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Mouhand A, Nakatani K, Kono F, Hippo Y, Matsuo T, Barthe P, Peters J, Suenaga Y, Tamada T, Roumestand C. 1H, 13C and 15N backbone and side-chain resonance assignments of the human oncogenic protein NCYM. Biomol NMR Assign 2024; 18:65-70. [PMID: 38526839 DOI: 10.1007/s12104-024-10169-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/07/2024] [Accepted: 03/13/2024] [Indexed: 03/27/2024]
Abstract
NCYM is a cis-antisense gene of MYCN oncogene and encodes an oncogenic protein that stabilizes MYCN via inhibition of GSK3b. High NCYM expression levels are associated with poor clinical outcomes in human neuroblastomas, and NCYM overexpression promotes distant metastasis in animal models of neuroblastoma. Using vacuum-ultraviolet circular dichroism and small-angle X-ray scattering, we previously showed that NCYM has high flexibility with partially folded structures; however, further structural characterization is required for the design of anti-cancer agents targeting NCYM. Here we report the 1H, 15N and 13C nuclear magnetic resonance assignments of NCYM. Secondary structure prediction using Secondary Chemical Shifts and TALOS-N analysis demonstrates that the structure of NCYM is essentially disordered, even though residues in the central region of the peptide clearly present a propensity to adopt a dynamic helical structure. This preliminary study provides foundations for further analysis of interaction between NCYM and potential partners.
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Affiliation(s)
- Assia Mouhand
- Centre de Biologie Structurale (CBS), CNRS, INSERM, Univ Montpellier, Montpellier, France
| | - Kazuma Nakatani
- Laboratory of Evolutionary Oncology, Chiba Cancer Center Research Institute, Chiba, Japan
- Graduate School of Medical and Pharmaceutical Sciences, Chiba University, Chiba, Japan
| | - Fumiaki Kono
- Institute for Quantum Life Science, National Institutes for Quantum Science and Technology, Chiba, Japan
| | - Yoshitaka Hippo
- Laboratory of Evolutionary Oncology, Chiba Cancer Center Research Institute, Chiba, Japan
- Laboratory of Precision Tumor Model Systems, Chiba Cancer Center Research Institute, Chiba, Japan
| | - Tatsuhito Matsuo
- Institute for Quantum Life Science, National Institutes for Quantum Science and Technology, Chiba, Japan
| | - Philippe Barthe
- Centre de Biologie Structurale (CBS), CNRS, INSERM, Univ Montpellier, Montpellier, France
| | - Judith Peters
- Institut Laue Langevin, 38042, Grenoble, France
- Université Grenoble Alpes, CNRS, LiPhy, 38400, Grenoble, France
| | - Yusuke Suenaga
- Laboratory of Evolutionary Oncology, Chiba Cancer Center Research Institute, Chiba, Japan.
| | - Taro Tamada
- Institute for Quantum Life Science, National Institutes for Quantum Science and Technology, Chiba, Japan.
- Department of Quantum Life Science, Graduate School of Science, Chiba University, Chiba, Japan.
| | - Christian Roumestand
- Centre de Biologie Structurale (CBS), CNRS, INSERM, Univ Montpellier, Montpellier, France.
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Caviglia B, Di Bari D, Timr S, Guiral M, Giudici-Orticoni MT, Petrillo C, Peters J, Sterpone F, Paciaroni A. Decoding the Role of the Global Proteome Dynamics for Cellular Thermal Stability. J Phys Chem Lett 2024; 15:1435-1441. [PMID: 38291814 DOI: 10.1021/acs.jpclett.3c03351] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2024]
Abstract
Molecular mechanisms underlying the thermal response of cells remain elusive. On the basis of the recent result that the short-time diffusive dynamics of the Escherichia coli proteome is an excellent indicator of temperature-dependent bacterial metabolism and death, we used neutron scattering (NS) spectroscopy and molecular dynamics (MD) simulations to investigate the sub-nanosecond proteome mobility in psychro-, meso-, and hyperthermophilic bacteria over a wide temperature range. The magnitude of thermal fluctuations, measured by atomic mean square displacements, is similar among all studied bacteria at their respective thermal cell death. Global roto-translational motions turn out to be the main factor distinguishing the bacterial dynamical properties. We ascribe this behavior to the difference in the average proteome net charge, which becomes less negative for increasing bacterial thermal stability. We propose that the chemical-physical properties of the cytoplasm and the global dynamics of the resulting proteome are fine-tuned by evolution to uphold optimal thermal stability conditions.
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Affiliation(s)
- Beatrice Caviglia
- Department of Physics and Geology, University of Perugia, Via Alessandro Pascoli, 06123 Perugia, Italy
- Laboratoire de Biochimie Théorique (UPR 9080), Centre National de la Recherche Scientifique (CNRS), Université de Paris Cité, 75005 Paris, France
- Institut de Biologie Physico-Chimique, Fondation Edmond de Rothschild, 13 Rue Pierre et Marie Curie, 75005 Paris, France
| | - Daniele Di Bari
- Department of Physics and Geology, University of Perugia, Via Alessandro Pascoli, 06123 Perugia, Italy
| | - Stepan Timr
- Laboratoire de Biochimie Théorique (UPR 9080), Centre National de la Recherche Scientifique (CNRS), Université de Paris Cité, 75005 Paris, France
- Institut de Biologie Physico-Chimique, Fondation Edmond de Rothschild, 13 Rue Pierre et Marie Curie, 75005 Paris, France
- J. Heyrovský Institute of Physical Chemistry, Czech Academy of Sciences, 182 23 Prague, Czech Republic
| | - Marianne Guiral
- Laboratoire de Bioénergétique et Ingénierie des Protéines (BIP), Centre National de la Recherche Scientifique (CNRS), Aix-Marseille Université, 13400 Marseille, France
| | - Marie-Thérèse Giudici-Orticoni
- Laboratoire de Bioénergétique et Ingénierie des Protéines (BIP), Centre National de la Recherche Scientifique (CNRS), Aix-Marseille Université, 13400 Marseille, France
| | - Caterina Petrillo
- Department of Physics and Geology, University of Perugia, Via Alessandro Pascoli, 06123 Perugia, Italy
| | - Judith Peters
- Laboratoire Interdisciplinaire de Physique, Centre National de la Recherche Scientifique (CNRS), Univ. Grenoble Alpes, 140 Rue de la Physique, 38402 Saint-Martin-d'Hères, France
- Institut Laue-Langevin, 71 Avenue des Martyrs, CS 20156, 38042 Grenoble, France
- Institut Universitaire de France, 75231 Paris, France
| | - Fabio Sterpone
- Laboratoire de Biochimie Théorique (UPR 9080), Centre National de la Recherche Scientifique (CNRS), Université de Paris Cité, 75005 Paris, France
- Institut de Biologie Physico-Chimique, Fondation Edmond de Rothschild, 13 Rue Pierre et Marie Curie, 75005 Paris, France
| | - Alessandro Paciaroni
- Department of Physics and Geology, University of Perugia, Via Alessandro Pascoli, 06123 Perugia, Italy
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Peters J, Oliva R, Caliò A, Oger P, Winter R. Effects of Crowding and Cosolutes on Biomolecular Function at Extreme Environmental Conditions. Chem Rev 2023; 123:13441-13488. [PMID: 37943516 DOI: 10.1021/acs.chemrev.3c00432] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2023]
Abstract
The extent of the effect of cellular crowding and cosolutes on the functioning of proteins and cells is manifold and includes the stabilization of the biomolecular systems, the excluded volume effect, and the modulation of molecular dynamics. Simultaneously, it is becoming increasingly clear how important it is to take the environment into account if we are to shed light on biological function under various external conditions. Many biosystems thrive under extreme conditions, including the deep sea and subseafloor crust, and can take advantage of some of the effects of crowding. These relationships have been studied in recent years using various biophysical techniques, including neutron and X-ray scattering, calorimetry, FTIR, UV-vis and fluorescence spectroscopies. Combining knowledge of the structure and conformational dynamics of biomolecules under extreme conditions, such as temperature, high hydrostatic pressure, and high salinity, we highlight the importance of considering all results in the context of the environment. Here we discuss crowding and cosolute effects on proteins, nucleic acids, membranes, and live cells and explain how it is possible to experimentally separate crowding-induced effects from other influences. Such findings will contribute to a better understanding of the homeoviscous adaptation of organisms and the limits of life in general.
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Affiliation(s)
- Judith Peters
- Univ. Grenoble Alpes, CNRS, LiPhy, 140 rue de la physique, 38400 St Martin d'Hères, France
- Institut Laue Langevin, 71 avenue des Martyrs, 38000 Grenoble, France
- Institut Universitaire de France, 75005 Paris, France
| | - Rosario Oliva
- Department of Chemical Sciences, University of Naples Federico II, Via Cintia 4, 80126 Naples, Italy
| | - Antonino Caliò
- European Synchrotron Radiation Facility, 71 avenue des Martyrs, 38000 Grenoble, France
| | - Philippe Oger
- INSA Lyon, Universite Claude Bernard Lyon1, CNRS, UMR5240, 69621 Villeurbanne, France
| | - Roland Winter
- Department of Chemistry and Chemical Biology, Biophysical Chemistry, TU Dortmund University, Dortmund, Otto-Hahn-Str. 4a, D-44227 Dortmund, Germany
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Cisse A, Desfosses A, Stainer S, Kandiah E, Traore DAK, Bezault A, Schachner-Nedherer AL, Leitinger G, Hoerl G, Hinterdorfer P, Gutsche I, Prassl R, Peters J, Kornmueller K. Targeting structural flexibility in low density lipoprotein by integrating cryo-electron microscopy and high-speed atomic force microscopy. Int J Biol Macromol 2023; 252:126345. [PMID: 37619685 DOI: 10.1016/j.ijbiomac.2023.126345] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2023] [Revised: 08/08/2023] [Accepted: 08/13/2023] [Indexed: 08/26/2023]
Abstract
Low-density lipoprotein (LDL) plays a crucial role in cholesterol metabolism. Responsible for cholesterol transport from the liver to the organs, LDL accumulation in the arteries is a primary cause of cardiovascular diseases, such as atherosclerosis. This work focuses on the fundamental question of the LDL molecular structure, as well as the topology and molecular motions of apolipoprotein B-100 (apo B-100), which is addressed by single-particle cryo-electron microscopy (cryo-EM) and high-speed atomic force microscopy (HS-AFM). Our results suggest a revised model of the LDL core organization with respect to the cholesterol ester (CE) arrangement. In addition, a high-density region close to the flattened poles could be identified, likely enriched in free cholesterol. The most remarkable new details are two protrusions on the LDL surface, attributed to the protein apo B-100. HS-AFM adds the dimension of time and reveals for the first time a highly dynamic direct description of LDL, where we could follow large domain fluctuations of the protrusions in real time. To tackle the inherent flexibility and heterogeneity of LDL, the cryo-EM maps are further assessed by 3D variability analysis. Our study gives a detailed explanation how to approach the intrinsic flexibility of a complex system comprising lipids and protein.
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Affiliation(s)
- Aline Cisse
- Université Grenoble Alpes, CNRS, LiPhy, Grenoble, France; Institut Laue-Langevin, Grenoble, France
| | - Ambroise Desfosses
- Institut de Biologie Structurale, Université Grenoble Alpes, CEA, CNRS, IBS, Grenoble, France
| | - Sarah Stainer
- Department of Experimental Applied Biophysics, Johannes Kepler University Linz, Linz, Austria
| | | | - Daouda A K Traore
- Institut Laue-Langevin, Grenoble, France; Faculté de Pharmacie, Université des Sciences, des Techniques et des Technologies de Bamako (USTTB), Bamako, Mali; Faculty of Natural Sciences, School of Life Sciences, Keele University, Staffordshire, UK
| | - Armel Bezault
- Institut Européen de Chimie et Biologie, UAR3033/US001, Université de Bordeaux, CNRS, INSERM 2, Pessac, France; Structural Image Analysis Unit, Department of Structural Biology and Chemistry, Institut Pasteur, Université Paris Cité, CNRS UMR3528, Paris, France
| | - Anna-Laurence Schachner-Nedherer
- Gottfried Schatz Research Center for Cell Signaling, Metabolism and Aging, Medical Physics and Biophysics Division, Medical University of Graz, Graz, Austria
| | - Gerd Leitinger
- Gottfried Schatz Research Center for Cell Signaling, Metabolism and Aging, Division of Cell Biology, Histology and Embryology, Medical University of Graz, Graz, Austria
| | - Gerd Hoerl
- Otto Loewi Research Center, Physiological Chemistry, Medical University of Graz, Graz, Austria
| | - Peter Hinterdorfer
- Department of Experimental Applied Biophysics, Johannes Kepler University Linz, Linz, Austria
| | - Irina Gutsche
- Institut de Biologie Structurale, Université Grenoble Alpes, CEA, CNRS, IBS, Grenoble, France
| | - Ruth Prassl
- Gottfried Schatz Research Center for Cell Signaling, Metabolism and Aging, Medical Physics and Biophysics Division, Medical University of Graz, Graz, Austria
| | - Judith Peters
- Université Grenoble Alpes, CNRS, LiPhy, Grenoble, France; Institut Laue-Langevin, Grenoble, France; Institut Universitaire de France, France.
| | - Karin Kornmueller
- Institut Laue-Langevin, Grenoble, France; Gottfried Schatz Research Center for Cell Signaling, Metabolism and Aging, Medical Physics and Biophysics Division, Medical University of Graz, Graz, Austria.
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5
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Peters J, Timme-Bronsert S, Voll RE, Finzel S. [Salivary gland ultrasound or biopsy? : Comparison of methods based on case examples]. Z Rheumatol 2023; 82:654-665. [PMID: 37782326 PMCID: PMC10570188 DOI: 10.1007/s00393-023-01416-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 08/02/2023] [Indexed: 10/03/2023]
Abstract
BACKGROUND Ultrasound examination of the salivary glands (SG) is a quick and noninvasive method to detect and semiquantitatively estimate typical changes in the large SG in Sjögren's syndrome (SS). The differential diagnosis of SS is difficult because several diseases and adverse effects of treatment have a similar clinical picture as SS with sicca syndrome and can even induce alterations in the SG (mimic diseases). Hence, for a long time an SG biopsy was regarded as the diagnostic procedure of choice, especially in SS‑A negative patients, whereas the significance of SD sonography is still controversially discussed. OBJECTIVE Comparison of typical and atypical changes for SS in the salivary glands in ultrasound and associated histological sections. MATERIAL AND METHODS This article describes six patient cases with antibody positive or negative SS with and without typical SS ultrasound patterns, SS-associated lymphoma, sarcoidosis and IgG4-associated disease. The findings of the sonographic examination of the parotid glands and the associated histology of the SD are explained and put into context. RESULTS The SSA antibody positive patients with SS show a typical sonographic pattern with hypoechoic foci, especially if the disease has been present for a long time. This pattern can help support the diagnosis of SS. The ultrasound patterns of the mimic diseases sometimes differ significantly from the typical patterns of pSS. The histological examination of the SG helps to corroborate the diagnosis but low histological focus scores, in particular, require a critical synopsis of the clinical, serological and imaging findings. CONCLUSION Both salivary gland ultrasound and the histological examination of SG biopsies are justified in the diagnostics and differential diagnosis of SS and sicca syndrome.
