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Reuken PA, Besteher B, Finke K, Fischer A, Holl A, Katzer K, Lehmann-Pohl K, Lemhöfer C, Nowka M, Puta C, Walter M, Weißenborn C, Stallmach A. Longterm course of neuropsychological symptoms and ME/CFS after SARS-CoV-2-infection: a prospective registry study. Eur Arch Psychiatry Clin Neurosci 2023:10.1007/s00406-023-01661-3. [PMID: 37587244 DOI: 10.1007/s00406-023-01661-3] [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] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/28/2023] [Accepted: 07/31/2023] [Indexed: 08/18/2023]
Abstract
A significant proportion of patients after SARS-CoV-2 infection suffer from long-lasting symptoms. Although many different symptoms are described, the majority of patients complains about neuropsychological symptoms. Additionally, a subgroup of patients fulfills diagnostic criteria for ME/CFS. We analyzed a registry of all patients presenting in the out-patients clinic at a German university center. For patients with more than one visit, changes in reported symptoms from first to second visit were analyzed. A total of 1022 patients were included in the study, 411 of them had more than one visit. 95.5% of the patients reported a polysymptomatic disease. At the first visit 31.3% of the patients fulfilled ME/CFS criteria after a median time of 255 days post infection and and at the second visit after a median of 402 days, 19.4% still suffered from ME/CFS. Self-reported fatigue (83.7-72.7%) and concentration impairment (66.2-57.9%) decreased from first to second visit contrasting non-significant changes in the structured screening. A significant proportion of SARS-CoV-2 survivors presenting with ongoing symptoms present with ME/CFS. Although the proportion of subjective reported symptoms and their severity reduce over time, a significant proportion of patients suffer from long-lasting symptoms necessitating new therapeutic concepts.
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Affiliation(s)
- P A Reuken
- Department of Internal Medicine IV (Gastroenterology, Hepatology and Infectious Diseases), Jena University Hospital/Friedrich-Schiller-University Jena, Am Klinikum 1, 07743, Jena, Germany.
| | - B Besteher
- Department of Psychiatry and Psychotherapy, Jena University Hospital/Friedrich-Schiller-University Jena, Jena, Germany
| | - K Finke
- Department of Neurology, Jena University Hospital/Friedrich-Schiller-University Jena, Jena, Germany
| | - A Fischer
- Department of Internal Medicine IV (Gastroenterology, Hepatology and Infectious Diseases), Jena University Hospital/Friedrich-Schiller-University Jena, Am Klinikum 1, 07743, Jena, Germany
| | - A Holl
- Department of Internal Medicine IV (Gastroenterology, Hepatology and Infectious Diseases), Jena University Hospital/Friedrich-Schiller-University Jena, Am Klinikum 1, 07743, Jena, Germany
| | - K Katzer
- Department of Internal Medicine IV (Gastroenterology, Hepatology and Infectious Diseases), Jena University Hospital/Friedrich-Schiller-University Jena, Am Klinikum 1, 07743, Jena, Germany
| | - K Lehmann-Pohl
- Center for Sepsis Control and Care (CSCC), Jena University Hospital/Friedrich-Schiller-University Jena, Jena, Germany
| | - C Lemhöfer
- Institute of Physical and Rehabilitation Medicine, Jena University Hospital/Friedrich-Schiller-University Jena, Jena, Germany
| | - M Nowka
- Department of Internal Medicine IV (Gastroenterology, Hepatology and Infectious Diseases), Jena University Hospital/Friedrich-Schiller-University Jena, Am Klinikum 1, 07743, Jena, Germany
| | - C Puta
- Center for Sepsis Control and Care (CSCC), Jena University Hospital/Friedrich-Schiller-University Jena, Jena, Germany
- Department of Sports Medicine and Health Promotion, Friedrich-Schiller-University Jena, Jena, Germany
- Center for Interdisciplinary Prevention of Diseases Related to Professional Activities, Jena, Germany
| | - M Walter
- Department of Psychiatry and Psychotherapy, Jena University Hospital/Friedrich-Schiller-University Jena, Jena, Germany
| | - C Weißenborn
- Department of Internal Medicine IV (Gastroenterology, Hepatology and Infectious Diseases), Jena University Hospital/Friedrich-Schiller-University Jena, Am Klinikum 1, 07743, Jena, Germany
| | - A Stallmach
- Department of Internal Medicine IV (Gastroenterology, Hepatology and Infectious Diseases), Jena University Hospital/Friedrich-Schiller-University Jena, Am Klinikum 1, 07743, Jena, Germany
- Center for Sepsis Control and Care (CSCC), Jena University Hospital/Friedrich-Schiller-University Jena, Jena, Germany
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Skeffington A, Fischer A, Sviben S, Brzezinka M, Górka M, Bertinetti L, Woehle C, Huettel B, Graf A, Scheffel A. A joint proteomic and genomic investigation provides insights into the mechanism of calcification in coccolithophores. Nat Commun 2023; 14:3749. [PMID: 37353496 PMCID: PMC10290126 DOI: 10.1038/s41467-023-39336-1] [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: 09/06/2022] [Accepted: 06/05/2023] [Indexed: 06/25/2023] Open
Abstract
Coccolithophores are globally abundant, calcifying microalgae that have profound effects on marine biogeochemical cycles, the climate, and life in the oceans. They are characterized by a cell wall of CaCO3 scales called coccoliths, which may contribute to their ecological success. The intricate morphologies of coccoliths are of interest for biomimetic materials synthesis. Despite the global impact of coccolithophore calcification, we know little about the molecular machinery underpinning coccolithophore biology. Working on the model Emiliania huxleyi, a globally distributed bloom-former, we deploy a range of proteomic strategies to identify coccolithogenesis-related proteins. These analyses are supported by a new genome, with gene models derived from long-read transcriptome sequencing, which revealed many novel proteins specific to the calcifying haptophytes. Our experiments provide insights into proteins involved in various aspects of coccolithogenesis. Our improved genome, complemented with transcriptomic and proteomic data, constitutes a new resource for investigating fundamental aspects of coccolithophore biology.
