identity of lichenases is yet unknown. To fill this gap, we identified three sorghum lichenases (SbLCH1-3) and characterized them in leaves in relation to the expression of SbCSLF6, and the abundance of MLG and starch. We established that SbLCH1-3 are secreted to the apoplast, consistent with a role of degrading MLG extracellularly. Furthermore, while SbCSLF6 expression was associated with cell development, the SbLCH genes exhibited distinct development-, cell-type-specific and diel-regulated expression. Therefore, our study identifies three functional sorghum MLG lichenases and highlights that MLG accumulation in sorghum leaves is likely controlled by the activity of lichenases that tune MLG levels, possibly to suit distinct cell and developmental needs in planta. These findings have important implications for improving the growth, yield, and composition of sorghum as a feedstock.
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Affiliation(s)
- Sang-Jin Kim
- Great Lakes Bioenergy Research Center, Michigan State University, East Lansing, Michigan, 48824, USA
- MSU-DOE Plant Research Laboratory, Michigan State University, East Lansing, Michigan, 48824, USA
- Department of Plant Biology, Michigan State University, East Lansing, Michigan, 48824, USA
| | - Starla Zemelis-Durfee
- Great Lakes Bioenergy Research Center, Michigan State University, East Lansing, Michigan, 48824, USA
- MSU-DOE Plant Research Laboratory, Michigan State University, East Lansing, Michigan, 48824, USA
| | - Brian Mckinley
- Great Lakes Bioenergy Research Center, Michigan State University, East Lansing, Michigan, 48824, USA
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, Texas, 77845, USA
| | - Rylee Sokoloski
- Great Lakes Bioenergy Research Center, Michigan State University, East Lansing, Michigan, 48824, USA
- MSU-DOE Plant Research Laboratory, Michigan State University, East Lansing, Michigan, 48824, USA
| | - William Aufdemberge
- Great Lakes Bioenergy Research Center, Michigan State University, East Lansing, Michigan, 48824, USA
- MSU-DOE Plant Research Laboratory, Michigan State University, East Lansing, Michigan, 48824, USA
| | - John Mullet
- Great Lakes Bioenergy Research Center, Michigan State University, East Lansing, Michigan, 48824, USA
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, Texas, 77845, USA
| | - Federica Brandizzi
- Great Lakes Bioenergy Research Center, Michigan State University, East Lansing, Michigan, 48824, USA
- MSU-DOE Plant Research Laboratory, Michigan State University, East Lansing, Michigan, 48824, USA
- Department of Plant Biology, Michigan State University, East Lansing, Michigan, 48824, USA
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Oelmüller R, Tseng YH, Gandhi A. Signals and Their Perception for Remodelling, Adjustment and Repair of the Plant Cell Wall. Int J Mol Sci 2023; 24:ijms24087417. [PMID: 37108585 PMCID: PMC10139151 DOI: 10.3390/ijms24087417] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2023] [Revised: 04/04/2023] [Accepted: 04/08/2023] [Indexed: 04/29/2023] Open
Abstract
The integrity of the cell wall is important for plant cells. Mechanical or chemical distortions, tension, pH changes in the apoplast, disturbance of the ion homeostasis, leakage of cell compounds into the apoplastic space or breakdown of cell wall polysaccharides activate cellular responses which often occur via plasma membrane-localized receptors. Breakdown products of the cell wall polysaccharides function as damage-associated molecular patterns and derive from cellulose (cello-oligomers), hemicelluloses (mainly xyloglucans and mixed-linkage glucans as well as glucuronoarabinoglucans in Poaceae) and pectins (oligogalacturonides). In addition, several types of channels participate in mechanosensing and convert physical into chemical signals. To establish a proper response, the cell has to integrate information about apoplastic alterations and disturbance of its wall with cell-internal programs which require modifications in the wall architecture due to growth, differentiation or cell division. We summarize recent progress in pattern recognition receptors for plant-derived oligosaccharides, with a focus on malectin domain-containing receptor kinases and their crosstalk with other perception systems and intracellular signaling events.
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Affiliation(s)
- Ralf Oelmüller
- Matthias Schleiden Institute of Genetics, Bioinformatics and Molecular Botany, Department of Plant Physiology, Friedrich-Schiller-University, 07743 Jena, Germany
| | - Yu-Heng Tseng
- Matthias Schleiden Institute of Genetics, Bioinformatics and Molecular Botany, Department of Plant Physiology, Friedrich-Schiller-University, 07743 Jena, Germany
| | - Akanksha Gandhi
- Matthias Schleiden Institute of Genetics, Bioinformatics and Molecular Botany, Department of Plant Physiology, Friedrich-Schiller-University, 07743 Jena, Germany
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He L, Ma H, Song W, Zhou Z, Ma C, Zhang H. Arabidopsis COPT1 copper transporter uses a single histidine to regulate transport activity and protein stability. Int J Biol Macromol 2023; 241:124404. [PMID: 37054854 DOI: 10.1016/j.ijbiomac.2023.124404] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2023] [Revised: 04/03/2023] [Accepted: 04/06/2023] [Indexed: 04/15/2023]
Abstract
Copper acquisition and subsequent delivery to target proteins are essential for many biological processes. However, the cellular levels of this trace element must be controlled because of its potential toxicity. The COPT1 protein rich in potential metal-binding amino acids functions in high affinity copper uptake at the plasma membrane of Arabidopsis cells. The functional role of these putative metal-binding residues is largely unknown. Through truncations and site-directed mutagenesis, we identified His43, a single residue within the extracellular N-terminal domain as absolutely critical for copper uptake of COPT1. Substitution of this residue with leucine, methionine or cysteine almost inactivated transport function of COPT1, implying that His43 fails to serves as a copper ligand in the regulation of COPT1 activity. Deletion of all extracellular N-terminal metal-binding residues completely blocked copper-stimulated degradation but did not alter the subcellular distribution and multimerization of COPT1. Although mutation of His43 to alanine and serine retained the transporter activity in yeast cells, the mutant protein was unstable and degraded in the proteasome in Arabidopsis cells. Our results demonstrate a pivotal role for the extracellular residue His43 in high affinity copper transport activity, and suggest common molecular mechanisms for regulating both metal transport and protein stability of COPT1.
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Affiliation(s)
- Lifei He
- Tianjin Key Laboratory of Animal and Plant Resistance, College of Life Sciences, Tianjin Normal University, Tianjin 300387, China
| | - Hanhan Ma
- Tianjin Key Laboratory of Animal and Plant Resistance, College of Life Sciences, Tianjin Normal University, Tianjin 300387, China
| | - Wenhua Song
- Tianjin Key Laboratory of Animal and Plant Resistance, College of Life Sciences, Tianjin Normal University, Tianjin 300387, China
| | - Zhongle Zhou
- Tianjin Key Laboratory of Animal and Plant Resistance, College of Life Sciences, Tianjin Normal University, Tianjin 300387, China
| | - Chunjie Ma
- Tianjin Key Laboratory of Animal and Plant Resistance, College of Life Sciences, Tianjin Normal University, Tianjin 300387, China
| | - Haiyan Zhang
- Tianjin Key Laboratory of Animal and Plant Resistance, College of Life Sciences, Tianjin Normal University, Tianjin 300387, China.
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9
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Schmidt W. pH sensing: Why plants can’t have it all. Curr Biol 2022; 32:R1039-R1041. [DOI: 10.1016/j.cub.2022.08.079] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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