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Affiliation(s)
- J Peters
- Institut für Klinische Pathologie, Universitätsklinikum Freiburg und Medizinische Fakultät, Universität Freiburg, Hugstetter Str. 55, 79106, Freiburg, Deutschland
| | - S Timme-Bronsert
- Institut für Klinische Pathologie, Universitätsklinikum Freiburg und Medizinische Fakultät, Universität Freiburg, Hugstetter Str. 55, 79106, Freiburg, Deutschland
| | - R E Voll
- Klinik für Rheumatologie und Klinische Immunologie, Universitätsklinikum Freiburg und Medizinische Fakultät, Freiburg, Deutschland
| | - S Finzel
- Klinik für Rheumatologie und Klinische Immunologie, Universitätsklinikum Freiburg und Medizinische Fakultät, Freiburg, Deutschland.
- Klinik für Rheumatologie und klinische Immunologie, Universitätsklinikum Freiburg, Hugstetter Str. 55, 79106, Freiburg, Deutschland.
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LoRicco JG, Hoffmann I, Caliò A, Peters J. The membrane regulator squalane increases membrane rigidity under high hydrostatic pressure in archaeal membrane mimics. Soft Matter 2023; 19:6280-6286. [PMID: 37553974 DOI: 10.1039/d3sm00352c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 08/10/2023]
Abstract
Apolar lipids within the membranes of archaea are thought to play a role in membrane regulation. In this work we explore the effect of the apolar lipid squalane on the dynamics of a model archaeal-like membrane, under pressure, using neutron spin echo spectroscopy. To the best of our knowledge, this is the first report on membrane dynamics at high pressure using NSE spectroscopy. Increasing pressure leads to an increase in membrane rigidity, in agreement with other techniques. The presence of squalane in the membrane results in a stiffer membrane supporting its role as a membrane regulator.
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Affiliation(s)
| | | | - Antonino Caliò
- Université de Lyon, INSA Lyon, CNRS, MAP UMR 5240, Villeurbanne, France
| | - Judith Peters
- Institut Laue-Langevin, Grenoble, France.
- Univ. Grenoble Alpes, CNRS, LiPhy, Grenoble, France
- Institut Universitaire de France, 75231 Paris, France
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Pizzuti A, Huber L(R, Gulban OF, Benitez-Andonegui A, Peters J, Goebel R. Imaging the columnar functional organization of human area MT+ to axis-of-motion stimuli using VASO at 7 Tesla. Cereb Cortex 2023; 33:8693-8711. [PMID: 37254796 PMCID: PMC10321107 DOI: 10.1093/cercor/bhad151] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2023] [Revised: 04/15/2023] [Accepted: 04/16/2023] [Indexed: 06/01/2023] Open
Abstract
Cortical columns of direction-selective neurons in the motion sensitive area (MT) have been successfully established as a microscopic feature of the neocortex in animals. The same property has been investigated at mesoscale (<1 mm) in the homologous brain area (hMT+, V5) in living humans by using ultra-high field functional magnetic resonance imaging (fMRI). Despite the reproducibility of the selective response to axis-of-motion stimuli, clear quantitative evidence for the columnar organization of hMT+ is still lacking. Using cerebral blood volume (CBV)-sensitive fMRI at 7 Tesla with submillimeter resolution and high spatial specificity to microvasculature, we investigate the columnar functional organization of hMT+ in 5 participants perceiving axis-of-motion stimuli for both blood oxygenation level dependent (BOLD) and vascular space occupancy (VASO) contrast mechanisms provided by the used slice-selective slab-inversion (SS-SI)-VASO sequence. With the development of a new searchlight algorithm for column detection, we provide the first quantitative columnarity map that characterizes the entire 3D hMT+ volume. Using voxel-wise measures of sensitivity and specificity, we demonstrate the advantage of using CBV-sensitive fMRI to detect mesoscopic cortical features by revealing higher specificity of axis-of-motion cortical columns for VASO as compared to BOLD contrast. These voxel-wise metrics also provide further insights on how to mitigate the highly debated draining veins effect. We conclude that using CBV-VASO fMRI together with voxel-wise measurements of sensitivity, specificity and columnarity offers a promising avenue to quantify the mesoscopic organization of hMT+ with respect to axis-of-motion stimuli. Furthermore, our approach and methodological developments are generalizable and applicable to other human brain areas where similar mesoscopic research questions are addressed.
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Affiliation(s)
- Alessandra Pizzuti
- Department of Cognitive Neuroscience, Faculty of Psychology and Neuroscience, Maastricht University, The Netherlands
- Brain Innovation, Maastricht, The Netherlands
| | - Laurentius (Renzo) Huber
- Department of Cognitive Neuroscience, Faculty of Psychology and Neuroscience, Maastricht University, The Netherlands
| | - Omer Faruk Gulban
- Department of Cognitive Neuroscience, Faculty of Psychology and Neuroscience, Maastricht University, The Netherlands
- Brain Innovation, Maastricht, The Netherlands
| | | | - Judith Peters
- Department of Cognitive Neuroscience, Faculty of Psychology and Neuroscience, Maastricht University, The Netherlands
| | - Rainer Goebel
- Department of Cognitive Neuroscience, Faculty of Psychology and Neuroscience, Maastricht University, The Netherlands
- Brain Innovation, Maastricht, The Netherlands
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Ruiz J, LoRicco JG, Soulère L, Castell MS, Grélard A, Kauffmann B, Dufourc EJ, Demé B, Popowycz F, Peters J. Membrane plasticity induced by myo-inositol derived archaeal lipids: chemical synthesis and biophysical characterization. Phys Chem Chem Phys 2023. [PMID: 37305972 DOI: 10.1039/d3cp01646c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Archaeal membrane lipids have specific structures that allow Archaea to withstand extreme conditions of temperature and pressure. In order to understand the molecular parameters that govern such resistance, the synthesis of 1,2-di-O-phytanyl-sn-glycero-3-phosphoinositol (DoPhPI), an archaeal lipid derived from myo-inositol, is reported. Benzyl protected myo-inositol was first prepared and then transformed to phosphodiester derivatives using a phosphoramidite based-coupling reaction with archaeol. Aqueous dispersions of DoPhPI alone or mixed with DoPhPC can be extruded and form small unilamellar vesicles, as detected by DLS. Neutron, SAXS, and solid-state NMR demonstrated that the water dispersions could form a lamellar phase at room temperature that then evolves into cubic and hexagonal phases with increasing temperature. Phytanyl chains were also found to impart remarkable and nearly constant dynamics to the bilayer over wide temperature ranges. All these new properties of archaeal lipids are proposed as providers of plasticity and thus means for the archaeal membrane to resist extreme conditions.
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Affiliation(s)
- Johal Ruiz
- Univ Lyon, INSA Lyon, Université Claude Bernard Lyon 1, CPE Lyon, UMR 5246, CNRS, ICBMS, Institut de Chimie et de Biochimie Moléculaires et Supramoléculaires, Bât. E. Lederer, 1 Rue Victor Grignard, F-69622 Villeurbanne, France
| | | | - Laurent Soulère
- Univ Lyon, INSA Lyon, Université Claude Bernard Lyon 1, CPE Lyon, UMR 5246, CNRS, ICBMS, Institut de Chimie et de Biochimie Moléculaires et Supramoléculaires, Bât. E. Lederer, 1 Rue Victor Grignard, F-69622 Villeurbanne, France
| | | | - Axelle Grélard
- Univ. Bordeaux, CNRS, Bordeaux INP, CBMN, UMR 5248, F-33600 Pessac, France
- Institut Européen de Chimie et Biologie, CNRS, Université de Bordeaux, INSERM, UAR3033, France
| | - Brice Kauffmann
- Institut Européen de Chimie et Biologie, CNRS, Université de Bordeaux, INSERM, UAR3033, France
| | - Erick J Dufourc
- Univ. Bordeaux, CNRS, Bordeaux INP, CBMN, UMR 5248, F-33600 Pessac, France
- Institut Européen de Chimie et Biologie, CNRS, Université de Bordeaux, INSERM, UAR3033, France
| | - Bruno Demé
- Institut Laue-Langevin, 38000 Grenoble, France.
| | - Florence Popowycz
- Univ Lyon, INSA Lyon, Université Claude Bernard Lyon 1, CPE Lyon, UMR 5246, CNRS, ICBMS, Institut de Chimie et de Biochimie Moléculaires et Supramoléculaires, Bât. E. Lederer, 1 Rue Victor Grignard, F-69622 Villeurbanne, France
| | - Judith Peters
- Institut Laue-Langevin, 38000 Grenoble, France.
- Univ. Grenoble Alpes, LiPhy, CNRS, 38000 Grenoble, France
- Institut Universitaire de France, France
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Pizzuti A, Gulban O, Huber L, Peters J, Goebel R. FV 6 Neural correlates of human motion perception at mesoscale: An fMRI study at 7 Tesla. Clin Neurophysiol 2023. [DOI: 10.1016/j.clinph.2023.02.007] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/08/2023]
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10
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Misuraca L, Winter R, Demé B, Oger PM, Peters J. Molecular Rearrangements in Protomembrane Models Probed by Laurdan Fluorescence. Membranes (Basel) 2023; 13:386. [PMID: 37103813 PMCID: PMC10144571 DOI: 10.3390/membranes13040386] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/15/2023] [Revised: 03/14/2023] [Accepted: 03/23/2023] [Indexed: 06/19/2023]
Abstract
Lipid membranes are a key component of living systems and have been essential to the origin of life. One hypothesis for the origin of life assumes the existence of protomembranes with ancient lipids formed by Fischer-Tropsch synthesis. We determined the mesophase structure and fluidity of a prototypical decanoic (capric) acid-based system, a fatty acid with a chain length of 10 carbons, and a lipid system consisting of a 1:1 mixture of capric acid with a fatty alcohol of equal chain length (C10 mix). To shed light on the mesophase behavior and fluidity of these prebiotic model membranes, we employed Laurdan fluorescence spectroscopy, which reports on the lipid packing and fluidity of membranes, supplemented by small-angle neutron diffraction data. The data are compared with data of the corresponding phospholipid bilayer systems of the same chain length, 1,2-didecanoyl-sn-glycero-3-phosphocholine (DLPC). We demonstrate that the prebiotic model membranes capric acid and the C10 mix show formation of stable vesicular structures needed for cellular compartmentalization at low temperatures only, typically below 20 °C. They reveal the fluid-like lipid dynamic properties needed for optimal physiological function. High temperatures lead to the destabilization of the lipid vesicles and the formation of micellar structures.
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Affiliation(s)
- Loreto Misuraca
- Univ. Grenoble Alpes, CNRS, LIPhy, 38000 Grenoble, France
- Institut Laue Langevin, 38042 Grenoble, France
| | - Roland Winter
- Fakultät für Chemie und Chemische Biologie, Physikalische Chemie, Technische Universität Dortmund, 44227 Dortmund, Germany
| | - Bruno Demé
- Institut Laue Langevin, 38042 Grenoble, France
| | - Philippe M. Oger
- INSA Lyon, Université de Lyon, CNRS, UMR5240, 69100 Villeurbanne, France
| | - Judith Peters
- Univ. Grenoble Alpes, CNRS, LIPhy, 38000 Grenoble, France
- Institut Laue Langevin, 38042 Grenoble, France
- Institut Universitaire de France, 75005 Paris, France
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Di Bari D, Timr S, Guiral M, Giudici-Orticoni MT, Seydel T, Beck C, Petrillo C, Derreumaux P, Melchionna S, Sterpone F, Peters J, Paciaroni A. Diffusive Dynamics of Bacterial Proteome as a Proxy of Cell Death. ACS Cent Sci 2023; 9:93-102. [PMID: 36712493 PMCID: PMC9881203 DOI: 10.1021/acscentsci.2c01078] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/13/2022] [Indexed: 05/30/2023]
Abstract
Temperature variations have a big impact on bacterial metabolism and death, yet an exhaustive molecular picture of these processes is still missing. For instance, whether thermal death is determined by the deterioration of the whole or a specific part of the proteome is hotly debated. Here, by monitoring the proteome dynamics of E. coli, we clearly show that only a minor fraction of the proteome unfolds at the cell death. First, we prove that the dynamical state of the E. coli proteome is an excellent proxy for temperature-dependent bacterial metabolism and death. The proteome diffusive dynamics peaks at about the bacterial optimal growth temperature, then a dramatic dynamical slowdown is observed that starts just below the cell's death temperature. Next, we show that this slowdown is caused by the unfolding of just a small fraction of proteins that establish an entangling interprotein network, dominated by hydrophobic interactions, across the cytoplasm. Finally, the deduced progress of the proteome unfolding and its diffusive dynamics are both key to correctly reproduce the E. coli growth rate.
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Affiliation(s)
- Daniele Di Bari
- Università
degli Studi di Perugia, Dipartimento di
Fisica e Geologia, Via
A. Pascoli, 06123Perugia PG, Italy
- Université
Grenoble Alpes, CNRS, Laboratoire Interdisciplinaire de Physique, 38400Saint-Martin-d’Héres, France
- Institut
Laue-Langevin, 38000Grenoble, France
| | - Stepan Timr
- Laboratoire
de Biochimie Théorique (UPR9080), CNRS, Université de Paris Cité, 13 Rue Pierre et Marie Curie, 75005Paris, France
- Institut
de Biologie Physico-Chimique, Fondation Edmond de Rothschild, 13 Rue Pierre et Marie Curie, 75005Paris, France
- J.