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Affiliation(s)
- Alastair Skeffington
- Max-Planck Institute of Molecular Plant Physiology, Potsdam-Golm, 14476, Germany
- Biological and Environmental Sciences, University of Stirling, Stirling, FK9 4LA, UK
| | - Axel Fischer
- Max-Planck Institute of Molecular Plant Physiology, Potsdam-Golm, 14476, Germany
| | - Sanja Sviben
- Max-Planck Institute of Molecular Plant Physiology, Potsdam-Golm, 14476, Germany
| | - Magdalena Brzezinka
- Max-Planck Institute of Molecular Plant Physiology, Potsdam-Golm, 14476, Germany
| | - Michał Górka
- Max-Planck Institute of Molecular Plant Physiology, Potsdam-Golm, 14476, Germany
| | - Luca Bertinetti
- Max Planck Institute of Colloids and Interfaces, Potsdam-Golm, 14476, Germany
| | - Christian Woehle
- Max Planck Institute for Plant Breeding Research, Max Planck-Genome-Centre Cologne, Cologne, 50829, Germany
| | - Bruno Huettel
- Max Planck Institute for Plant Breeding Research, Max Planck-Genome-Centre Cologne, Cologne, 50829, Germany
| | - Alexander Graf
- Max-Planck Institute of Molecular Plant Physiology, Potsdam-Golm, 14476, Germany
| | - André Scheffel
- Technische Universität Dresden, Faculty of Biology, 01307, Dresden, Germany.
- Max-Planck Institute of Molecular Plant Physiology, Potsdam-Golm, 14476, Germany.
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Fischer A, Veraar C, Sulz I, Singer P, Barazzoni R, Tarantino S, Hiesmayr M. Does bmi affect ageing? A nutritionday analysis in 178 961 patients. Clin Nutr ESPEN 2023. [DOI: 10.1016/j.clnesp.2022.09.163] [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: 03/29/2023]
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Schuetz C, Gerke J, Ege M, Walter J, Kusters M, Worth A, Kanakry JA, Dimitrova D, Wolska-Kuśnierz B, Chen K, Unal E, Karakukcu M, Pashchenko O, Leiding J, Kawai T, Amrolia PJ, Berghuis D, Buechner J, Buchbinder D, Cowan MJ, Gennery AR, Güngör T, Heimall J, Miano M, Meyts I, Morris EC, Rivière J, Sharapova SO, Shaw PJ, Slatter M, Honig M, Veys P, Fischer A, Cavazzana M, Moshous D, Schulz A, Albert MH, Puck JM, Lankester AC, Notarangelo LD, Neven B. Hypomorphic RAG deficiency: impact of disease burden on survival and thymic recovery argues for early diagnosis and HSCT. Blood 2023; 141:713-724. [PMID: 36279417 PMCID: PMC10082356 DOI: 10.1182/blood.2022017667] [Citation(s) in RCA: 12] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2022] [Revised: 09/19/2022] [Accepted: 10/04/2022] [Indexed: 11/20/2022] Open
Abstract
Patients with hypomorphic mutations in the RAG1 or RAG2 gene present with either Omenn syndrome or atypical combined immunodeficiency with a wide phenotypic range. Hematopoietic stem cell transplantation (HSCT) is potentially curative, but data are scarce. We report on a worldwide cohort of 60 patients with hypomorphic RAG variants who underwent HSCT, 78% of whom experienced infections (29% active at HSCT), 72% had autoimmunity, and 18% had granulomas pretransplant. These complications are frequently associated with organ damage. Eight individuals (13%) were diagnosed by newborn screening or family history. HSCT was performed at a median of 3.4 years (range 0.3-42.9 years) from matched unrelated donors, matched sibling or matched family donors, or mismatched donors in 48%, 22%, and 30% of the patients, respectively. Grafts were T-cell depleted in 15 cases (25%). Overall survival at 1 and 4 years was 77.5% and 67.5% (median follow-up of 39 months). Infection was the main cause of death. In univariable analysis, active infection, organ damage pre-HSCT, T-cell depletion of the graft, and transplant from a mismatched family donor were predictive of worse outcome, whereas organ damage and T-cell depletion remained significant in multivariable analysis (hazard ratio [HR] = 6.01, HR = 8.46, respectively). All patients diagnosed by newborn screening or family history survived. Cumulative incidences of acute and chronic graft-versus-host disease were 35% and 22%, respectively. Cumulative incidences of new-onset autoimmunity was 15%. Immune reconstitution, particularly recovery of naïve CD4+ T cells, was faster and more robust in patients transplanted before 3.5 years of age, and without organ damage. These findings support the indication for early transplantation.
