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      Rice OsPUB16 modulates the ‘SAPK9-OsMADS23- OsAOC’ pathway to reduce plant water-deficit tolerance by repressing ABA and JA biosynthesis

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          Abstract

          Ubiquitin-mediated proteolysis plays crucial roles in plant responses to environmental stress. However, the mechanism by which E3 ubiquitin ligases modulate plant stress response still needs to be elucidated. In this study, we found that rice PLANT U-BOX PROTEIN 16 (OsPUB16), a U-box E3 ubiquitin ligase, negatively regulates rice drought response. Loss-of-function mutants of OsPUB16 generated through CRISPR/Cas9 system exhibited the markedly enhanced water-deficit tolerance, while OsPUB16 overexpression lines were hypersensitive to water deficit stress. Moreover, OsPUB16 negatively regulated ABA and JA response, and ospub16 mutants produced more endogenous ABA and JA than wild type when exposed to water deficit. Mechanistic investigations revealed that OsPUB16 mediated the ubiquitination and degradation of OsMADS23, which is the substrate of OSMOTIC STRESS/ABA-ACTIVATED PROTEIN KINASE 9 (SAPK9) and increases rice drought tolerance by promoting ABA biosynthesis. Further, the ChIP-qPCR analysis and transient transactivation activity assays demonstrated that OsMADS23 activated the expression of JA-biosynthetic gene OsAOC by binding to its promoter. Interestingly, SAPK9-mediated phosphorylation on OsMADS23 reduced its ubiquitination level by interfering with the OsPUB16-OsMADS23 interaction, which thus enhanced OsMADS23 stability and promoted OsAOC expression. Collectively, our findings establish that OsPUB16 reduces plant water-deficit tolerance by modulating the ‘SAPK9-OsMADS23- OsAOC’ pathway to repress ABA and JA biosynthesis.

          Author summary

          Plants face various adverse environmental stimuli during their growth, such as drought, salinity and extreme temperatures. Different from animals, plants cannot move, so they must endure abiotic stresses, which greatly limit the distribution of plants, alter their growth and development, and reduce crop productivity. To adapt to the major adverse environmental conditions, plants have developed multifaceted strategies at different levels. Among these, protein post-translational modifications play crucial roles. However, how protein post-translational modifications in response to environmental stress hormones modulate plant stress response still needs to be elucidated. Here, our results showed that the two types of post-translational modifications, phosphorylation and ubiquitination, regulate the balance between plant growth and stress response. Furthermore, there is the close link between the two types of post-translational modifications, which was affected by environmental stress hormones. The research will help us understand the mechanisms underlying the “trade-off” between plant growth and stress response, and engineer stress-resistant and high-yielding crops.

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          Most cited references64

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          Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method.

          The two most commonly used methods to analyze data from real-time, quantitative PCR experiments are absolute quantification and relative quantification. Absolute quantification determines the input copy number, usually by relating the PCR signal to a standard curve. Relative quantification relates the PCR signal of the target transcript in a treatment group to that of another sample such as an untreated control. The 2(-Delta Delta C(T)) method is a convenient way to analyze the relative changes in gene expression from real-time quantitative PCR experiments. The purpose of this report is to present the derivation, assumptions, and applications of the 2(-Delta Delta C(T)) method. In addition, we present the derivation and applications of two variations of the 2(-Delta Delta C(T)) method that may be useful in the analysis of real-time, quantitative PCR data. Copyright 2001 Elsevier Science (USA).
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            Abscisic acid inhibits type 2C protein phosphatases via the PYR/PYL family of START proteins.

            Type 2C protein phosphatases (PP2Cs) are vitally involved in abscisic acid (ABA) signaling. Here, we show that a synthetic growth inhibitor called pyrabactin functions as a selective ABA agonist. Pyrabactin acts through PYRABACTIN RESISTANCE 1 (PYR1), the founding member of a family of START proteins called PYR/PYLs, which are necessary for both pyrabactin and ABA signaling in vivo. We show that ABA binds to PYR1, which in turn binds to and inhibits PP2Cs. We conclude that PYR/PYLs are ABA receptors functioning at the apex of a negative regulatory pathway that controls ABA signaling by inhibiting PP2Cs. Our results illustrate the power of the chemical genetic approach for sidestepping genetic redundancy.
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              JAZ repressor proteins are targets of the SCF(COI1) complex during jasmonate signalling.