Heyrovský
Institute of Physical Chemistry, Czech Academy
of Sciences, 182 23Prague 8, Czechia
| | - Marianne Guiral
- Laboratoire
de Bioénergétique et Ingénierie des Protéines, BIP, CNRS, Aix-Marseille Université, 13400Marseille, France
| | | | - Tilo Seydel
- Institut
Laue-Langevin, 38000Grenoble, France
| | | | - Caterina Petrillo
- Università
degli Studi di Perugia, Dipartimento di
Fisica e Geologia, Via
A. Pascoli, 06123Perugia PG, Italy
| | - Philippe Derreumaux
- Laboratoire
de Biochimie Théorique (UPR9080), CNRS, Université de Paris Cité, 13 Rue Pierre et Marie Curie, 75005Paris, France
- Institut
de Biologie Physico-Chimique, Fondation Edmond de Rothschild, 13 Rue Pierre et Marie Curie, 75005Paris, France
- Institut Universitaire de France, 75005Paris, France
| | - Simone Melchionna
- ISC-CNR,
Dipartimento di Fisica, Università
Sapienza, 00185Rome, Italy
- Lexma
Technology1337 Massachusetts
Avenue, Arlington, Massachusetts02476, United States
| | - Fabio Sterpone
- Laboratoire
de Biochimie Théorique (UPR9080), CNRS, Université de Paris Cité, 13 Rue Pierre et Marie Curie, 75005Paris, France
- Institut
de Biologie Physico-Chimique, Fondation Edmond de Rothschild, 13 Rue Pierre et Marie Curie, 75005Paris, France
| | - Judith Peters
- Université
Grenoble Alpes, CNRS, Laboratoire Interdisciplinaire de Physique, 38400Saint-Martin-d’Héres, France
- Institut
Laue-Langevin, 38000Grenoble, France
- Institut Universitaire de France, 75005Paris, France
| | - Alessandro Paciaroni
- Università
degli Studi di Perugia, Dipartimento di
Fisica e Geologia, Via
A. Pascoli, 06123Perugia PG, Italy
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Bicout DJ, Cisse A, Matsuo T, Peters J. The dynamical Matryoshka model: 1. Incoherent neutron scattering functions for lipid dynamics in bilayers. Biochim Biophys Acta Biomembr 2022; 1864:183944. [PMID: 35490712 DOI: 10.1016/j.bbamem.2022.183944] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/21/2021] [Revised: 04/06/2022] [Accepted: 04/17/2022] [Indexed: 10/18/2022]
Abstract
Fluid lipid bilayers are the building blocks of biological membranes. Although there is a large amount of experimental data using incoherent quasi-elastic neutron scattering (QENS) techniques to study membranes, very little theoretical works have been developed to study the local dynamics of membranes. The main objective of this work is to build a theoretical framework to study and describe the local dynamics of lipids and derive analytical expressions of intermediate scattering functions (ISF) for QENS. As results, we developed the dynamical Matryoshka model which describes the local dynamics of lipid molecules in membrane layers as a nested hierarchical convolution of three motional processes: (i) individual motions described by the vibrational motions of H-atoms; (ii) internal motions including movements of the lipid backbone, head groups and tails, and (iii) molecule movements of the lipid molecule as a whole. The analytical expressions of the ISF associated with these movements are all derived. For use in analyzing the QENS experimental data, we also derived an analytical expression for the aggregate ISF of the Matryoshka model which involves an elastic term plus three inelastic terms of well-separated time scales and whose amplitudes and rates are functions of the lipid motions. And as an illustrative application, we used the aggregated ISF to analyze the experimental QENS data on a lipid sample of multilamellar bilayers of DMPC (1,2-dimyristoyl-sn-glycero-3-phosphocholine). It is clear from this analysis that the dynamical Matryoshka model describes very well the experimental data and allow extracting the dynamical parameters of the studied system.
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Affiliation(s)
- Dominique J Bicout
- Univ. Grenoble Alpes, CNRS, Grenoble INP, VetAgro Sup, TIMC, 38000 Grenoble, France; Institut Laue-Langevin, 71 Avenue des Martyrs, 38042 Grenoble, France.
| | - Aline Cisse
- Univ. Grenoble Alpes, CNRS, LiPhy, Grenoble, France; Institut Laue-Langevin, 71 Avenue des Martyrs, 38042 Grenoble, France
| | - Tatsuhito Matsuo
- Univ. Grenoble Alpes, CNRS, LiPhy, Grenoble, France; Institute for Quantum Life Science, National Institutes for Quantum Science and Technology (QST), Tokai, Ibaraki 319-1106, Japan; Institut Laue-Langevin, 71 Avenue des Martyrs, 38042 Grenoble, France
| | - Judith Peters
- Univ. Grenoble Alpes, CNRS, LiPhy, Grenoble, France; Institut Laue-Langevin, 71 Avenue des Martyrs, 38042 Grenoble, France; Institut Universitaire de France, France
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Cisse A, Matsuo T, Plazanet M, Natali F, Koza MM, Ollivier J, Bicout DJ, Peters J. The dynamical Matryoshka model: 2. Modeling of local lipid dynamics at the sub-nanosecond timescale in phospholipid membranes. Biochim Biophys Acta Biomembr 2022; 1864:183950. [PMID: 35525301 DOI: 10.1016/j.bbamem.2022.183950] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/22/2021] [Revised: 04/06/2022] [Accepted: 04/25/2022] [Indexed: 12/12/2022]
Abstract
Biological membranes are generally formed by lipids and proteins. Often, the membrane properties are studied through model membranes formed by phospholipids only. They are molecules composed by a hydrophilic head group and hydrophobic tails, which can present a panoply of various motions, including small localized movements of a few atoms up to the diffusion of the whole lipid or collective motions of many of them. In the past, efforts were made to measure these motions experimentally by incoherent neutron scattering and to quantify them, but with upcoming modern neutron sources and instruments, such models can now be improved. In the present work, we expose a quantitative and exhaustive study of lipid dynamics on DMPC and DMPG membranes, using the Matryoshka model recently developed by our group. The model is confronted here to experimental data collected on two different membrane samples, at three temperatures and two instruments. Despite such complexity, the model describes reliably the data and permits to extract a series of parameters. The results compare also very well to other values found in the literature.
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Affiliation(s)
- Aline Cisse
- Univ. Grenoble Alpes, CNRS, LiPhy, 38000 Grenoble, France; Institut Laue-Langevin, 71 avenue des Martyrs, CS 20156, 38042 Grenoble Cedex 9, 7, France
| | - Tatsuhito Matsuo
- Univ. Grenoble Alpes, CNRS, LiPhy, 38000 Grenoble, France; Institut Laue-Langevin, 71 avenue des Martyrs, CS 20156, 38042 Grenoble Cedex 9, 7, France; Institute for Quantum Life Science, National Institutes for Quantum Science and Technology, 2-4 Shirakata, Tokai, Ibaraki 319-1106, Japan
| | - Marie Plazanet
- Univ. Grenoble Alpes, CNRS, LiPhy, 38000 Grenoble, France
| | - Francesca Natali
- Institut Laue-Langevin, 71 avenue des Martyrs, CS 20156, 38042 Grenoble Cedex 9, 7, France; CNR-IOM and INSIDE@ILL, c/o OGG, 38042 Grenoble Cedex 9, France
| | - Michael Marek Koza
- Institut Laue-Langevin, 71 avenue des Martyrs, CS 20156, 38042 Grenoble Cedex 9, 7, France
| | - Jacques Ollivier
- Institut Laue-Langevin, 71 avenue des Martyrs, CS 20156, 38042 Grenoble Cedex 9, 7, France
| | - Dominique J Bicout
- Institut Laue-Langevin, 71 avenue des Martyrs, CS 20156, 38042 Grenoble Cedex 9, 7, France; Univ. Grenoble Alpes, CNRS, Grenoble INP, VetAgro Sup, TIMC, 38000 Grenoble, France
| | - Judith Peters
- Univ. Grenoble Alpes, CNRS, LiPhy, 38000 Grenoble, France; Institut Laue-Langevin, 71 avenue des Martyrs, CS 20156, 38042 Grenoble Cedex 9, 7, France; Institut Universitaire de France, France.
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Matsuo T, Cisse A, Plazanet M, Natali F, Koza MM, Ollivier J, Bicout DJ, Peters J. The dynamical Matryoshka model: 3. Diffusive nature of the atomic motions contained in a new dynamical model for deciphering local lipid dynamics. Biochim Biophys Acta Biomembr 2022; 1864:183949. [PMID: 35508224 DOI: 10.1016/j.bbamem.2022.183949] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/22/2021] [Revised: 04/06/2022] [Accepted: 04/25/2022] [Indexed: 11/17/2022]
Abstract
In accompanying papers [Bicout et al., BioRxiv https://doi.org/10.1101/2021.09.21.461198 (2021); Cissé et al., BioRxiv https://doi.org/10.1101/2022.03.30.486370 (2022)], a new model called Matryoshka model has been proposed to describe the geometry of atomic motions in phospholipid molecules in bilayers and multilamellar vesicles based on their quasielastic neutron scattering (QENS) spectra. Here, in order to characterize the relaxational aspects of this model, the energy widths of the QENS spectra of the samples were analyzed first in a model-free way. The spectra were decomposed into three Lorentzian functions, which are classified as slow, intermediate, and fast motions depending on their widths. The analysis provides the diffusion coefficients, residence times, and geometrical parameters for the three classes of motions. The results corroborate the parameter values such as the amplitudes and the mobile fractions of atomic motions obtained by the application of the Matryoshka model to the same samples. Since the current analysis was carried out independently of the development of the Matryoshka model, the present results enhance the validity of the model. The model will serve as a powerful tool to decipher the dynamics of lipid molecules not only in model systems, but also in more complex systems such as mixtures of different kinds of lipids or natural cell membranes.
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Affiliation(s)
- Tatsuhito Matsuo
- Univ. Grenoble Alpes, CNRS, LiPhy, F-38000 Grenoble, France; Institut Laue-Langevin, 71 avenue des Martyrs, 38042 Grenoble Cedex 9, France; Institute for Quantum Life Science, National Institutes for Quantum Science and Technology, 2-4 Shirakata, Tokai, Ibaraki 319-1106, Japan
| | - Aline Cisse
- Univ. Grenoble Alpes, CNRS, LiPhy, F-38000 Grenoble, France; Institut Laue-Langevin, 71 avenue des Martyrs, 38042 Grenoble Cedex 9, France
| | - Marie Plazanet
- Univ. Grenoble Alpes, CNRS, LiPhy, F-38000 Grenoble, France
| | - Francesca Natali
- Institut Laue-Langevin, 71 avenue des Martyrs, 38042 Grenoble Cedex 9, France; CNR-IOM, OGG, 71 avenue des Martyrs, 38042 Grenoble Cedex 9, France
| | - Michael Marek Koza
- Institut Laue-Langevin, 71 avenue des Martyrs, 38042 Grenoble Cedex 9, France
| | - Jacques Ollivier
- Institut Laue-Langevin, 71 avenue des Martyrs, 38042 Grenoble Cedex 9, France
| | - Dominique J Bicout
- Institut Laue-Langevin, 71 avenue des Martyrs, 38042 Grenoble Cedex 9, France; Univ. Grenoble Alpes, CNRS, Grenoble INP, VetAgro Sup, TIMC, 38000 Grenoble, France
| | - Judith Peters
- Univ. Grenoble Alpes, CNRS, LiPhy, F-38000 Grenoble, France; Institut Laue-Langevin, 71 avenue des Martyrs, 38042 Grenoble Cedex 9, France; Institut Universitaire de France, France.
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Besse B, Awad M, Forde P, Thomas M, Goss G, Aronson B, Hobson R, Dean E, Peters J, Iyer S, Conway J, Barrett J, Cosaert J, Dressman M, Barry S, Heymach J. OA15.05 HUDSON: An Open-Label, Multi-Drug, Biomarker-Directed Phase 2 Study in NSCLC Patients Who Progressed on Anti-PD-(L)1 Therapy. J Thorac Oncol 2022. [DOI: 10.1016/j.jtho.2022.07.074] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Matsuo T, Peters J. Sub-Nanosecond Dynamics of Pathologically Relevant Bio-Macromolecules Observed by Incoherent Neutron Scattering. Life (Basel) 2022; 12:life12081259. [PMID: 36013438 PMCID: PMC9410404 DOI: 10.3390/life12081259] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/27/2022] [Revised: 08/09/2022] [Accepted: 08/12/2022] [Indexed: 01/22/2023]
Abstract
Incoherent neutron scattering (iNS) is one of the most powerful techniques to study the dynamical behavior of bio-macromolecules such as proteins and lipid molecules or whole cells. This technique has widely been used to elucidate the fundamental aspects of molecular motions that manifest in the bio-macromolecules in relation to their intrinsic molecular properties and biological functions. Furthermore, in the last decade, iNS studies focusing on a possible relationship between molecular dynamics and biological malfunctions, i.e., human diseases and disorders, have gained importance. In this review, we summarize recent iNS studies on pathologically relevant proteins and lipids and discuss how the findings are of importance to elucidate the molecular mechanisms of human diseases and disorders that each study targets. Since some diseases such as amyloidosis have become more relevant in the aging society, research in this field will continue to develop further and be more important in the current increasing trend for longevity worldwide.
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Affiliation(s)
- Tatsuhito Matsuo
- Institute for Quantum Life Science, National Institutes for Quantum Science and Technology, 2-4 Shirakata, Tokai 319-1106, Ibaraki, Japan
- Dept. of Physics, Univ. Grenoble Alpes, CNRS, LiPhy, 38000 Grenoble, France
- Institut Laue-Langevin, 71 Avenue des Martyrs, CEDEX 9, 38042 Grenoble, France
- Correspondence: (T.M.); (J.P.)
| | - Judith Peters
- Dept. of Physics, Univ. Grenoble Alpes, CNRS, LiPhy, 38000 Grenoble, France
- Institut Laue-Langevin, 71 Avenue des Martyrs, CEDEX 9, 38042 Grenoble, France
- Institut Universitaire de France, 75231 Paris, France
- Correspondence: (T.M.); (J.P.)
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Misuraca L, Matsuo T, Cisse A, LoRicco J, Caliò A, Zanotti JM, Demé B, Oger P, Peters J. High temperature molecular motions within a model protomembrane architecture. Phys Chem Chem Phys 2022; 24:15083-15090. [PMID: 35698855 DOI: 10.1039/d2cp01205g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Modern phospholipid membranes are known to be in a functional, physiological state, corresponding to the liquid crystalline phase, only under very precise external conditions. The phase is characterised by specific lipid motions, which seem mandatory to permit sufficient flexibility and stability for the membrane. It can be assumed that similar principles hold for proto-membranes at the origin of life although they were likely composed of simpler, single chain fatty acids and alcohols. In the present study we investigated molecular motions of four types of model membranes to shed light on the variations of dynamics and structure from low to high temperature as protocells might have existed close to hot vents. We find a clear hierarchy among the flexibilities of the samples, where some structural parameters seem to depend on the lipid type used while others do not.