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Affiliation(s)
- C. Schuetz
- Department of Paediatrics, Universitätsklinikum Carl Gustav Carus, Technische Universität Dresden, Dresden, Germany
| | - J. Gerke
- Department of Paediatrics, Universitätsklinikum Carl Gustav Carus, Technische Universität Dresden, Dresden, Germany
| | - M. Ege
- Dr. von Hauner Children’s Hospital at Ludwig-Maximilians-Universität, München, Germany
- Helmholtz Zentrum München, Neuherberg, Germany
| | - J. Walter
- Division of Allergy and Immunology, Department of Pediatrics, Morsani College of Medicine, University of South Florida, Tampa, FL
- Division of Allergy and Immunology, Department of Medicine, Johns Hopkins All Children’s Hospital, St. Petersburg, FL
| | - M. Kusters
- Department of Immunology and Gene therapy, Great Ormond Street Hospital, NHS Foundation trust, London, United Kingdom
| | - A. Worth
- Department of Immunology and Gene therapy, Great Ormond Street Hospital, NHS Foundation trust, London, United Kingdom
| | - J. A. Kanakry
- Experimental Transplantation and Immunology Branch, National Cancer Institute, National Institutes of Health, Bethesda, MD
| | - D. Dimitrova
- Experimental Transplantation and Immunology Branch, National Cancer Institute, National Institutes of Health, Bethesda, MD
| | - B. Wolska-Kuśnierz
- Department of Immunology, Children's Memorial Health Institute, Warsaw, Poland
| | - K. Chen
- Division of Allergy and Immunology, Department of Pediatrics, University of Utah School of Medicine, Salt Lake City, UT
| | - E. Unal
- Division of Pediatric Hematology and Oncology, Department of Pediatrics, Erciyes University, Kayseri, Turkey
| | - M. Karakukcu
- Division of Pediatric Hematology and Oncology, Department of Pediatrics, Erciyes University, Kayseri, Turkey
| | - O. Pashchenko
- Department of Immunology, Pirogov Russian National Research Medical University, Moscow, Russia
| | - J. Leiding
- Division of Allergy and Immunology, Department of Pediatrics, Johns Hopkins University, Orlando Health Arnold Pamer Hospital for Children, Orlando, FL
| | - T. Kawai
- Laboratory of Clinical Immunology and Microbiology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD
| | - P. J. Amrolia
- Bone Marrow Transplant Unit, Great Ormond Street Hospital NHS Foundation Trust, London, United Kingdom
| | - D. Berghuis
- Department of Pediatrics, Willem-Alexander Children’s Hospital, Leiden University Medical Center, Leiden, The Netherlands
| | - J. Buechner
- Department of Pediatric Hematology and Oncology, Oslo University Hospital, Oslo, Norway
| | - D. Buchbinder
- Division of Hematology, Children's Hospital of Orange County, Orange, CA
| | - M. J. Cowan
- Division of Allergy, Immunology, and Blood and Marrow Transplant, Department of Pediatrics, University of California San Francisco, San Francisco, CA
| | - A. R. Gennery
- Translational and Clinical Research Institute, Newcastle University, Paediatric Haematopoietic Stem Cell Transplant Unit, Great North Children’s Hospital, Newcastle upon Tyne, United Kingdom
| | - T. Güngör
- Department of Hematology/Oncology/Immunology, Gene-therapy, and Stem Cell Transplantation, University Children’s Hospital Zurich–Eleonore Foundation & Children’s Research Center, Zürich, Switzerland
| | - J. Heimall
- Division of Allergy and Immunology, Children’s Hospital of Philadelphia, Philadelphia, PA
- Department of Pediatrics, Perelman School of Medicine at University of Pennsylvania, Philadelphia, PA
| | - M. Miano
- IRCCS Istituto Giannina Gaslini, Genova, Italy
| | - I. Meyts
- Department of Pediatrics, Department of Microbiology and Immunology, University Hospitals Leuven, Leuven, Belgium
| | - E. C. Morris
- UCL Institute of Immunity & Transplantation, University College London Hospitals NHS Foundation Trust, Royal Free London Hospital NHS Foundation Trust, London, United Kingdom
| | - J. Rivière
- Pediatric Infectious Diseases and Immunodeficiencies Unit, Vall d'Hebron Research Institute, Hospital Universitari Vall d'Hebron, Universitat Autònoma de Barcelona, Barcelona, Spain
| | - S. O. Sharapova
- Research Department, Belarusian Research Center for Pediatric Oncology, Hematology and Immunology, Minsk, Belarus
| | - P. J. Shaw
- Blood Transplant and Cell Therapies, Children’s Hospital at Westmead, Sydney, Australia
| | - M. Slatter
- Paediatric Immunology & HSCT, Great North Children's Hospital, Newcastle upon Tyne, United Kingdom
| | - M. Honig
- Department of Pediatrics and Adolescent Medicine, Ulm University, Ulm, Germany
| | - P. Veys
- Bone Marrow Transplant Unit, Great Ormond Street Hospital NHS Foundation Trust, London, United Kingdom