              Jasmonate and related signalling compounds have a crucial role in both host immunity and development in plants, but the molecular details of the signalling mechanism are poorly understood. Here we identify members of the jasmonate ZIM-domain (JAZ) protein family as key regulators of jasmonate signalling. JAZ1 protein acts to repress transcription of jasmonate-responsive genes. Jasmonate treatment causes JAZ1 degradation and this degradation is dependent on activities of the SCF(COI1) ubiquitin ligase and the 26S proteasome. Furthermore, the jasmonoyl-isoleucine (JA-Ile) conjugate, but not other jasmonate-derivatives such as jasmonate, 12-oxo-phytodienoic acid, or methyl-jasmonate, promotes physical interaction between COI1 and JAZ1 proteins in the absence of other plant proteins. Our results suggest a model in which jasmonate ligands promote the binding of the SCF(COI1) ubiquitin ligase to and subsequent degradation of the JAZ1 repressor protein, and implicate the SCF(COI1)-JAZ1 protein complex as a site of perception of the plant hormone JA-Ile.
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                Author and article information

                Contributors
                Role: Data curationRole: InvestigationRole: MethodologyRole: SoftwareRole: Writing – original draft
                Role: Data curationRole: Formal analysisRole: InvestigationRole: Writing – original draft
                Role: InvestigationRole: MethodologyRole: Software
                Role: Data curationRole: MethodologyRole: Software
                Role: Data curationRole: Software
                Role: Software
                Role: ConceptualizationRole: InvestigationRole: MethodologyRole: Project administrationRole: ResourcesRole: SupervisionRole: Writing – review & editing
                Role: Editor
                Journal
                PLoS Genet
                PLoS Genet
                plos
                PLOS Genetics
                Public Library of Science (San Francisco, CA USA )
                1553-7390
                1553-7404
                28 November 2022
                November 2022
                : 18
                : 11
                : e1010520
                Affiliations
                [001] Key Laboratory of Biorheological Science and Technology, Ministry of Education, Bioengineering College, Chongqing University, Chongqing, China
                Peking University, CHINA
                Author notes

                The authors have declared that no competing interests exist.

                Author information
                https://orcid.org/0000-0002-4583-4637
                Article
                PGENETICS-D-22-00969
                10.1371/journal.pgen.1010520
                9731423
                36441771
                7536aca4-2202-4d6c-ba96-ab9d5467c3a4
                © 2022 Lv et al

                This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

                History
                : 21 August 2022
                : 11 November 2022
                Page count
                Figures: 10, Tables: 0, Pages: 28
                Funding
                Funded by: funder-id http://dx.doi.org/10.13039/501100001809, National Natural Science Foundation of China;
                Award ID: 32071985, 31771747
                Award Recipient :
                Funded by: funder-id http://dx.doi.org/10.13039/501100012669, Natural Science Foundation Project of Chongqing, Chongqing Science and Technology Commission;
                Award ID: cstc2020jcyj-msxmX0656
                Award Recipient :
                Funded by: funder-id http://dx.doi.org/10.13039/501100012226, Fundamental Research Funds for the Central Universities;
                Award ID: 2020CDJ-LHZZ-034
                Award Recipient :
                This work was supported by National Natural Science Foundation of China (32071985, 31771747), Natural Science Foundation of Chongqing, China (cstc2020jcyj-msxmX0656) and Fundamental Research Funds for the Central Universities, China (2020CDJ-LHZZ-034). JH received these fundings. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
                Categories
                Research Article
                Biology and Life Sciences
                Biochemistry
                Proteins
                Post-Translational Modification
                Ubiquitination
                Biology and Life Sciences
                Plant Science
                Plant Anatomy
                Leaves
                Biology and Life Sciences
                Biochemistry
                Proteins
                Post-Translational Modification
                Phosphorylation
                Biology and Life Sciences
                Organisms
                Eukaryota
                Plants
                Grasses
                Rice
                Research and Analysis Methods
                Animal Studies
                Experimental Organism Systems
                Plant and Algal Models
                Rice
                Research and Analysis Methods
                Precipitation Techniques
                Immunoprecipitation
                Biology and Life Sciences
                Plant Science
                Plant Anatomy
                Leaves
                Stomata
                Biology and Life Sciences
                Plant Science
                Plant Anatomy
                Stem Anatomy
                Stomata
                Biology and Life Sciences
                Cell Biology
                Signal Transduction
                Cell Signaling
                Signaling Cascades
                Stress Signaling Cascade
                Biology and Life Sciences
                Biochemistry
                Enzymology
                Enzymes
                Ligases
                Ubiquitin Ligases
                Biology and Life Sciences
                Biochemistry
                Proteins
                Enzymes
                Ligases
                Ubiquitin Ligases
                Custom metadata
                vor-update-to-uncorrected-proof
                2022-12-08
                All relevant data are within the manuscript and its Supporting Information files.

                Genetics
                Genetics

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