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Affiliation(s)
- Loreto Misuraca
- Univ. Grenoble Alpes, CNRS, LIPhy, 38000 Grenoble, France. .,Institut Laue Langevin, F-38042 Grenoble Cedex 9, France
| | - Tatsuhito Matsuo
- Univ. Grenoble Alpes, CNRS, LIPhy, 38000 Grenoble, France. .,Institut Laue Langevin, F-38042 Grenoble Cedex 9, France.,Institute for Quantum Life Science, National Institutes for Quantum Science and Technology, 2-4 Shirakata, Tokai, Ibaraki, 319-1106, Japan
| | - Aline Cisse
- Univ. Grenoble Alpes, CNRS, LIPhy, 38000 Grenoble, France. .,Institut Laue Langevin, F-38042 Grenoble Cedex 9, France
| | | | - Antonio Caliò
- INSA Lyon, Université de Lyon, CNRS, UMR5240, Villeurbanne, France.
| | - Jean-Marc Zanotti
- Laboratoire Léon Brillouin, CEA, CNRS, Université Paris-Saclay, CEA Saclay, 91191 Gif-sur-Yvette Cedex, France
| | - Bruno Demé
- Institut Laue Langevin, F-38042 Grenoble Cedex 9, France
| | - Philippe Oger
- INSA Lyon, Université de Lyon, CNRS, UMR5240, Villeurbanne, France.
| | - Judith Peters
- Univ. Grenoble Alpes, CNRS, LIPhy, 38000 Grenoble, France. .,Institut Laue Langevin, F-38042 Grenoble Cedex 9, France.,Institut Universitaire de France, France
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Hoi A, Toor S, Monk J, Chang J, Koelmeyer R, Papadaki A, Peters J, Vincent F, Ooi J, Morand EF. POS0774 ANTI-Sm AUTOANTIBODIES IDENTIFY A PHENOTYPE OF SEVERE SLE WITH AN ASSOCIATED SERUM BIOMARKER PROFILE. Ann Rheum Dis 2022. [DOI: 10.1136/annrheumdis-2022-eular.4232] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
Abstract
BackgroundAntibodies to Smith (Sm) have been described as one of the most specific autoantibodies for systemic lupus erythematosus (SLE). Other than its association with lupus nephritis, there is, however, limited understanding of its clinical significance1,2.ObjectivesTo describe clinical associations and serum protein profiles of anti-Sm positivity in SLE.MethodsPatients fulfilling SLE classification criteria who were followed longitudinally in a prospective multicentre cohort were studied according to their baseline anti-Sm antibody status. Comparison between Sm+ and Sm- patients was made using descriptive statistics. Clinical associations of Sm positivity with patient disease characteristics were studied using logistic regression. In a subset, 211 serum analytes were measured using Quantibody, Luminex and ELISA assays. Associations between serum proteins and Sm positivity were studied using Least Absolute Shrinkage and Selection Operator (LASSO) penalised regression, adjusting for demographics (age, sex, ethnicity) and medication useResults383 patients were studied with median (IQR) follow-up of 4.9 (2,9) years; 65 (17%) had positive anti-Sm antibodies. Sm+ patients were significantly more likely to be of non-European ancestry (OR 2.73, 95% CI 1.55-4.82, p<0.001), and to be positive for anti-dsDNA antibodies (OR 2.8, 95% CI 2.3-3.4, p<0.001), anti-RNP antibodies (OR 15.7, 95% CI 13.9-17.8, p<0.001), direct anti-globulin test (OR 2.36, 95% CI 2.07-2.7, p<0.001) and hypocomplementemia (OR 7.73, 95% CI 5.1-11.7, p<0.001). Sm+ patients were significantly more likely to have active disease during the observation period in a range of organ domains, including mucocutaneous, renal, vasculitis and fever.More Sm+ patients had episodes of High Disease Activity Status (HDAS, SLEDAI-2K ≧10)3 (OR 3.07, 95% CI 1.70-5.54, p<0.001) and persistent active disease (time-adjusted mean SLEDAI-2K > 4) (OR 3.23. 95% CI 1.84-5.70, p<0.001). Conversely, fewer Sm+ patients attained LLDAS for ≥50% observed time (19.7% vs 41.8%, p=0.002). Sm+ patients were more likely to be treated with glucocorticoids, immunosuppressants, and rituximab. There was no significant difference in damage accrual between Sm + and Sm - patients.In serum protein analysis (n=197, 29 Sm+), LASSO modelling retained 3 proteins associated with Sm+ status, CXCL13, IL1RL1 and FLT1, along with Asian ethnicity and age. In analysis including pairwise interaction between predictors, 28 Sm+ associated proteins were identified, including CCL4, VCAM1, IL1RL1, Fcg R IIB/C, TDGF1, CEACAM1, TIMP1, BMP5, GDF15, and TNFRSF17.ConclusionAnti-Sm autoantibodies, present in 17% of SLE patients, were strongly associated with classical disease manifestations, more severe disease activity, and a specific serological and proteomic profile. These findings suggest anti-Sm+ SLE as a specific disease subset.References[1]Barada, FA., B.S. Andrews, J.S. Davis, R.P. Taylor, Antibodies to Sm in patients with systemic lupus erythematosus. Correlation of Sm antibody titers with disease activity and other laboratory parameters. Arthritis Rheum, 1981. 24:1236-1244[2]Arroyo-Avilla, M, Y. Santiago-Casas, G.McGwin, R.S. Cantor, M. Petri, R. Ramsey-Goldman, J.D. Reveille, R.P.Kimberly, G.S. Alarcon, L.M.Vila, E.E. Brown. Clinical Associations of anti-Smith antibodies in PROFILE: a multi-ethnic lupus cohort. 2015. 34:1217-1223[3]Koelmeyer, R., H.T. Nim, M. Nikpour, Y.B. Sun, A. Kao, O. Guenther, E. Morand, and A. Hoi, High disease activity status suggests more severe disease and damage accrual in systemic lupus erythematosus. Lupus Sci Med, 2020. 7(1).AcknowledgementsI would like to acknowledge participants and clinicians involved with the Australian Lupus Registry & BiobankDisclosure of InterestsNone declared
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Matsuo T, De Francesco A, Peters J. Molecular Dynamics of Lysozyme Amyloid Polymorphs Studied by Incoherent Neutron Scattering. Front Mol Biosci 2022; 8:812096. [PMID: 35111814 PMCID: PMC8801425 DOI: 10.3389/fmolb.2021.812096] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2021] [Accepted: 12/03/2021] [Indexed: 11/22/2022] Open
Abstract
Lysozyme amyloidosis is a hereditary disease, which is characterized by the deposition of lysozyme amyloid fibrils in various internal organs. It is known that lysozyme fibrils show polymorphism and that polymorphs formed at near-neutral pH have the ability to promote more monomer binding than those formed at acidic pH, indicating that only specific polymorphs become dominant species in a given environment. This is likely due to the polymorph-specific configurational diffusion. Understanding the possible differences in dynamical behavior between the polymorphs is thus crucial to deepen our knowledge of amyloid polymorphism and eventually elucidate the molecular mechanism of lysozyme amyloidosis. In this study, molecular dynamics at sub-nanosecond timescale of two kinds of polymorphic fibrils of hen egg white lysozyme, which has long been used as a model of human lysozyme, formed at pH 2.7 (LP27) and pH 6.0 (LP60) was investigated using elastic incoherent neutron scattering (EINS) and quasi-elastic neutron scattering (QENS). Analysis of the EINS data showed that whereas the mean square displacement of atomic motions is similar for both LP27 and LP60, LP60 contains a larger fraction of atoms moving with larger amplitudes than LP27, indicating that the dynamical difference between the two polymorphs lies not in the averaged amplitude, but in the distribution of the amplitudes. Furthermore, analysis of the QENS data showed that the jump diffusion coefficient of atoms is larger for LP60, suggesting that the atoms of LP60 undergo faster diffusive motions than those of LP27. This study thus characterizes the dynamics of the two lysozyme polymorphs and reveals that the molecular dynamics of LP60 is enhanced compared with that of LP27. The higher molecular flexibility of the polymorph would permit to adjust its conformation more quickly than its counterpart, facilitating monomer binding.
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Affiliation(s)
- Tatsuhito Matsuo
- Univ. Grenoble Alpes, CNRS, LiPhy, Grenoble, France
- Institut Laue-Langevin, Grenoble, France
- Institute for Quantum Life Science, National Institutes for Quantum Science and Technology, Tokai, Japan
- *Correspondence: Tatsuhito Matsuo, ; Judith Peters,
| | - Alessio De Francesco
- Institut Laue-Langevin, Grenoble, France
- CNR-IOM and INSIDE@ILL C/O Operative Group in Grenoble (OGG), Grenoble, France
| | - Judith Peters
- Univ. Grenoble Alpes, CNRS, LiPhy, Grenoble, France
- Institut Laue-Langevin, Grenoble, France
- Institut Universitaire de France, Paris, France
- *Correspondence: Tatsuhito Matsuo, ; Judith Peters,
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Matsuo T, Arluison V, Wien F, Peters J. Structural Information on Bacterial Amyloid and Amyloid-DNA Complex Obtained by Small-Angle Neutron or X-Ray Scattering. Methods Mol Biol 2022; 2538:75-93. [PMID: 35951294 DOI: 10.1007/978-1-0716-2529-3_6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Small-angle scattering is a powerful technique to obtain structural information on biomacromolecules in aqueous solution at the sub-nanometer and nanometer length scales. It provides the sizes and overall shapes of the scattering particles. While small-angle X-ray scattering (SAXS) has often been used for structural analysis of a single-component system, small-angle neutron scattering (SANS) has been used to reveal the internal organization of a multicomponent system such as protein-protein and protein-DNA complexes. This is due to the fact that the neutron scattering length is largely different between hydrogen and deuterium, and thus it allows to make a specific component in complexes "invisible" to neutrons by changing the H2O/D2O ratio in the solvent with or without molecular deuteration. In this chapter, we describe a method to characterize the biomolecular structures using SANS and SAXS, in particular, focusing on fibrillar proteins such as bacterial amyloids and their complexes with nucleic acids.
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Affiliation(s)
- Tatsuhito Matsuo
- Univ. Grenoble Alpes, CNRS, LiPhy, Grenoble, France.
- Institut Laue-Langevin, Grenoble Cedex 9, France.
- Institute for Quantum Life Science, National Institutes for Quantum Science and Technology, Tokai, Ibaraki, Japan.
| | - Véronique Arluison
- Laboratoire Léon Brillouin LLB, CEA, CNRS UMR 12, Université Paris Saclay, CEA Saclay, Gif-sur-Yvette, France
- Université de Paris Cité, Paris, France
| | - Frank Wien
- DISCO Beamline, Synchrotron SOLEIL, L'Orme des Merisiers Saint Aubin, Gif-sur-Yvette, France
| | - Judith Peters
- Univ. Grenoble Alpes, CNRS, LiPhy, Grenoble, France.
- Institut Laue-Langevin, Grenoble Cedex 9, France.
- Institut Universitaire de France, Paris, France.
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Mamontov E, Bordallo HN, Delaire O, Nickels J, Peters J, Schneider GJ, Smith JC, Sokolov AP. Broadband Wide-Angle VElocity Selector (BWAVES) neutron spectrometer designed for the SNS Second Target Station. EPJ Web Conf 2022. [DOI: 10.1051/epjconf/202227202003] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A recently proposed wide-angle velocity selector (WAVES) device for choosing the velocity of detected neutrons after they have been scattered by the sample paves the way for inverted geometry neutron spectrometers with continuously adjustable final neutron wavelength. BWAVES broadband inverted geometry spectrometer proposed for the Second Target Station at the Spallation Neutron Source at Oak Ridge National Laboratory is designed using WAVES to simultaneously probe dynamic processes spanning 4.5 decades in time (energy transfer). This makes BWAVES a uniquely flexible instrument which can be viewed as either a quasielasitc neutron scattering (QENS) spectrometer with a practically unlimited (overlapping with the vibrational excitations) range of energy transfers, or a broadband inelastic vibrational neutron spectrometer with QENS capabilities, including a range of accessible momentum transfer (Q) and a sufficiently high energy resolution at the elastic line. The new capabilities offered by BWAVES will expand the application of neutron scattering in ways not possible with existing neutron spectrometers.
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22
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Matsuo T, Peters J. Fiber Diffraction and Small-Angle Scattering for Structural Investigation of Bacterial Amyloids. Methods Mol Biol 2022; 2538:95-107. [PMID: 35951295 DOI: 10.1007/978-1-0716-2529-3_7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
X-ray/neutron fiber diffraction and small-angle X-ray/neutron scattering are widely used to investigate the molecular structure of fibrous proteins, including amyloid fibrils. However, there is sometimes confusion between these two techniques despite the fact that sample conditions and the content of the information obtained are not the same. In this brief chapter, we present the differences in sample conditions between these two methods, and their effects on experimentally obtained diffraction or scattering patterns, emphasizing the degree of disorder in the samples.
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Affiliation(s)
- Tatsuhito Matsuo
- Univ. Grenoble Alpes, CNRS, LiPhy, Grenoble, France.
- Institut Laue-Langevin, Grenoble Cedex 9, France.
- Institute for Quantum Life Science, National Institutes for Quantum Science and Technology, Tokai, Ibaraki, Japan.
| | - Judith Peters
- Univ. Grenoble Alpes, CNRS, LiPhy, Grenoble, France.
- Institut Laue-Langevin, Grenoble Cedex 9, France.
- Institut Universitaire de France, Paris, France.
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23
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Cisse A, Schachner-Nedherer AL, Appel M, Beck C, Ollivier J, Leitinger G, Prassl R, Kornmueller K, Peters J. Dynamics of Apolipoprotein B-100 in Interaction with Detergent Probed by Incoherent Neutron Scattering. J Phys Chem Lett 2021; 12:12402-12410. [PMID: 34939807 DOI: 10.1021/acs.jpclett.1c03141] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
Apolipoprotein B-100 (apo B-100) is the protein moiety of both low- and very-low-density lipoproteins, whose role is crucial to cholesterol and triglyceride transport. Aiming at the molecular dynamics' details of apo B-100, scarcely studied, we performed elastic and quasi-elastic incoherent neutron scattering (EINS, QENS) experiments combining different instruments and time scales. Similar to classical membrane proteins, the solubilization results in remaining detergent, here Nonidet P-40 (NP40). Therefore, we propose a framework for QENS studies of protein-detergent complexes, with the introduction of a combined model, including the experimental apo B-100/NP40 ratio. Relying on the simultaneous analysis of all QENS amplitudes, this approach is sensitive enough to separate both contributions. Its application identified two points: (i) apo B-100 slow dynamics and (ii) the acceleration of NP40 dynamics in the presence of apo B-100. Direct translation of the exposed methodology now makes the investigation of more membrane proteins by neutron spectroscopy achievable.