| | - A. Fischer
- Paediatric Immunology, Department of Immunology, Haematology and Rheumatology, Necker-Enfants Malades, Paris, France
- Institut Imagine, Paris Descartes-Sorbonne Paris Cité University, Paris, France
- Collège de France, Paris, France
| | - M. Cavazzana
- Institut Imagine, Paris Descartes-Sorbonne Paris Cité University, Paris, France
- Département de Biothérapie, Hôpital Universitaire Necker-Enfants Malades, Groupe Hospitalier Paris Centre, Assistance Publique–Hopitaux de Paris, Paris, France
- Centre d’Investigation Clinique Biothérapie, Groupe hospitalier Universitaire paris centre, Assistance Publique-Hôpitaux de Paris, INSERM CIC 1416, Paris, France
| | - D. Moshous
- Paediatric Immunology, Department of Immunology, Haematology and Rheumatology, Necker-Enfants Malades, Paris, France
- Institut Imagine, Paris Descartes-Sorbonne Paris Cité University, Paris, France
| | - A. Schulz
- Department of Pediatrics and Adolescent Medicine, Ulm University, Ulm, Germany
| | - M. H. Albert
- Pediatric SCT Program, Dr. von Hauner University Children’s Hospital, Ludwig-Maximilians Universität, München, Germany
| | - J. M. Puck
- Division of Allergy, Immunology, and Blood and Marrow Transplant, Department of Pediatrics, University of California San Francisco, San Francisco, CA
| | - A. C. Lankester
- Department of Pediatrics, Willem-Alexander Children’s Hospital, Leiden University Medical Center, Leiden, The Netherlands
| | - L. D. Notarangelo
- Laboratory of Clinical Immunology and Microbiology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD
| | - B. Neven
- Paediatric Immunology, Department of Immunology, Haematology and Rheumatology, Necker-Enfants Malades, Paris, France
| | - Inborn Errors Working Party (IEWP) of the European Society for Immunodeficiencies (ESID) and European Society for Blood and Marrow Transplantation (EBMT) and the Primary Immune Deficiency Treatment Consortium (PIDTC)
- Department of Paediatrics, Universitätsklinikum Carl Gustav Carus, Technische Universität Dresden, Dresden, Germany
- Dr. von Hauner Children’s Hospital at Ludwig-Maximilians-Universität, München, Germany
- Helmholtz Zentrum München, Neuherberg, Germany
- Division of Allergy and Immunology, Department of Pediatrics, Morsani College of Medicine, University of South Florida, Tampa, FL
- Division of Allergy and Immunology, Department of Medicine, Johns Hopkins All Children’s Hospital, St. Petersburg, FL
- Department of Immunology and Gene therapy, Great Ormond Street Hospital, NHS Foundation trust, London, United Kingdom
- Experimental Transplantation and Immunology Branch, National Cancer Institute, National Institutes of Health, Bethesda, MD
- Department of Immunology, Children's Memorial Health Institute, Warsaw, Poland
- Division of Allergy and Immunology, Department of Pediatrics, University of Utah School of Medicine, Salt Lake City, UT
- Division of Pediatric Hematology and Oncology, Department of Pediatrics, Erciyes University, Kayseri, Turkey
- Department of Immunology, Pirogov Russian National Research Medical University, Moscow, Russia
- Division of Allergy and Immunology, Department of Pediatrics, Johns Hopkins University, Orlando Health Arnold Pamer Hospital for Children, Orlando, FL
- Laboratory of Clinical Immunology and Microbiology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD
- Bone Marrow Transplant Unit, Great Ormond Street Hospital NHS Foundation Trust, London, United Kingdom
- Department of Pediatrics, Willem-Alexander Children’s Hospital, Leiden University Medical Center, Leiden, The Netherlands
- Department of Pediatric Hematology and Oncology, Oslo University Hospital, Oslo, Norway
- Division of Hematology, Children's Hospital of Orange County, Orange, CA
- Division of Allergy, Immunology, and Blood and Marrow Transplant, Department of Pediatrics, University of California San Francisco, San Francisco, CA
- Translational and Clinical Research Institute, Newcastle University, Paediatric Haematopoietic Stem Cell Transplant Unit, Great North Children’s Hospital, Newcastle upon Tyne, United Kingdom
- Department of Hematology/Oncology/Immunology, Gene-therapy, and Stem Cell Transplantation, University Children’s Hospital Zurich–Eleonore Foundation & Children’s Research Center, Zürich, Switzerland
- Division of Allergy and Immunology, Children’s Hospital of Philadelphia, Philadelphia, PA
- Department of Pediatrics, Perelman School of Medicine at University of Pennsylvania, Philadelphia, PA
- IRCCS Istituto Giannina Gaslini, Genova, Italy
- Department of Pediatrics, Department of Microbiology and Immunology, University Hospitals Leuven, Leuven, Belgium
