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      Class-A penicillin binding proteins do not contribute to cell shape but repair cell-wall defects

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          Abstract

          Cell shape and cell-envelope integrity of bacteria are determined by the peptidoglycan cell wall. In rod-shaped Escherichia coli, two conserved sets of machinery are essential for cell-wall insertion in the cylindrical part of the cell: the Rod complex and the class-A penicillin-binding proteins (aPBPs). While the Rod complex governs rod-like cell shape, aPBP function is less well understood. aPBPs were previously hypothesized to either work in concert with the Rod complex or to independently repair cell-wall defects. First, we demonstrate through modulation of enzyme levels that aPBPs do not contribute to rod-like cell shape but are required for mechanical stability, supporting their independent activity. By combining measurements of cell-wall stiffness, cell-wall insertion, and PBP1b motion at the single-molecule level, we then present evidence that PBP1b, the major aPBP, contributes to cell-wall integrity by repairing cell wall defects.

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          Most cited references34

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          Peptidoglycan structure and architecture.

          The peptidoglycan (murein) sacculus is a unique and essential structural element in the cell wall of most bacteria. Made of glycan strands cross-linked by short peptides, the sacculus forms a closed, bag-shaped structure surrounding the cytoplasmic membrane. There is a high diversity in the composition and sequence of the peptides in the peptidoglycan from different species. Furthermore, in several species examined, the fine structure of the peptidoglycan significantly varies with the growth conditions. Limited number of biophysical data on the thickness, elasticity and porosity of peptidoglycan are available. The different models for the architecture of peptidoglycan are discussed with respect to structural and physical parameters.
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            Computer control of microscopes using µManager.

            With the advent of digital cameras and motorization of mechanical components, computer control of microscopes has become increasingly important. Software for microscope image acquisition should not only be easy to use, but also enable and encourage novel approaches. The open-source software package µManager aims to fulfill those goals. This unit provides step-by-step protocols describing how to get started working with µManager, as well as some starting points for advanced use of the software. © 2010 by John Wiley & Sons, Inc.
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              Parallel reaction monitoring for high resolution and high mass accuracy quantitative, targeted proteomics.

              Selected reaction monitoring on a triple quadrupole mass spectrometer is currently experiencing a renaissance within the proteomics community for its, as yet, unparalleled ability to characterize and quantify a set of proteins reproducibly, completely, and with high sensitivity. Given the immense benefit that high resolution and accurate mass instruments have brought to the discovery proteomics field, we wondered if highly accurate mass measurement capabilities could be leveraged to provide benefits in the targeted proteomics domain as well. Here, we propose a new targeted proteomics paradigm centered on the use of next generation, quadrupole-equipped high resolution and accurate mass instruments: parallel reaction monitoring (PRM). In PRM, the third quadrupole of a triple quadrupole is substituted with a high resolution and accurate mass mass analyzer to permit the parallel detection of all target product ions in one, concerted high resolution mass analysis. We detail the analytical performance of the PRM method, using a quadrupole-equipped bench-top Orbitrap MS, and draw a performance comparison to selected reaction monitoring in terms of run-to-run reproducibility, dynamic range, and measurement accuracy. In addition to requiring minimal upfront method development and facilitating automated data analysis, PRM yielded quantitative data over a wider dynamic range than selected reaction monitoring in the presence of a yeast background matrix because of PRM's high selectivity in the mass-to-charge domain. With achievable linearity over the quantifiable dynamic range found to be statistically equal between the two methods, our investigation suggests that PRM will be a promising new addition to the quantitative proteomics toolbox.
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                Author and article information

                Contributors
                Role: Senior Editor
                Role: Reviewing Editor
                Journal
                eLife
                Elife
                eLife
                eLife
                eLife Sciences Publications, Ltd
                2050-084X
                06 January 2020
                2020
                : 9
                : e51998
                Affiliations
                [1 ]deptMicrobial Morphogenesis and Growth Laboratory Institut Pasteur ParisFrance
                [2 ]deptSynthetic Biology Laboratory Institut Pasteur ParisFrance
                [3 ]Université Paris Descartes, Sorbonne-Paris-Cité ParisFrance
                [4 ]deptLaboratory for Molecular Infection Medicine Sweden (MIMS), Umeå Centre for Microbial Research (UCMR), Department of Molecular Biology Umeå University UmeåSweden
                [5 ]Université Paris Diderot, Sorbonne-Paris-Cité ParisFrance
                [6 ]Proteomics Platform, Institut Pasteur ParisFrance
                Utrecht University Netherlands
                Johns Hopkins University United States
                Johns Hopkins University United States
                Johns Hopkins University United States
                Author notes
                [†]

                Department of Microbiology, Institut Pasteur, Paris, France.

                Author information
                https://orcid.org/0000-0002-8398-5073
                https://orcid.org/0000-0002-6042-9787
                https://orcid.org/0000-0002-0877-1294
                Article
                51998
                10.7554/eLife.51998
                7002073
                31904338
                fe0fd750-2979-461e-9ce8-e224a34da649
                © 2020, Vigouroux et al

                This article is distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use and redistribution provided that the original author and source are credited.

                History
                : 18 September 2019
                : 04 January 2020
                Funding
                Funded by: FundRef http://dx.doi.org/10.13039/100010663, H2020 European Research Council;
                Award ID: 679980
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/501100001665, Agence Nationale de la Recherche;
                Award ID: ANR-10-LABX-62-IBEID
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/501100001663, Volkswagen Foundation;
                Award Recipient :
                Funded by: Mairie de Paris;
                Award ID: Emergence(s)
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/100010663, H2020 European Research Council;
                Award ID: 677823
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/501100004063, Knut och Alice Wallenbergs Stiftelse;
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/501100004359, Swedish Research Council;
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/501100007067, Kempe Foundations;
                Award Recipient :
                Funded by: Laboratory for Molecular Infection Medicine Sweden;
                Award Recipient :
                The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication.
                Categories
                Research Article
                Cell Biology
                Microbiology and Infectious Disease
                Custom metadata
                Class-A penicillin-binding proteins are dispensable for rod-like cell-shape but essential for mechanical integrity by sensing and repairing cell-wall defects locally, as investigated in the model system Escherichia coli.

                Life sciences
                peptidoglycan cell wall,cell envelope,cell-wall repair,crispri,single-molecule tracking,penicillin-binding proteins,e. coli

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