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Affiliation(s)
- Aline Cisse
- Université Grenoble Alpes, CNRS, LiPhy, 38000 Grenoble, France
- Institut Laue Langevin, 38042 Grenoble, France
| | | | | | - Christian Beck
- Institut Laue Langevin, 38042 Grenoble, France
- Institut of Applied Physics, University of Tübingen, 72076 Tübingen, Germany
| | | | | | | | | | - Judith Peters
- Université Grenoble Alpes, CNRS, LiPhy, 38000 Grenoble, France
- Institut Laue Langevin, 38042 Grenoble, France
- Institut Universitaire de France, 75231 Paris, France
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24
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Kaivers J, Peters J, Rautenberg C, Schroeder T, Kobbe G, Hildebrandt B, Haas R, Germing U, Bennett JM. The WHO 2016 diagnostic criteria for Acute Myeloid leukemia with myelodysplasia related changes (AML-MRC) produce a very heterogeneous entity: A retrospective analysis of the FAB subtype RAEB-T. Leuk Res 2021; 112:106757. [PMID: 34864369 DOI: 10.1016/j.leukres.2021.106757] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2021] [Revised: 11/23/2021] [Accepted: 11/24/2021] [Indexed: 10/19/2022]
Abstract
We studied 79 patients with AML-MRC or RAEB-T, who were later reclassified according to the WHO classification. Marrow slides were examined cytomorphologically with regard to dysplasia. Patients were followed up until March 2020. Thirty-one patients underwent allogeneic stem cell transplantation (median survival (ms) 16 months), 14 were treated with induction chemotherapy (ms 8.4 months), 18 received hypomethylating agents (ms 9.2 months), 16 received low dose chemotherapy or best supportive care (ms 2.4 months). Only 30.4 % fulfilled the morphologic WHO criteria. 46.8 % were classified as AML-MRC by an antecedent MDS, 54.4 % of the pts were classified by MDS-related chromosomal abnormalities. 5 % did not fulfill any of the criteria and were entered based on 20-29 % medullary blasts. There was no difference in ms between pts presenting with > 50 % dysplasia as compared to pts with dysplasia between 10 % and 50 % (ms 9.1 vs 9.9 months, p = n.s.) or for pts with antecedent MDS (ms 9.1 vs 8.9 months, p = n.s.). Myelodysplasia-related cytogenetic abnormalities were associated with a worse outcome (ms 8.1 vs 13.5 months, p = 0.026). AML-MRC in its current definition is a heterogenous entity. Dysplasia of ≥ 50 % in ≥ two lineages is not helpful for diagnostics and prognostication and therefore should be deleted in future classifications. We recommend utilizing the WHO guidelines for defining dysplasia (10 % or greater in ≥ 1 of the three myeloid cell lines) assisting in establishing the diagnosis of MDS.
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Affiliation(s)
- J Kaivers
- Department of Hematology, Oncology and Clinical Immunology, Medical Faculty, University of Duesseldorf, Duesseldorf, Germany.
| | - J Peters
- Department of Hematology, Oncology and Clinical Immunology, Medical Faculty, University of Duesseldorf, Duesseldorf, Germany
| | - C Rautenberg
- Department of Hematology, Oncology and Clinical Immunology, Medical Faculty, University of Duesseldorf, Duesseldorf, Germany; Department of Hematology and Stem Cell Transplantation, University Hospital Essen, Medical Faculty, University Duisburg-Essen, Essen, Germany
| | - T Schroeder
- Department of Hematology, Oncology and Clinical Immunology, Medical Faculty, University of Duesseldorf, Duesseldorf, Germany; Department of Hematology and Stem Cell Transplantation, University Hospital Essen, Medical Faculty, University Duisburg-Essen, Essen, Germany
| | - G Kobbe
- Department of Hematology, Oncology and Clinical Immunology, Medical Faculty, University of Duesseldorf, Duesseldorf, Germany
| | - B Hildebrandt
- Institute of Human Genetics, Medical Faculty, University of Duesseldorf, Duesseldorf, Germany
| | - R Haas
- Department of Hematology, Oncology and Clinical Immunology, Medical Faculty, University of Duesseldorf, Duesseldorf, Germany
| | - U Germing
- Department of Hematology, Oncology and Clinical Immunology, Medical Faculty, University of Duesseldorf, Duesseldorf, Germany
| | - J M Bennett
- Department of Pathology, Hematopathology Unit and James P Wilmot Cancer Institute, University of Rochester Medical Center, Rochester, NY, USA
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25
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Roberts LR, Sarpy NL, Peters J, Nick JM, Tamares S. Bereavement care immediately after perinatal loss in health care facilities: a scoping review protocol. JBI Evid Synth 2021; 20:860-866. [PMID: 34783713 DOI: 10.11124/jbies-21-00053] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/31/2022]
Abstract
OBJECTIVE This scoping review will summarize what is known about formal and informal perinatal bereavement care guidelines used in health care facilities before discharge, and map the mental health outcomes of parents against characteristics of the guidelines. INTRODUCTION Conflicting evidence for bereavement care guidelines, the lack of randomized controlled trials and experimental studies, and older synthesized information with a limited focus or population make synthesis complex. A scoping review will facilitate the process of determining the breadth and depth of the literature. INCLUSION CRITERIA Sources pertaining to bereavement care guidelines used in health care facilities immediately after perinatal loss (miscarriage, stillbirth, or neonatal death) and measuring parents' mental health outcomes will be included. Sources relating to family members other than parents, perinatal loss occurring outside of a health care facility, and physical care guidelines will be excluded. METHODS The proposed review will be conducted using JBI methodology for scoping reviews. The team will consider quantitative and qualitative studies, practice guidelines, case reports, expert opinions, systematic reviews, professional organization websites, and gray literature. Major databases to be searched will include CINAHL (EBSCO), PsycINFO (EBSCO), SocINDEX (EBSCO), Cochrane, Embase, MEDLINE (PubMed), and Web of Science. The earliest empirical study found (1976) will serve as the starting date limit. After pilot testing the two-step screening process (titles and abstracts, then full-text articles), data will be extracted, collated, and presented in narrative form as well as in tables and diagrams. The results will provide facilities with a broad view of bereavement care to support grieving parents' mental health.
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Affiliation(s)
- Lisa R Roberts
- School of Nursing, Loma Linda University, Loma Linda, CA, USA LLUH Center for Evidence Synthesis: A JBI Affiliated Group, Loma Linda, CA, USA Del Webb Library, Loma Linda University, Loma Linda, CA, USA
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26
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Liveringhouse C, Robinson T, Garcia G, Peters J, Kim S, Latifi K. Dosimetric Comparison of Volumetric Modulated Arc Therapy with Tomotherapy Based Total Body Irradiation for Patients Undergoing Conditioning Prior to Hematopoietic Stem Cell Transplantation for Acute Lymphocytic Leukemia. Int J Radiat Oncol Biol Phys 2021. [DOI: 10.1016/j.ijrobp.2021.07.950] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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27
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Abstract
Calorimetric and incoherent neutron scattering methods were employed to investigate the action of magainin 2 and PGLa peptides on the phase behavior and molecular dynamics of lipids mimicking cytoplasmic membranes of Gram-negative bacteria. The impact of the peptides, tested individually and cooperatively by differential scanning calorimetry, presented a broadened peak, sometimes with a second shoulder, depicting the phase transition temperature around 21 °C. Neutron scattering revealed a small but significant variation of the membrane dynamics due to the peptides in both in-plane and out-of-plane directions. Although we did not find a clear hint for synergy in the interplay of the two peptides, the calorimetric and neutron data give compatible results in terms of a decrease of the enthalpy due to the presence of the peptides, which destabilize the membrane. The dynamics in the two directions was differentiated when the individual peptides were added to the membranes, but the impact was smaller when both peptides were added together.
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Affiliation(s)
- Aline Cisse
- Univ. Grenoble-Alpes, CNRS, LiPhy, 38000 Grenoble, France.,Institut Laue-Langevin, 38000 Grenoble, France
| | - Arnaud Marquette
- University of Strasbourg/CNRS, Chemistry Institute, Membrane Biophysics and NMR, UMR7177 Strasbourg, France
| | - Munkhtuguldur Altangerel
- Univ. Grenoble-Alpes, CNRS, LiPhy, 38000 Grenoble, France.,Institut Laue-Langevin, 38000 Grenoble, France
| | - Judith Peters
- Univ. Grenoble-Alpes, CNRS, LiPhy, 38000 Grenoble, France.,Institut Laue-Langevin, 38000 Grenoble, France.,Institut Universitaire de France, 75231 Paris, France
| | - Burkhard Bechinger
- University of Strasbourg/CNRS, Chemistry Institute, Membrane Biophysics and NMR, UMR7177 Strasbourg, France.,Institut Universitaire de France, 75231 Paris, France
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28
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Wolanin J, Michel L, Tabacchioni D, Zanotti JM, Peters J, Imaz I, Coasne B, Plazanet M, Picard C. Heterogeneous Microscopic Dynamics of Intruded Water in a Superhydrophobic Nanoconfinement: Neutron Scattering and Molecular Modeling. J Phys Chem B 2021; 125:10392-10399. [PMID: 34492185 DOI: 10.1021/acs.jpcb.1c06791] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
With their strong confining porosity and versatile surface chemistry, zeolitic imidazolate frameworks-including the prototypical ZIF-8-display exceptional properties for various applications. In particular, the forced intrusion of water at high pressure (∼25 MPa) into ZIF-8 nanopores is of interest for energy storage. Such a system reveals also ideal to study experimentally water dynamics and thermodynamics in an ultrahydrophobic confinement. Here, we report on neutron scattering experiments to probe the molecular dynamics of water within ZIF-8 nanopores under high pressure up to 38 MPa. In addition to an overall confinement-induced slowing down, we provide evidence for strong dynamical heterogeneities with different underlying molecular dynamics. Using complementary molecular simulations, these heterogeneities are found to correspond to different microscopic mechanisms inherent to vicinal molecules located in strongly adsorbing sites (ligands) and other molecules nanoconfined in the cavity center. These findings unveil a complex microscopic dynamics, which results from the combination of surface residence times and exchanges between the cavity surface and center.
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Affiliation(s)
- J Wolanin
- Univ. Grenoble Alpes, CNRS, LIPhy, 38000 Grenoble, France
| | - L Michel
- Univ. Grenoble Alpes, CNRS, LIPhy, 38000 Grenoble, France
| | - D Tabacchioni
- Univ. Grenoble Alpes, CNRS, LIPhy, 38000 Grenoble, France
| | - J M Zanotti
- Laboratoire Léon Brillouin, CEA, CNRS, Université Paris-Saclay, CEA Saclay, 91191 Gif-sur-Yvette Cedex, France
| | - J Peters
- Univ. Grenoble Alpes, CNRS, LIPhy, 38000 Grenoble, France.,Institut Laue Langevin, 38042 Grenoble, France
| | - I Imaz
- Catalan Insitute of Nanoscience and Nanotechnology, 08193 Barcelona, Spain
| | - B Coasne
- Univ. Grenoble Alpes, CNRS, LIPhy, 38000 Grenoble, France
| | - M Plazanet
- Univ. Grenoble Alpes, CNRS, LIPhy, 38000 Grenoble, France
| | - C Picard
- Univ. Grenoble Alpes, CNRS, LIPhy, 38000 Grenoble, France
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29
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Reddy L, Zoefel B, Possel JK, Peters J, Dijksterhuis DE, Poncet M, van Straaten ECW, Baayen JC, Idema S, Self MW. Human Hippocampal Neurons Track Moments in a Sequence of Events. J Neurosci 2021; 41:6714-6725. [PMID: 34183446 PMCID: PMC8336696 DOI: 10.1523/jneurosci.3157-20.2021] [Citation(s) in RCA: 22] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2020] [Revised: 05/31/2021] [Accepted: 06/06/2021] [Indexed: 11/21/2022] Open
Abstract
An indispensable feature of episodic memory is our ability to temporally piece together different elements of an experience into a coherent memory. Hippocampal time cells-neurons that represent temporal information-may play a critical role in this process. Although these cells have been repeatedly found in rodents, it is still unclear to what extent similar temporal selectivity exists in the human hippocampus. Here, we show that temporal context modulates the firing activity of human hippocampal neurons during structured temporal experiences. We recorded neuronal activity in the human brain while patients of either sex learned predictable sequences of pictures. We report that human time cells fire at successive moments in this task. Furthermore, time cells also signaled inherently changing temporal contexts during empty 10 s gap periods between trials while participants waited for the task to resume. Finally, population activity allowed for decoding temporal epoch identity, both during sequence learning and during the gap periods. These findings suggest that human hippocampal neurons could play an essential role in temporally organizing distinct moments of an experience in episodic memory.SIGNIFICANCE STATEMENT Episodic memory refers to our ability to remember the what, where, and when of a past experience. Representing time is an important component of this form of memory. Here, we show that neurons in the human hippocampus represent temporal information. This temporal signature was observed both when participants were actively engaged in a memory task, as well as during 10-s-long gaps when they were asked to wait before performing the task. Furthermore, the activity of the population of hippocampal cells allowed for decoding one temporal epoch from another. These results suggest a robust representation of time in the human hippocampus.
