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      Cip1 tunes cell cycle arrest duration upon calcineurin activation

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          To ensure their survival, cells arrest the cell division cycle when they are exposed to environmental stress. The duration of this arrest is dependent upon the time it takes a cell to adapt to a particular environment. How cells adjust the amount of time they remain arrested is not known. This study investigates the role of the phosphatase calcineurin in controlling cell cycle arrest duration in yeast. We show that calcineurin lengthens arrest by prolonging Hog1-dependent activation of the poorly characterized cyclin-dependent kinase inhibitor Cip1. Cip1 only impacts cell cycle arrest in response to stressors that robustly activate calcineurin, suggesting that Cip1 is a context-specific regulator that differentially adjusts the length of arrest depending on the particular stressor.

          Abstract

          Cells exposed to environmental stress arrest the cell cycle until they have adapted to their new environment. Cells adjust the length of the arrest for each unique stressor, but how they do this is not known. Here, we investigate the role of the stress-activated phosphatase calcineurin (CN) in controlling cell cycle arrest in Saccharomyces cerevisiae. We find that CN controls arrest duration through activation of the G1 cyclin–dependent kinase inhibitor Cip1. Our results demonstrate that multiple stressors trigger a G1/S arrest through Hog1-dependent down-regulation of G1 cyclin transcription. When a stressor also activates CN, this arrest is lengthened as CN prolongs Hog1-dependent phosphorylation of Cip1. Cip1 plays no role in response to stressors that activate Hog1 but not CN. These findings illustrate how stress response pathways cooperate to tailor the stress response and suggest that Cip1 functions to prolong cell cycle arrest when a cell requires additional time for adaptation.

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          Most cited references48

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          CDK inhibitors: positive and negative regulators of G1-phase progression.

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            Additional modules for versatile and economical PCR-based gene deletion and modification in Saccharomyces cerevisiae.

            An important recent advance in the functional analysis of Saccharomyces cerevisiae genes is the development of the one-step PCR-mediated technique for deletion and modification of chromosomal genes. This method allows very rapid gene manipulations without requiring plasmid clones of the gene of interest. We describe here a new set of plasmids that serve as templates for the PCR synthesis of fragments that allow a variety of gene modifications. Using as selectable marker the S. cerevisiae TRP1 gene or modules containing the heterologous Schizosaccharomyces pombe his5+ or Escherichia coli kan(r) gene, these plasmids allow gene deletion, gene overexpression (using the regulatable GAL1 promoter), C- or N-terminal protein tagging [with GFP(S65T), GST, or the 3HA or 13Myc epitope], and partial N- or C-terminal deletions (with or without concomitant protein tagging). Because of the modular nature of the plasmids, they allow efficient and economical use of a small number of PCR primers for a wide variety of gene manipulations. Thus, these plasmids should further facilitate the rapid analysis of gene function in S. cerevisiae.
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              Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.

              To explore the mechanisms and evolution of cell-cycle control, we analyzed the position and conservation of large numbers of phosphorylation sites for the cyclin-dependent kinase Cdk1 in the budding yeast Saccharomyces cerevisiae. We combined specific chemical inhibition of Cdk1 with quantitative mass spectrometry to identify the positions of 547 phosphorylation sites on 308 Cdk1 substrates in vivo. Comparisons of these substrates with orthologs throughout the ascomycete lineage revealed that the position of most phosphorylation sites is not conserved in evolution; instead, clusters of sites shift position in rapidly evolving disordered regions. We propose that the regulation of protein function by phosphorylation often depends on simple nonspecific mechanisms that disrupt or enhance protein-protein interactions. The gain or loss of phosphorylation sites in rapidly evolving regions could facilitate the evolution of kinase-signaling circuits.
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                Author and article information

                Journal
                Proc Natl Acad Sci U S A
                Proc Natl Acad Sci U S A
                pnas
                pnas
                Proceedings of the National Academy of Sciences of the United States of America
                National Academy of Sciences
                0027-8424
                1091-6490
                2 June 2022
                7 June 2022
                2 December 2022
                : 119
                : 23
                : e2202469119
                Affiliations
                [1] aDepartment of Molecular, Cell and Cancer Biology, University of Massachusetts Chan Medical School , Worcester, MA 01605
                Author notes
                1To whom correspondence may be addressed. Email: jennifer.benanti@ 123456umassmed.edu .

                Edited by Stephen Bell, HHMI, Massachusetts Institute of Technology, Cambridge, MA; received February 10, 2022; accepted May 3, 2022

                Author contributions: M.J.F. and J.A.B. designed research; M.J.F. performed research; M.J.F. analyzed data; and M.J.F. and J.A.B. wrote the paper.

                Author information
                https://orcid.org/0000-0001-7743-1157
                https://orcid.org/0000-0003-2484-5721
                Article
                202202469
                10.1073/pnas.2202469119
                9191682
                35653562
                8c96f33e-1e78-4f05-87b4-5be38513b736
                Copyright © 2022 the Author(s). Published by PNAS.

                This article is distributed under Creative Commons Attribution-NonCommercial-NoDerivatives License 4.0 (CC BY-NC-ND).

                History
                : 03 May 2022
                Page count
                Pages: 10
                Funding
                Funded by: HHS | NIH | Office of Extramural Research, National Institutes of Health (OER) 100006955
                Award ID: R35GM136280
                Award Recipient : Jennifer A Benanti
                Categories
                419
                Biological Sciences
                Genetics

                cell cycle,stress response,calcineurin,cip1
                cell cycle, stress response, calcineurin, cip1

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