- UCL Institute of Immunity & Transplantation, University College London Hospitals NHS Foundation Trust, Royal Free London Hospital NHS Foundation Trust, London, United Kingdom
- Pediatric Infectious Diseases and Immunodeficiencies Unit, Vall d'Hebron Research Institute, Hospital Universitari Vall d'Hebron, Universitat Autònoma de Barcelona, Barcelona, Spain
- Research Department, Belarusian Research Center for Pediatric Oncology, Hematology and Immunology, Minsk, Belarus
- Blood Transplant and Cell Therapies, Children’s Hospital at Westmead, Sydney, Australia
- Paediatric Immunology & HSCT, Great North Children's Hospital, Newcastle upon Tyne, United Kingdom
- Department of Pediatrics and Adolescent Medicine, Ulm University, Ulm, Germany
- Bone Marrow Transplant Unit, Great Ormond Street Hospital NHS Foundation Trust, London, United Kingdom
- Paediatric Immunology, Department of Immunology, Haematology and Rheumatology, Necker-Enfants Malades, Paris, France
- Institut Imagine, Paris Descartes-Sorbonne Paris Cité University, Paris, France
- Collège de France, Paris, France
- Département de Biothérapie, Hôpital Universitaire Necker-Enfants Malades, Groupe Hospitalier Paris Centre, Assistance Publique–Hopitaux de Paris, Paris, France
- Centre d’Investigation Clinique Biothérapie, Groupe hospitalier Universitaire paris centre, Assistance Publique-Hôpitaux de Paris, INSERM CIC 1416, Paris, France
- Pediatric SCT Program, Dr. von Hauner University Children’s Hospital, Ludwig-Maximilians Universität, München, Germany
- Laboratory of Clinical Immunology and Microbiology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD
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Veraar C, Fischer A, Bernardi M, Sulz I, Mohamed M, Dworschak M, Tschernko E, Lassnigg A, Hiesmayr M. RESTING ENERGY EXPENDITURE IMPACTS ON SHORT- AND LONG-TERM MORTALITY IN CRITICALLY ILL PATIENTS AFTER CARDIAC SURGERY- A RETROSPECTIVE ANALYSIS. J Cardiothorac Vasc Anesth 2022. [DOI: 10.1053/j.jvca.2022.09.011] [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] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/07/2022]
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Fagherazzi G, Zhang L, Elbéji A, Pizzimenti M, Nazarov P, Aguayo G, Fischer A. 6Développement de nouveaux ”endpoints” cliniques à l'aide de biomarqueurs numériques basés sur la voix pour le suivi à distance, en vie réelle, de patients en recherche clinique: exemple de biomarqueurs vocaux pour le suivi du statut symptomatique de patients avec COVID-19. Rev Epidemiol Sante Publique 2022. [DOI: 10.1016/j.respe.2022.09.065] [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: 11/06/2022] Open
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Klingelhöfer D, Braun M, Dröge J, Fischer A, Brüggmann D, Groneberg DA. Environmental and health-related research on application and production of rare earth elements under scrutiny. Global Health 2022; 18:86. [PMID: 36253760 PMCID: PMC9575253 DOI: 10.1186/s12992-022-00879-5] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [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: 07/11/2022] [Accepted: 09/23/2022] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Unlike most other commodities, rare earth elements (REEs) are part of a wide range of applications needed for daily life all over the world. These applications range from cell phones to electric vehicles to wind turbines. They are often declared as part of "green technology" and, therefore, often called "green elements". However, their production and use are not only useful but also risky to the environment and human health, as many studies have shown. Consequently, the range of global research efforts is broad and highly variable, and therefore difficult to capture and assess. Hence, this study aims to assess the global parameters of global research on REE in the context of environment and health (REEeh). In addition to established bibliometric parameters, advanced analyses using market driver and scientific infrastructure values were carried out to provide deep insight into incentives, necessities, and barriers to international research. RESULTS The focus of REE research is in line with national aspirations, especially from the major global players, China and the USA. Whereas globally, regional research interests are related to market interests, as evidenced by the inclusion of drivers such as electric vehicles, wind turbines, and permanent magnets. The topics receiving the most attention are related to gadolinium used for magnetic resonance imaging and the use of ceria nanoparticles. Since both are used for medical purposes, the medical research areas are equally profiled and mainly addressed in high-income countries. Nevertheless, environmental issues are increasingly in focus. CONCLUSIONS There is still a need for research that is independent and open-ended. For this, market-independent technologies, substitutes and recycling of REEs need to be addressed scientifically. The results of this study are relevant for all stakeholders, from individual scientists to planners to funders, to improve future research strategies in line with these research mandates.