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Affiliation(s)
- Leila Reddy
- Centre de Recherche Cerveau et Cognition, Université de Toulouse III, Paul Sabatier, 31059 Toulouse, France
- Centre National de la Recherche Scientifique, Unité Mixte de Recherche 5549, Faculté de Médecine de Purpan, Toulouse 31052, France
- Artificial and Natural Intelligence Toulouse Institute, Toulouse 31052, France
| | - Benedikt Zoefel
- Centre de Recherche Cerveau et Cognition, Université de Toulouse III, Paul Sabatier, 31059 Toulouse, France
- Centre National de la Recherche Scientifique, Unité Mixte de Recherche 5549, Faculté de Médecine de Purpan, Toulouse 31052, France
| | - Jessy K Possel
- Vision and Cognition Group, Netherlands Institute for Neuroscience, 1105 BA Amsterdam, The Netherlands
| | - Judith Peters
- Vision and Cognition Group, Netherlands Institute for Neuroscience, 1105 BA Amsterdam, The Netherlands
- Cognitive Neuroscience Department, Faculty of Psychology and Neuroscience, Maastricht University, 6229 EV Maastricht, The Netherlands
| | - Doris E Dijksterhuis
- Vision and Cognition Group, Netherlands Institute for Neuroscience, 1105 BA Amsterdam, The Netherlands
| | - Marlene Poncet
- Centre de Recherche Cerveau et Cognition, Université de Toulouse III, Paul Sabatier, 31059 Toulouse, France
- Centre National de la Recherche Scientifique, Unité Mixte de Recherche 5549, Faculté de Médecine de Purpan, Toulouse 31052, France
- School of Psychology and Neuroscience, University of St. Andrews, KY16 9JP St. Andrews, Scotland
| | - Elisabeth C W van Straaten
- Department of Neurology and Clinical Neurophysiology, Amsterdam University Medical Center, 1081 HV Amsterdam, The Netherlands
| | - Johannes C Baayen
- Department of Neurosurgery, Amsterdam University Medical Center, 1081 HV Amsterdam, The Netherlands
| | - Sander Idema
- Department of Neurosurgery, Amsterdam University Medical Center, 1081 HV Amsterdam, The Netherlands
| | - Matthew W Self
- Vision and Cognition Group, Netherlands Institute for Neuroscience, 1105 BA Amsterdam, The Netherlands
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Zaccaria J, Lent D, Peters J. Einseitige Mikrophthalmie bei einem 4 Monate alten Säugling. Monatsschr Kinderheilkd 2021. [DOI: 10.1007/s00112-020-01101-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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31
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Evers K, Peters J, Senden M. Cortical Synchrony as a Mechanism of Collinear Facilitation and Suppression in Early Visual Cortex. Front Syst Neurosci 2021; 15:670702. [PMID: 34393729 PMCID: PMC8358273 DOI: 10.3389/fnsys.2021.670702] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2021] [Accepted: 07/02/2021] [Indexed: 11/29/2022] Open
Abstract
Stimulus-induced oscillations and synchrony among neuronal populations in visual cortex are well-established phenomena. Their functional role in cognition are, however, not well-understood. Recent studies have suggested that neural synchrony may underlie perceptual grouping as stimulus-frequency relationships and stimulus-dependent lateral connectivity profiles can determine the success or failure of synchronization among neuronal groups encoding different stimulus elements. We suggest that the same mechanism accounts for collinear facilitation and suppression effects where the detectability of a target Gabor stimulus is improved or diminished by the presence of collinear flanking Gabor stimuli. We propose a model of oscillators which represent three neuronal populations in visual cortex with distinct receptive fields reflecting the target and two flankers, respectively, and whose connectivity is determined by the collinearity of the presented Gabor stimuli. Our model simulations confirm that neuronal synchrony can indeed explain known collinear facilitation and suppression effects for attended and unattended stimuli.
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Affiliation(s)
- Kris Evers
- Department of Cognitive Neuroscience, Faculty of Psychology and Neuroscience, Maastricht University, Maastricht, Netherlands.,Maastricht Brain Imaging Center (M-BIC), Maastricht University, Maastricht, Netherlands
| | - Judith Peters
- Department of Cognitive Neuroscience, Faculty of Psychology and Neuroscience, Maastricht University, Maastricht, Netherlands.,Maastricht Brain Imaging Center (M-BIC), Maastricht University, Maastricht, Netherlands.,Department of Vision and Cognition, Netherlands Institute for Neuroscience, Royal Netherlands Academy of Arts and Sciences (KNAW), Amsterdam, Netherlands
| | - Mario Senden
- Department of Cognitive Neuroscience, Faculty of Psychology and Neuroscience, Maastricht University, Maastricht, Netherlands.,Maastricht Brain Imaging Center (M-BIC), Maastricht University, Maastricht, Netherlands
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32
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Salvador-Castell M, Golub M, Erwin N, Demé B, Brooks NJ, Winter R, Peters J, Oger PM. Characterisation of a synthetic Archeal membrane reveals a possible new adaptation route to extreme conditions. Commun Biol 2021; 4:653. [PMID: 34079059 PMCID: PMC8172549 DOI: 10.1038/s42003-021-02178-y] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2020] [Accepted: 04/29/2021] [Indexed: 02/04/2023] Open
Abstract
It has been proposed that adaptation to high temperature involved the synthesis of monolayer-forming ether phospholipids. Recently, a novel membrane architecture was proposed to explain the membrane stability in polyextremophiles unable to synthesize such lipids, in which apolar polyisoprenoids populate the bilayer midplane and modify its physico-chemistry, extending its stability domain. Here, we have studied the effect of the apolar polyisoprenoid squalane on a model membrane analogue using neutron diffraction, SAXS and fluorescence spectroscopy. We show that squalane resides inside the bilayer midplane, extends its stability domain, reduces its permeability to protons but increases that of water, and induces a negative curvature in the membrane, allowing the transition to novel non-lamellar phases. This membrane architecture can be transposed to early membranes and could help explain their emergence and temperature tolerance if life originated near hydrothermal vents. Transposed to the archaeal bilayer, this membrane architecture could explain the tolerance to high temperature in hyperthermophiles which grow at temperatures over 100 °C while having a membrane bilayer. The induction of a negative curvature to the membrane could also facilitate crucial cell functions that require high bending membranes.
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Affiliation(s)
| | - Maksym Golub
- Université Grenoble Alpes, CNRS, LiPhy, Grenoble, France
- Institut Laue Langevin, Grenoble, France
| | - Nelli Erwin
- Faculty of Chemistry and Chemical Biology, Technische Universität Dortmund, Dortmund, Germany
| | - Bruno Demé
- Institut Laue Langevin, Grenoble, France
| | | | - Roland Winter
- Faculty of Chemistry and Chemical Biology, Technische Universität Dortmund, Dortmund, Germany
| | - Judith Peters
- Université Grenoble Alpes, CNRS, LiPhy, Grenoble, France.
- Institut Laue Langevin, Grenoble, France.
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33
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Wiehler A, Chakroun K, Peters J. Attenuated Directed Exploration during Reinforcement Learning in Gambling Disorder. J Neurosci 2021; 41:2512-2522. [PMID: 33531415 PMCID: PMC7984586 DOI: 10.1523/jneurosci.1607-20.2021] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2020] [Revised: 01/18/2021] [Accepted: 01/22/2021] [Indexed: 12/30/2022] Open
Abstract
Gambling disorder (GD) is a behavioral addiction associated with impairments in value-based decision-making and behavioral flexibility and might be linked to changes in the dopamine system. Maximizing long-term rewards requires a flexible trade-off between the exploitation of known options and the exploration of novel options for information gain. This exploration-exploitation trade-off is thought to depend on dopamine neurotransmission. We hypothesized that human gamblers would show a reduction in directed (uncertainty-based) exploration, accompanied by changes in brain activity in a fronto-parietal exploration-related network. Twenty-three frequent, non-treatment seeking gamblers and twenty-three healthy matched controls (all male) performed a four-armed bandit task during functional magnetic resonance imaging (fMRI). Computational modeling using hierarchical Bayesian parameter estimation revealed signatures of directed exploration, random exploration, and perseveration in both groups. Gamblers showed a reduction in directed exploration, whereas random exploration and perseveration were similar between groups. Neuroimaging revealed no evidence for group differences in neural representations of basic task variables (expected value, prediction errors). Our hypothesis of reduced frontal pole (FP) recruitment in gamblers was not supported. Exploratory analyses showed that during directed exploration, gamblers showed reduced parietal cortex and substantia-nigra/ventral-tegmental-area activity. Cross-validated classification analyses revealed that connectivity in an exploration-related network was predictive of group status, suggesting that connectivity patterns might be more predictive of problem gambling than univariate effects. Findings reveal specific reductions of strategic exploration in gamblers that might be linked to altered processing in a fronto-parietal network and/or changes in dopamine neurotransmission implicated in GD.SIGNIFICANCE STATEMENT Wiehler et al. (2021) report that gamblers rely less on the strategic exploration of unknown, but potentially better rewards during reward learning. This is reflected in a related network of brain activity. Parameters of this network can be used to predict the presence of problem gambling behavior in participants.
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Affiliation(s)
- A Wiehler
- Department of Systems Neuroscience, University Medical Center Hamburg-Eppendorf, Hamburg 20246, Germany
- Université de Paris, Paris F-75006, France
- Department of Psychiatry, Service Hospitalo-Universitaire, Groupe Hospitalier Universitaire Paris Psychiatrie & Neurosciences, Paris F-75014, France
| | - K Chakroun
- Department of Systems Neuroscience, University Medical Center Hamburg-Eppendorf, Hamburg 20246, Germany
| | - J Peters
- Department of Systems Neuroscience, University Medical Center Hamburg-Eppendorf, Hamburg 20246, Germany
- Department of Psychology, Biological Psychology, University of Cologne, Cologne 50923, Germany
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Misuraca L, Demé B, Oger P, Peters J. Alkanes increase the stability of early life membrane models under extreme pressure and temperature conditions. Commun Chem 2021; 4:24. [PMID: 36697785 PMCID: PMC9814696 DOI: 10.1038/s42004-021-00467-5] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2020] [Accepted: 01/14/2021] [Indexed: 01/31/2023] Open
Abstract
Terrestrial life appeared on our planet within a time window of [4.4-3.5] billion years ago. During that time, it is suggested that the first proto-cellular forms developed in the surrounding of deep-sea hydrothermal vents, oceanic crust fractures that are still present nowadays. However, these environments are characterized by extreme temperature and pressure conditions that question the early membrane compartment's capability to endure a stable structural state. Recent studies proposed an adaptive strategy employed by present-day extremophiles: the use of apolar molecules as structural membrane components in order to tune the bilayer dynamic response when needed. Here we extend this hypothesis on early life protomembrane models, using linear and branched alkanes as apolar stabilizing molecules of prebiotic relevance. The structural ordering and chain dynamics of these systems have been investigated as a function of temperature and pressure. We found that both types of alkanes studied, even the simplest linear ones, impact highly the multilamellar vesicle ordering and chain dynamics. Our data show that alkane-enriched membranes have a lower multilamellar vesicle swelling induced by the temperature increase and are significantly less affected by pressure variation as compared to alkane-free samples, suggesting a possible survival strategy for the first living forms.
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Affiliation(s)
- Loreto Misuraca
- grid.4444.00000 0001 2112 9282Univ. Grenoble Alpes, CNRS, LIPhy, Grenoble, France ,grid.156520.50000 0004 0647 2236Institut Laue - Langevin, Grenoble, France
| | - Bruno Demé
- grid.156520.50000 0004 0647 2236Institut Laue - Langevin, Grenoble, France
| | - Philippe Oger
- grid.7849.20000 0001 2150 7757Univ Lyon, INSA Lyon, CNRS UMR5240, Villeurbanne, France
| | - Judith Peters
- grid.4444.00000 0001 2112 9282Univ. Grenoble Alpes, CNRS, LIPhy, Grenoble, France ,grid.156520.50000 0004 0647 2236Institut Laue - Langevin, Grenoble, France
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Timr S, Di Bari D, Peters J, Paciaroni A, Sterpone F. Multi-Scale Simulations and Neutron Scattering Experiments Reveal Dynamical Properties of the Bacterial Cytoplasm Near Cell-Death Temperature. Biophys J 2021. [DOI: 10.1016/j.bpj.2020.11.1907] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022] Open
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Lushchekina SV, Inidjel G, Martinez N, Masson P, Trovaslet-Leroy M, Nachon F, Koza MM, Seydel T, Peters J. Impact of Sucrose as Osmolyte on Molecular Dynamics of Mouse Acetylcholinesterase. Biomolecules 2020; 10:biom10121664. [PMID: 33322722 PMCID: PMC7763276 DOI: 10.3390/biom10121664] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2020] [Revised: 12/01/2020] [Accepted: 12/11/2020] [Indexed: 01/28/2023] Open
Abstract
The enzyme model, mouse acetylcholinesterase, which exhibits its active site at the bottom of a narrow gorge, was investigated in the presence of different concentrations of sucrose to shed light on the protein and water dynamics in cholinesterases. The study was conducted by incoherent neutron scattering, giving access to molecular dynamics within the time scale of sub-nano to nanoseconds, in comparison with molecular dynamics simulations. With increasing sucrose concentration, we found non-linear effects, e.g., first a decrease in the dynamics at 5 wt% followed by a gain at 10 wt% sucrose. Direct comparisons with simulations permitted us to understand the following findings: at 5 wt%, sugar molecules interact with the protein surface through water molecules and damp the motions to reduce the overall protein mobility, although the motions inside the gorge are enhanced due to water depletion. When going to 10 wt% of sucrose, some water molecules at the protein surface are replaced by sugar molecules. By penetrating the protein surface, they disrupt some of the intra-protein contacts, and induce new ones, creating new pathways for correlated motions, and therefore, increasing the dynamics. This exhaustive study allowed for an explanation of the detail interactions leading to the observed non-linear behavior.
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Affiliation(s)
- Sofya V. Lushchekina
- N.M. Emanuel Institute of Biochemical Physics, Russian Academy of Sciences, 119334 Moscow, Russia;
| | - Gaetan Inidjel
- Institut Laue Langevin, 38000 Grenoble, France; (G.I.); (N.M.); (M.M.K.); (T.S.)
- Université Grenoble Alpes, UFR PhITEM, LiPhy, CNRS, 38000 Grenoble, France
| | - Nicolas Martinez
- Institut Laue Langevin, 38000 Grenoble, France; (G.I.); (N.M.); (M.M.K.); (T.S.)
- Université Grenoble Alpes, UFR PhITEM, LiPhy, CNRS, 38000 Grenoble, France
| | - Patrick Masson
- Neuropharmacology Laboratory, Kazan Federal University, Kremlevskaya str 18, 480002 Kazan, Russia;
| | - Marie Trovaslet-Leroy
- Institut de Recherche Biomédicale des Armées, 91223 Brétigny sur Orge, France; (M.T.-L.); (F.N.)
| | - Florian Nachon
- Institut de Recherche Biomédicale des Armées, 91223 Brétigny sur Orge, France; (M.T.-L.); (F.N.)
| | - Michael Marek Koza
- Institut Laue Langevin, 38000 Grenoble, France; (G.I.); (N.M.); (M.M.K.); (T.S.)
| | - Tilo Seydel
- Institut Laue Langevin, 38000 Grenoble, France; (G.I.); (N.M.); (M.M.K.); (T.S.)
| | - Judith Peters
- Institut Laue Langevin, 38000 Grenoble, France; (G.I.); (N.M.); (M.M.K.); (T.S.)
- Université Grenoble Alpes, UFR PhITEM, LiPhy, CNRS, 38000 Grenoble, France
- Correspondence: ; Tel.: +33-4-7620-7560
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Misuraca L, Caliò A, Grillo I, Grélard A, Oger PM, Peters J, Demé B. High-Temperature Behavior of Early Life Membrane Models. Langmuir 2020; 36:13516-13526. [PMID: 33146533 DOI: 10.1021/acs.langmuir.0c02258] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
Origin of life scenarios generally assume an onset of cell formation in terrestrial hot springs or in the deep oceans close to hot vents, where energy was available for non-enzymatic reactions. Membranes of the protocells had therefore to withstand extreme conditions different from what is found on the Earth surface today. We present here an exhaustive study of temperature stability up to 80 °C of vesicles formed by a mixture of short-chain fatty acids and alcohols, which are plausible candidates for membranes permitting the compartmentalization of protocells. We confirm that the presence of alcohol has a strong structuring and stabilizing impact on the lamellar structures. Moreover and most importantly, at a high temperature (> 60 °C), we observe a conformational transition in the vesicles, which results from vesicular fusion. Because all the most likely environments for the origin of life involve high temperatures, our results imply the need to take into account such a transition and its effect when studying the behavior of a protomembrane model.
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Affiliation(s)
- Loreto Misuraca
- Univ. Grenoble Alpes, CNRS, LIPhy, 38000 Grenoble, France
- Institut Laue - Langevin, 38042 Grenoble, France
| | - Antonino Caliò
- Institut Laue - Langevin, 38042 Grenoble, France
- INSA Lyon, Université de Lyon, CNRS, UMR5240 Villeurbanne, France
| | | | | | | | - Judith Peters
- Univ. Grenoble Alpes, CNRS, LIPhy, 38000 Grenoble, France
- Institut Laue - Langevin, 38042 Grenoble, France
| | - Bruno Demé
- Institut Laue - Langevin, 38042 Grenoble, France
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LoRicco JG, Salvador-Castell M, Demé B, Peters J, Oger PM. Apolar Polyisoprenoids Located in the Midplane of the Bilayer Regulate the Response of an Archaeal-Like Membrane to High Temperature and Pressure. Front Chem 2020; 8:594039. [PMID: 33282836 PMCID: PMC7689154 DOI: 10.3389/fchem.2020.594039] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2020] [Accepted: 10/13/2020] [Indexed: 01/02/2023] Open
Abstract
Archaea are known to inhabit some of the most extreme environments on Earth. The ability of archaea possessing membrane bilayers to adapt to high temperature (>85°C) and high pressure (>1,000 bar) environments is proposed to be due to the presence of apolar polyisoprenoids at the midplane of the bilayer. In this work, we study the response of this novel membrane architecture to both high temperature and high hydrostatic pressure using neutron diffraction. A mixture of two diether, phytanyl chain lipids (DoPhPC and DoPhPE) and squalane was used to model this novel architecture. Diffraction data indicate that at high temperatures a stable coexistence of fluid lamellar phases exists within the membrane and that stable coexistence of these phases is also possible at high pressure. Increasing the amount of squalane in the membrane regulates the phase separation with respect to both temperature and pressure, and also leads to an increase in the lamellar repeat spacing. The ability of squalane to regulate the ultrastructure of an archaea-like membrane at high pressure and temperature supports the hypothesis that archaea can use apolar lipids as an adaptive mechanism to extreme conditions.
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Affiliation(s)
| | | | - Bruno Demé
- Department of Large Scale Structures, Institut Laue-Langevin, Grenoble, France
| | - Judith Peters
- Department of Large Scale Structures, Institut Laue-Langevin, Grenoble, France
- Department of Spectroscopy, Université Grenoble Alpes, LiPhy, Grenoble, France
| | - Philippe M. Oger
- Univ Lyon, INSA de Lyon, CNRS, MAP UMR 5240, Villeurbanne, France
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Senden M, Peters J, Röhrbein F, Deco G, Goebel R. Editorial: The Embodied Brain: Computational Mechanisms of Integrated Sensorimotor Interactions With a Dynamic Environment. Front Comput Neurosci 2020; 14:53. [PMID: 32625074 PMCID: PMC7314992 DOI: 10.3389/fncom.2020.00053] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2020] [Accepted: 05/15/2020] [Indexed: 11/13/2022] Open
Affiliation(s)
- Mario Senden
- Department of Cognitive Neuroscience, Faculty of Psychology and Neuroscience, Maastricht University, Maastricht, Netherlands.,Maastricht Brain Imaging Center (M-BIC), Maastricht University, Maastricht, Netherlands
| | - Judith Peters
- Department of Cognitive Neuroscience, Faculty of Psychology and Neuroscience, Maastricht University, Maastricht, Netherlands.,Maastricht Brain Imaging Center (M-BIC), Maastricht University, Maastricht, Netherlands.,Department of Vision and Cognition, Netherlands Institute for Neuroscience, Royal Netherlands Academy of Arts and Sciences (KNAW), Amsterdam, Netherlands
| | - Florian Röhrbein
- Institut für Informatik VI, Technische Universität München, Munich, Germany
| | - Gustavo Deco
- Center for Brain and Cognition, Computational Neuroscience Group, Department of Information and Communication Technologies, Universitat Pompeu Fabra, Barcelona, Spain.,Institució Catalana de la Recerca i Estudis Avançats (ICREA), Universitat Pompeu Fabra, Barcelona, Spain
| | - Rainer Goebel
- Department of Cognitive Neuroscience, Faculty of Psychology and Neuroscience, Maastricht University, Maastricht, Netherlands.,Maastricht Brain Imaging Center (M-BIC), Maastricht University, Maastricht, Netherlands.,Department of Vision and Cognition, Netherlands Institute for Neuroscience, Royal Netherlands Academy of Arts and Sciences (KNAW), Amsterdam, Netherlands
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Salvador-Castell M, Demé B, Oger P, Peters J. Lipid Phase Separation Induced by the Apolar Polyisoprenoid Squalane Demonstrates Its Role in Membrane Domain Formation in Archaeal Membranes. Langmuir 2020; 36:7375-7382. [PMID: 32515591 DOI: 10.1021/acs.langmuir.0c00901] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Archaea synthesize methyl-branched, ether phospholipids, which confer the archaeal membrane exceptional physicochemical properties. A novel membrane organization was proposed recently to explain the thermal and high pressure tolerance of the polyextremophilic archaeon Thermococcus barophilus. According to this theoretical model, apolar molecules could populate the midplane of the bilayer and could alter the physicochemical properties of the membrane, among which is the possibility to form membrane domains. We tested this hypothesis using neutron diffraction on a model archaeal membrane composed of two archaeal diether lipids with phosphocholine and phosphoethanolamine headgroups in the presence of the apolar polyisoprenoid squalane. We show that squalane is inserted in the midplane at a maximal concentration between 5 and 10 mol % and that squalane can modify the lateral organization of the membrane and induces the coexistence of separate phases. The lateral reorganization is temperature- and squalane concentration-dependent and could be due to the release of lipid chain frustration and the induction of a negative curvature in the lipids.
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Affiliation(s)
| | - Bruno Demé
- Institut Laue Langevin, Grenoble Cedex 9 F-38042, France
| | - Phil Oger
- INSA Lyon, Université de Lyon, CNRS, UMR5240, Villeurbanne 69621, France
| | - Judith Peters
- Institut Laue Langevin, Grenoble Cedex 9 F-38042, France
- Univ. Grenoble Alpes, CNRS, LIPhy, Grenoble 38000, France
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Zeller D, Tan P, Hong L, Di Bari D, Garcia Sakai V, Peters J. Differences between calcium rich and depleted alpha-lactalbumin investigated by molecular dynamics simulations and incoherent neutron scattering. Phys Rev E 2020; 101:032415. [PMID: 32289905 DOI: 10.1103/physreve.101.032415] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2019] [Accepted: 02/21/2020] [Indexed: 11/07/2022]
Abstract
We present a study comparing atomic motional amplitudes in calcium rich and depleted alpha-lactalbumin. The investigations were performed by elastic incoherent neutron scattering (EINS) and molecular dynamics (MD) simulations. As the variations were expected to be very small, three different hydration levels and timescales (instrumental resolutions) were measured. In addition, we used two models to extract the mean square displacements (MSDs) from the EINS data, one taking into account the motional heterogeneity of the MSD. At a timescale of several nanoseconds, small differences in the amplitudes between the calcium enriched and depleted alpha-lactalbumin are visible, whereas at lower timescales no changes can be concluded within the statistics. The results are compared to MD simulations at 280 and 300 K by extracting the MSDs of the trajectories in two separate ways: first by direct calculation, and second by a virtual neutron experiment using the same models as for the experimental data. We show that the simulated data give qualitatively similar results as the experimental data but quantitatively there are differences. Furthermore, the distribution of the MSDs in the simulations suggests that the inclusion of heterogeneity is reasonable for alpha-lactalbumin, but a bi-or trimodal approach may be sufficient.
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Affiliation(s)
- Dominik Zeller
- University Grenoble Alpes, LiPhy, CNRS, F-38000 Grenoble, France and Institut Laue Langevin, F-38042 Grenoble Cedex 9, France
| | - Pan Tan
- School of Physics and Astronomy and Institute of Natural Sciences, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Liang Hong
- School of Physics and Astronomy and Institute of Natural Sciences, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Daniele Di Bari
- University Grenoble Alpes, LiPhy, CNRS, F-38000 Grenoble, France and Institut Laue Langevin, F-38042 Grenoble Cedex 9, France.,Physics Department, University of Perugia, 06123 Perugia, Italy
| | - Victoria Garcia Sakai
- ISIS Pulsed Neutron and Muon Source, STFC Rutherford Appleton Laboratory, Chilton, Oxfordshire OX11 0QX, United Kingdom
| | - Judith Peters
- University Grenoble Alpes, LiPhy, CNRS, F-38000 Grenoble, France and Institut Laue Langevin, F-38042 Grenoble Cedex 9, France
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Salvador-Castell M, Demé B, Oger P, Peters J. Structural Characterization of an Archaeal Lipid Bilayer as a Function of Hydration and Temperature. Int J Mol Sci 2020; 21:ijms21051816. [PMID: 32155764 PMCID: PMC7084678 DOI: 10.3390/ijms21051816] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2019] [Revised: 03/02/2020] [Accepted: 03/03/2020] [Indexed: 11/16/2022] Open
Abstract
Archaea, the most extremophilic domain of life, contain ether and branched lipids which provide extraordinary bilayer properties. We determined the structural characteristics of diether archaeal-like phospholipids as functions of hydration and temperature by neutron diffraction. Hydration and temperature are both crucial parameters for the self-assembly and physicochemical properties of lipid bilayers. In this study, we detected non-lamellar phases of archaeal-like lipids at low hydration levels, and lamellar phases at levels of 90% relative humidity or more exclusively. Moreover, at 90% relative humidity, a phase transition between two lamellar phases was discernible. At full hydration, lamellar phases were present up to 70ᵒC and no phase transition was observed within the temperature range studied (from 25 °C to 70 °C). In addition, we determined the neutron scattering length density and the bilayer's structural parameters from different hydration and temperature conditions. At the highest levels of hydration, the system exhibited rearrangements on its corresponding hydrophobic region. Furthermore, the water uptake of the lipids examined was remarkably high. We discuss the effect of ether linkages and branched lipids on the exceptional characteristics of archaeal phospholipids.
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Affiliation(s)
| | - Bruno Demé
- Institut Laue Langevin, 38000 Grenoble, France;
| | - Philippe Oger
- Université de Lyon, INSA de Lyon, CNRS, UMR 5240, 69211 Villeurbanne, France;
- Correspondence: (P.O.); (J.P.)
| | - Judith Peters
- Institut Laue Langevin, 38000 Grenoble, France;
- Université Grenoble Alpes, LiPhy, CNRS, 38000 Grenoble, France
- Correspondence: (P.O.); (J.P.)
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Stein A, Peers E, Hattersley J, Harris K, Feehally J, Walls J, Brown C, Nichols N, Mistry C, Ashman R, Raftery M, Peters J, Gokal R. Clinical Experience with Icodextrin in Continuous Ambulatory Peritoneal Dialysis Patients. Perit Dial Int 2020. [DOI: 10.1177/089686089401402s08] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
Abstract
Objectives To review the clinical experience in the United Kingdom with icodextrin (Ic). Design A retrospective multicenter study. Patients (1) the MICAS 1 patients who received Ic and elected to continue using it (called MICAS 2 patients), and (2) patients started on Ic on a named-patient basis (called compassionate use patients). Nearly all this latter group had ultrafiltration (UF) failure and were approaching hemodialysis (HC). Interventions The institution of one Ic bag, as the overnight exchange, usually in addition to three glucose bags. Results (1) MICAS 2: Of the 67 patients who received Ic and completed MICAS 1, 48 (72%) patients from eight units in the United Kingdom wished to continue Ic. Forty two percent of MICAS 2 patients were well on Ic after approximately 30 months of study (including the 6 months on MICAS 1). The main reasons for withdrawal were transplantation (21 %), death (17%), or transfer to HC for reasons other than UF failure (10%). There were no significant changes in laboratory data, including hematology, simple biochemistry, bone biochemistry, liver function tests, serum osmolality, and maltose levels. The adverse events reported were incidental to Ic. (2) Compassionate use: 30/63 (48%) patients remain well on Ic after 10 months of study. Eight patients (12%) went on to experience UF failure (again) after 13 months on Ic, requiring transfer to HC. The other main outcomes were death (11 %), transplantation (11 %), or transfer to HC for reasons unrelated to Ic (16%), usually intractable peritonitis. The serum sodium concentration decreased from 136.6±3.8 to 134.4±4.2 mmol/L (p < 0.05). There were no other significant changes in hematology or biochemistry measurements. Conclusion In MICAS 2 Ic probably maintained its effects, since there were no withdrawals due to UF failure. The compassionate use program has shown that a single Ic exchange is useful in UF failure, being able to prevent or delay transfer to hemodialysis. In both studies the safety and efficacy of Ic has been demonstrated in a large group of patients. A total of 192 patient-years of experience (including MICAS 1) has been accumulated to date. Properly controlled studies are needed to determine whether Ic, in its present form, should remain a “special needs” product (for UF failure) or whether it could replace glucose as the treatment of choice for CAPC patients.