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Affiliation(s)
- Doris Klingelhöfer
- Institute of Occupational, Social and Environmental Medicine, Goethe University, Theodor-Stern-Kai 7, 60590, Frankfurt, Germany.
| | - Markus Braun
- Institute of Occupational, Social and Environmental Medicine, Goethe University, Theodor-Stern-Kai 7, 60590, Frankfurt, Germany
| | - Janis Dröge
- Institute of Occupational, Social and Environmental Medicine, Goethe University, Theodor-Stern-Kai 7, 60590, Frankfurt, Germany
| | - Axel Fischer
- Clinical Research Unit of Allergy, Institute of Occupational Medicine, Charité University Berlin, Berlin, Germany
| | - Dörthe Brüggmann
- Institute of Occupational, Social and Environmental Medicine, Goethe University, Theodor-Stern-Kai 7, 60590, Frankfurt, Germany
| | - David A Groneberg
- Institute of Occupational, Social and Environmental Medicine, Goethe University, Theodor-Stern-Kai 7, 60590, Frankfurt, Germany
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Kley M, Inderbinen S, Zogg M, Sellner M, Fischer A, Kędzierski J, Boudon S, Jetten A, Smieško M, Odermatt A. P10-02 Parabens and UV-filters activating retinoic acid-related orphan receptor γ(t). Toxicol Lett 2022. [DOI: 10.1016/j.toxlet.2022.07.433] [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: 11/25/2022]
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Fischer A, Dai X, Kalscheur KF. Feed efficiency of lactating Holstein cows is repeatable within diet but less reproducible when changing dietary starch and forage concentrations. Animal 2022; 16:100599. [PMID: 35907383 DOI: 10.1016/j.animal.2022.100599] [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: 09/12/2021] [Revised: 06/13/2022] [Accepted: 06/16/2022] [Indexed: 11/01/2022] Open
Abstract
Improving feed efficiency has become an important target for dairy farmers to produce more milk with fewer feed resources. With decreasing availability of arable land to produce feeds that are edible for human consumption, it will be important to increase the proportion of feeds in the diets for dairy cattle that are less edible for human consumption. The current research analyzed the ability of lactating dairy cows to maintain their feed efficiency when switching between a high starch diet (HS diet: 27% starch, 29% NDF, 47.1% forages on a DM basis) and a low starch diet (LS diet: 13% starch, 37% NDF, 66.4% forages on a DM basis). Sixty-two lactating Holstein cows (137 ± 23 days in milk (DIM) at the start of experiment), of which 29 were primiparous cows, were utilized in a crossover design with two 70-d experimental periods, including a 14-d adaption period for each. Feed efficiency was estimated as the individual deviation from the population average intercept in a mixed model predicting DM intake (DMI) with net energy in milk, maintenance and BW gain and loss. Repeatability was estimated within each diet by comparing feed efficiency estimated over the first 28-day period and the second 28-day period within each diet, using Pearson's and intraclass correlations, and the estimation of error of repeatability. Similarly, reproducibility was estimated by comparing the second 28-day period of one diet with the first 28-day period of the other diet. Feed efficiency was less reproducible across diets than repeatable within the same diet. This was shown by lower intraclass correlations (0.399) across diets compared to that in the HS diet (0.587) and LS diet (0.806), as well as a lower Pearson's correlation coefficient (0.418) across diets compared to that in the HS diet (0.630) and LS diet (0.809). In addition, the estimation of error of repeatability was higher (0.830 kg DM/d) across diets compared to that in the HS diet (0.761 kg DM/d) and LS diet (0.504 kg DM/d). This means that the feed efficiency of dairy cows is more likely to change after a diet change than over subsequent lactation stages. Other determinants, such as digestive processes, need to be further investigated to determine its effects on estimating feed efficiency.