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Affiliation(s)
- Andrew Stein
- Department of Nephrology, Leicester General Hospital, Leicester,. ML Laboratories, U. K
| | - Elizabeth Peers
- Department of Nephrology, Leicester General Hospital, Leicester,. ML Laboratories, U. K
| | - Jane Hattersley
- Department of Nephrology, Leicester General Hospital, Leicester,. ML Laboratories, U. K
| | - Kevin Harris
- Department of Nephrology, Leicester General Hospital, Leicester,. ML Laboratories, U. K
| | - John Feehally
- Department of Nephrology, Leicester General Hospital, Leicester,. ML Laboratories, U. K
| | - John Walls
- Department of Nephrology, Leicester General Hospital, Leicester,. ML Laboratories, U. K
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Gokal R, Mistry CD, Peers E, Brown C, Smith S, Edwards D, Junor B, Gordon A, McMillan M, Robertson M, Michael J, McKain J, Raftery M, Peters J, Clutterbuck E, Clemenger M, Walls J, Orton C, Goodship T, Grieves J, Dharmasena D, Hourhane G, Howarth D, Boyes R, Clisby L, Beran Y. A United Kingdom Multicenter Study of Icodextrin in Continuous Ambulatory Peritoneal Dialysis. Perit Dial Int 2020. [DOI: 10.1177/089686089401402s03] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Abstract
While glucose remains the only osmotic agent used universally for peritoneal dialysis, its various shortcomings for the long dwell equilibration continuous ambulatory peritoneal dialysis (CAPD) has led to a search for alternative agents. The large molecular weight group has been of interest, because these agents theoretically would lead to greater ultrafiltration and a better metabolic profile. Mostsubstances (dextrans, charged macromolecules) have been found unsuitable for reasons of insolubility, allergenicity, and peritoneal toxicity. Short-chain polypeptides have been studied in humans, but the experience is limited, and there is the potential for allergenicity with long-term use. The only large molecular weight agent that has been studied in some detail but hitherto in one center only and in a limited number of patients is glucose polymer (generic name, icodextrin). Because of the promise shown by these initial studies, a randomized controlled multicenter investigation of icodextrin in CAPD (MIDAS Study Group) was undertaken to evaluate the long-term safety and efficacy by comparing daily overnight (8 12 hours) use of a slightly hypo-osmolar solution (282 mOsm/ kg) with 1.36% (346 mOsm/kg) and 3.86% (484 mOsm/kg) glucose exchanges. Over a 6-month period 209 patients from 11 centers in the United Kingdom were randomized, with 106 allocated to receive icodextrin (study group) and 103 to remain on glucose (control group). One hundred and thirty-eight patients completed the 6-month study (71 control, 67 study). The mean net ultrafiltration overnight with icodextrin was 3.5 times greater than 1.36% at 8 hours and 5.5 times greater at 12 hours (p<0.0001), but no different from that of 3.86% glucose at 8 and 12 hours (although for the latter dwell the net mean ultrafiltration volume was greater by about 140 mL). Biochemical profiles were no different except for a small fall in serum sodium and chloride in the icodextrin group. The mean serum maltose rose to a steady-state level of 1.2 g/L within 2 weeks and remained stable. The mean carbohydrate absorbed for icodextrin (29±5 g) was lower than with 3.86% glucose (62±5 g). The use of icodextrin did not increase the incidence of peritonitis, nor did it alter its outcome, affect uptake of icodextrin from the peritoneum, alter serum osmolality or sodium levels. There were no adverse effects associated with the use of icodextrin, and the overall CAPD-related symptom score was significantly better for icodextrin than control subjects. This study and subsequent extensive use and clinical experience has demonstrated that the daily use of an iso-osmolar icodextrin solution is generally well tolerated, effective, and could replace the overnight use of hyperosmotic glucose solution. Its use was of equal efficacy in peritonitis and in diabetic patients. The elevated levels of maltose did not appear to have any clinical side effects.
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Affiliation(s)
- Ram Gokal
- Manchester RoyalInfirmary, Manchester
| | | | | | | | - S. Smith
- (Northern General Hospital, Sheffield)
| | | | | | | | | | | | | | - J. McKain
- (Queen Elizabeth Hospital, Birmingham)
| | | | | | | | | | - J. Walls
- (Leicester General Hospital, Leicester)
| | - C. Orton
- (Leicester General Hospital, Leicester)
| | | | - J. Grieves
- (Royal Victoria Hospital, NewcastleUpon-Tyne)
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Gokal R, Mistry CD, Peers EM, Brown C, Smith S, Edwards D, Junor B, Gordon A, McMillan M, Robertson M, Michael J, McKain J, Raftery M, Peters J, Clutterbuck E, Clemenger M, Walls J, Orton C, Goodship T, Grieves J, Olubodun J, Jackson F, Dharmasena D, Hourahane G, Howarth D, Boyes R, Clisby L, Beran Y. Peritonitis Occurrence in a Multicenter Study of Icodextrin and Glucose in Capd. Perit Dial Int 2020. [DOI: 10.1177/089686089501506s07] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Abstract
Objective To compare peritonitis occurrence and outcome in a large U.K. study Multicentre Investigation of Icodextrin in Ambulatory Dialysis (MIDAS). Design Prospective, randomized, controlled 6-month comparison of icodextrin with glucose for the long dwell in continuous ambulatory peritoneal dialysis (CAPD) patients. Setting Eleven CAPD units in U.K. teaching hospitals. Patients A total of 209 patients established on CAPD for at least 3 months (103 control, 106 icodextrin). Twentythree control (C) and 22 icodextrin (I) patients experienced peritonitis during the study. Intervention Patients who had peritonitis remained on treatment (unless CAPD was withdrawn, temporarily or permanently). Main Outcome Measures The main outcome measures were the rate of peritonitis and duration of CAPD treatment prestudy; the rate of peritonitis episodes and their outcome during study; the effect of peritonitis on laboratory variables, serum icodextrin metabolites, and ultrafiltration efficacy. Results Prestudy: Nine (39%) of C but 14 (64%) of I patients had suffered previous peritonitis episode(s), with overall rates of 0.58 and 0.78 episodes per patientyear, respectively. During study There were 31 C episodes and 35 I episodes, with overall rates of 0.76 and 0.93 per patientyear, respectively. The increase in the C and I groups was 31% and 19%, respectively. Serum osmolality and sodium levels were unaffected by peritonitis, and there was no increase in serum icodextrin metabolites during peritonitis. Overnight ultrafiltration volume during peritonitis (mean±SD) declined slightly from 218±354 mL to 185±299 mL (NS) in the control group, but increased in the icodextrin group from 570±146 mL to 723±218 mL (p < 0.01). Conclusions Using icodextrin for the long dwell in CAPD does not increase the rate of peritonitis, nor does it alter the outcome of peritonitis. Peritonitis does not affect uptake of icodextrin from the peritoneum.
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Affiliation(s)
| | - Ram Gokal
- Manchester Royal Infirmary, Cardiff Royal Infirmaryl and ML Laboratories2 plc, St. Albans, U.K
| | - Chandra D. Mistry
- Manchester Royal Infirmary, Cardiff Royal Infirmaryl and ML Laboratories2 plc, St. Albans, U.K
| | - Elizabeth M. Peers
- Manchester Royal Infirmary, Cardiff Royal Infirmaryl and ML Laboratories2 plc, St. Albans, U.K
| | | | - S. Smith
- Northern General Hospital, Sheffield
| | | | | | | | | | | | | | - J. McKain
- Queen Elizabeth Hospital, Birmingham
| | | | | | | | | | - J. Walls
- Leicester General Hospital, Leicester
| | - C. Orton
- Leicester General Hospital, Leicester
| | | | - J. Grieves
- Royal Victoria Hospital, Newcastle-upon Tyne
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Thielmann M, Vaghiri S, Dirkmann D, Neuhäuser M, Peters J, Heusch G, Jakob H, Ruhparwar A, Kamler M, Kleinbongard P. Remote Ischemic Preconditioning in Elective Cardiac Surgery: Long-Term Overall Survival Benefit in a Single-Center Randomized Double-Blinded Controlled Trial. Thorac Cardiovasc Surg 2020. [DOI: 10.1055/s-0040-1705456] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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Gruber S, Vorhauer N, Schulz M, Hilmer M, Peters J, Tsotsas E, Foerst P. Estimation of the local sublimation front velocities from neutron radiography and tomography of particulate matter. Chem Eng Sci 2020. [DOI: 10.1016/j.ces.2019.115268] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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Yang J, Duursma RA, De Kauwe MG, Kumarathunge D, Jiang M, Mahmud K, Gimeno TE, Crous KY, Ellsworth DS, Peters J, Choat B, Eamus D, Medlyn BE. Incorporating non-stomatal limitation improves the performance of leaf and canopy models at high vapour pressure deficit. Tree Physiol 2019; 39:1961-1974. [PMID: 31631220 DOI: 10.1093/treephys/tpz103] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/08/2019] [Revised: 08/02/2019] [Accepted: 09/12/2019] [Indexed: 06/10/2023]
Abstract
Vapour pressure deficit (D) is projected to increase in the future as temperature rises. In response to increased D, stomatal conductance (gs) and photosynthesis (A) are reduced, which may result in significant reductions in terrestrial carbon, water and energy fluxes. It is thus important for gas exchange models to capture the observed responses of gs and A with increasing D. We tested a series of coupled A-gs models against leaf gas exchange measurements from the Cumberland Plain Woodland (Australia), where D regularly exceeds 2 kPa and can reach 8 kPa in summer. Two commonly used A-gs models were not able to capture the observed decrease in A and gs with increasing D at the leaf scale. To explain this decrease in A and gs, two alternative hypotheses were tested: hydraulic limitation (i.e., plants reduce gs and/or A due to insufficient water supply) and non-stomatal limitation (i.e., downregulation of photosynthetic capacity). We found that the model that incorporated a non-stomatal limitation captured the observations with high fidelity and required the fewest number of parameters. Whilst the model incorporating hydraulic limitation captured the observed A and gs, it did so via a physical mechanism that is incorrect. We then incorporated a non-stomatal limitation into the stand model, MAESPA, to examine its impact on canopy transpiration and gross primary production. Accounting for a non-stomatal limitation reduced the predicted transpiration by ~19%, improving the correspondence with sap flow measurements, and gross primary production by ~14%. Given the projected global increases in D associated with future warming, these findings suggest that models may need to incorporate non-stomatal limitation to accurately simulate A and gs in the future with high D. Further data on non-stomatal limitation at high D should be a priority, in order to determine the generality of our results and develop a widely applicable model.
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Affiliation(s)
- J Yang
- Hawkesbury Institute for the Environment, Western Sydney University, Penrith, NSW 2750, Australia
| | - R A Duursma
- Hawkesbury Institute for the Environment, Western Sydney University, Penrith, NSW 2750, Australia
| | - M G De Kauwe
- ARC Centre of Excellence for Climate Extremes, Sydney, NSW 2052, Australia
- Climate Change Research Centre, University of New South Wales, Sydney, NSW 2052, Australia
| | - D Kumarathunge
- Hawkesbury Institute for the Environment, Western Sydney University, Penrith, NSW 2750, Australia
| | - M Jiang
- Hawkesbury Institute for the Environment, Western Sydney University, Penrith, NSW 2750, Australia
| | - K Mahmud
- Hawkesbury Institute for the Environment, Western Sydney University, Penrith, NSW 2750, Australia
| | - T E Gimeno
- Basque Centre for Climate Change, Scientific Campus of the University of the Basque Country, Leioa 4894, Spain
- IKERBASQUE, Basque Foundation for Science, 48008 Bilbao, Spain
| | - K Y Crous
- Hawkesbury Institute for the Environment, Western Sydney University, Penrith, NSW 2750, Australia
| | - D S Ellsworth
- Hawkesbury Institute for the Environment, Western Sydney University, Penrith, NSW 2750, Australia
| | - J Peters
- Hawkesbury Institute for the Environment, Western Sydney University, Penrith, NSW 2750, Australia
| | - B Choat
- Hawkesbury Institute for the Environment, Western Sydney University, Penrith, NSW 2750, Australia
| | - D Eamus
- School of Life Sciences, University of Technology Sydney, Sydney, NSW 2007, Australia
| | - B E Medlyn
- Hawkesbury Institute for the Environment, Western Sydney University, Penrith, NSW 2750, Australia
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Salvador-Castell M, Brooks NJ, Peters J, Oger P. Induction of non-lamellar phases in archaeal lipids at high temperature and high hydrostatic pressure by apolar polyisoprenoids. Biochim Biophys Acta Biomembr 2019; 1862:183130. [PMID: 31734311 DOI: 10.1016/j.bbamem.2019.183130] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/20/2019] [Revised: 11/11/2019] [Accepted: 11/12/2019] [Indexed: 12/01/2022]
Abstract
It is now well established that cell membranes are much more than a barrier that separate the cytoplasm from the outside world. Regarding membrane's lipids and their self-assembling, the system is highly complex, for example, the cell membrane needs to adopt different curvatures to be functional. This is possible thanks to the presence of non-lamellar-forming lipids, which tend to curve the membrane. Here, we present the effect of squalane, an apolar isoprenoid molecule, on an archaea-like lipid membrane. The presence of this molecule provokes negative membrane curvature and forces lipids to self-assemble under inverted cubic and inverted hexagonal phases. Such non-lamellar phases are highly stable under a broad range of external extreme conditions, e.g. temperatures and high hydrostatic pressures, confirming that such apolar lipids could be included in the architecture of membranes arising from cells living under extreme environments.
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Affiliation(s)
| | - Nicholas J Brooks
- Imperial College London, South Kensington Campus, London SW7 2AZ, England, United Kingdom of Great Britain and Northern Ireland
| | - Judith Peters
- Université Grenoble Alpes, LiPhy, CNRS, 38000 Grenoble, France; Institut Laue Langevin, 38000 Grenoble, France
| | - Philippe Oger
- Université de Lyon, INSA de Lyon, CNRS, UMR 5240, 69211 Villeurbanne, France.
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Salvador-Castell M, Golub M, Martinez N, Ollivier J, Peters J, Oger P. The first study on the impact of osmolytes in whole cells of high temperature-adapted microorganisms. Soft Matter 2019; 15:8381-8391. [PMID: 31613294 DOI: 10.1039/c9sm01196j] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
The hyperthermophilic piezophile, Thermococcus barophilus displays a strong stress response characterized by the accumulation of the organic osmolyte, mannosylglycerate during growth under sub-optimal pressure conditions (0.1 MPa). Taking advantage of this known effect, the impact of osmolytes in piezophiles in an otherwise identical cellular context was investigated, by comparing T. barophilus cells grown under low or optimal pressures (40 MPa). Using neutron scattering techniques, we studied the molecular dynamics of live cells of T. barophilus at different pressures and temperatures. We show that in the presence of osmolytes, cells present a higher diffusion coefficient of hydration water and an increase of bulk water motions at a high temperature. In the absence of osmolytes, the T. barophilus cellular dynamics is more responsive to high temperature and high hydrostatic pressure. These results therefore give clear evidence for a protecting effect of osmolytes on proteins.
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