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Affiliation(s)
- A Fischer
- U.S. Dairy Forage Research Center, USDA-Agricultural Research Service, Madison, WI 53706, USA
| | - X Dai
- U.S. Dairy Forage Research Center, USDA-Agricultural Research Service, Madison, WI 53706, USA
| | - K F Kalscheur
- U.S. Dairy Forage Research Center, USDA-Agricultural Research Service, Madison, WI 53706, USA.
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10
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Joshi DC, Gebresenbut GH, Fischer A, Rydh A, Häussermann U, Nordblad P, Mathieu R. 2D crystal structure and anisotropic magnetism of GdAu 6.75-xAl 0.5+x (x ≈ 0.54). Sci Rep 2022; 12:13141. [PMID: 35907933 PMCID: PMC9338926 DOI: 10.1038/s41598-022-17068-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2022] [Accepted: 07/20/2022] [Indexed: 12/04/2022] Open
Abstract
Exploration of the gold-rich part of the ternary Gd–Au–Al system afforded the intermetallic compound GdAu6.75−xAl0.5+x (x ≈ 0.54) which was structurally characterized by single crystal X-ray diffraction (Pnma, a = 18.7847(4) Å, b = 23.8208(5) Å, c = 5.3010(1) Å). GdAu6.75−xAl0.5+x crystallizes in a previously unknown structure type featuring layers of Gd2(Au, Al)29 and Gd2(Au, Al)28 clusters which are arranged as in a close-packing parallel to the ac plane. The Gd substructure corresponds to slightly corrugated 36 nets (dGd–Gd = 5.30–5.41 Å) which are stacked on top of each other along the b direction with alternating short (5.4, 5.6 Å, within layers) and long distances (6.4 Å, between layers). The title compound has been discussed with respect to a quasicrystal approximant (1/1 AC) GdAu5.3Al in the same system. The magnetic properties of GdAu6.75−xAl0.5+x were found to be reminiscent to those of some ternary ACs, with sharp peaks in the temperature dependent magnetization, and metamagnetic-like transitions. The material becomes antiferromagnetic below 25 K; magnetometry results suggest that the antiferromagnetic state is composed of ferromagnetic ac planes, coupled antiferromagnetically along the b direction.
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Affiliation(s)
- D C Joshi
- Department of Materials Science and Engineering, Uppsala University, Box 35, 751 03, Uppsala, Sweden.
| | - G H Gebresenbut
- Department of Chemistry-Ångström Laboratory, Uppsala University, 751 21, Uppsala, Sweden
| | - A Fischer
- Institute of Physics, Augsburg University, 86159, Augsburg, Germany
| | - A Rydh
- Department of Physics, Stockholm University, 106 91, Stockholm, Sweden
| | - U Häussermann
- Department of Materials and Environmental Chemistry, Stockholm University, 106 91, Stockholm, Sweden
| | - P Nordblad
- Department of Materials Science and Engineering, Uppsala University, Box 35, 751 03, Uppsala, Sweden
| | - R Mathieu
- Department of Materials Science and Engineering, Uppsala University, Box 35, 751 03, Uppsala, Sweden.
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11
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Kariñho-Betancourt E, Carlson D, Hollister J, Fischer A, Greiner S, Johnson MTJ. The evolution of multi-gene families and metabolic pathways in the evening primroses (Oenothera: Onagraceae): A comparative transcriptomics approach. PLoS One 2022; 17:e0269307. [PMID: 35749399 PMCID: PMC9231714 DOI: 10.1371/journal.pone.0269307] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2021] [Accepted: 05/18/2022] [Indexed: 12/02/2022] Open
Abstract
The plant genus Oenothera has played an important role in the study of plant evolution of genomes and plant defense and reproduction. Here, we build on the 1kp transcriptomic dataset by creating 44 new transcriptomes and analyzing a total of 63 transcriptomes to present a large-scale comparative study across 29 Oenothera species. Our dataset included 30.4 million reads per individual and 2.3 million transcripts on average. We used this transcriptome resource to examine genome-wide evolutionary patterns and functional diversification by searching for orthologous genes and performed gene family evolution analysis. We found wide heterogeneity in gene family evolution across the genus, with section Oenothera exhibiting the most pronounced evolutionary changes. Overall, more significant gene family expansions occurred than contractions. We also analyzed the molecular evolution of phenolic metabolism by retrieving proteins annotated for phenolic enzymatic complexes. We identified 1,568 phenolic genes arranged into 83 multigene families that varied widely across the genus. All taxa experienced rapid phenolic evolution (fast rate of genomic turnover) involving 33 gene families, which exhibited large expansions, gaining about 2-fold more genes than they lost. Upstream enzymes phenylalanine ammonia-lyase (PAL) and 4-coumaroyl: CoA ligase (4CL) accounted for most of the significant expansions and contractions. Our results suggest that adaptive and neutral evolutionary processes have contributed to Oenothera diversification and rapid gene family evolution.
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Affiliation(s)
- Eunice Kariñho-Betancourt
- Department of Biology, University of Toronto Mississauga, Mississauga, Ontario, Canada
- * E-mail: (EKB); (MTJJ)
| | - David Carlson
- Department of Ecology and Evolution, Stony Brook University, Stony Brook, New York, United States of America
| | - Jessie Hollister
- Department of Ecology and Evolution, Stony Brook University, Stony Brook, New York, United States of America
| | - Axel Fischer
- Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, Germany
| | - Stephan Greiner
- Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, Germany
| | - Marc T. J. Johnson
- Department of Biology, University of Toronto Mississauga, Mississauga, Ontario, Canada
- * E-mail: (EKB); (MTJJ)
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12
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Fischer A, Dotzek J, Walther D, Greiner S. Graph-based models of the Oenothera mitochondrial genome capture the enormous complexity of higher plant mitochondrial DNA organization. NAR Genom Bioinform 2022; 4:lqac027. [PMID: 35372837 PMCID: PMC8969700 DOI: 10.1093/nargab/lqac027] [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] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2021] [Revised: 03/02/2022] [Accepted: 03/09/2022] [Indexed: 12/26/2022] Open
Abstract
Plant mitochondrial genomes display an enormous structural complexity, as recombining repeat-pairs lead to the generation of various sub-genomic molecules, rendering these genomes extremely challenging to assemble. We present a novel bioinformatic data-processing pipeline called SAGBAC (Semi-Automated Graph-Based Assembly Curator) that identifies recombinogenic repeat-pairs and reconstructs plant mitochondrial genomes. SAGBAC processes assembly outputs and applies our novel ISEIS (Iterative Sequence Ends Identity Search) algorithm to obtain a graph-based visualization. We applied this approach to three mitochondrial genomes of evening primrose (Oenothera), a plant genus used for cytoplasmic genetics studies. All identified repeat pairs were found to be flanked by two alternative and unique sequence-contigs defining so-called 'double forks', resulting in four possible contig-repeat-contig combinations for each repeat pair. Based on the inferred structural models, the stoichiometry of the different contig-repeat-contig combinations was analyzed using Illumina mate-pair and PacBio RSII data. This uncovered a remarkable structural diversity of the three closely related mitochondrial genomes, as well as substantial phylogenetic variation of the underlying repeats. Our model allows predicting all recombination events and, thus, all possible sub-genomes. In future work, the proposed methodology may prove useful for the investigation of the sub-genome organization and dynamics in different tissues and at various developmental stages.
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Affiliation(s)
- Axel Fischer
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476 Potsdam-Golm, Germany
| | - Jana Dotzek
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476 Potsdam-Golm, Germany
| | - Dirk Walther
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476 Potsdam-Golm, Germany
| | - Stephan Greiner
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476 Potsdam-Golm, Germany
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Forner J, Kleinschmidt D, Meyer EH, Fischer A, Morbitzer R, Lahaye T, Schöttler MA, Bock R. Targeted introduction of heritable point mutations into the plant mitochondrial genome. Nat Plants 2022; 8:245-256. [PMID: 35301443 PMCID: PMC8940627 DOI: 10.1038/s41477-022-01108-y] [Citation(s) in RCA: 17] [Impact Index Per Article: 8.5] [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: 08/26/2021] [Accepted: 02/10/2022] [Indexed: 05/05/2023]
Abstract
The development of technologies for the genetic manipulation of mitochondrial genomes remains a major challenge. Here we report a method for the targeted introduction of mutations into plant mitochondrial DNA (mtDNA) that we refer to as transcription activator-like effector nuclease (TALEN) gene-drive mutagenesis (GDM), or TALEN-GDM. The method combines TALEN-induced site-specific cleavage of the mtDNA with selection for mutations that confer resistance to the TALEN cut. Applying TALEN-GDM to the tobacco mitochondrial nad9 gene, we isolated a large set of mutants carrying single amino acid substitutions in the Nad9 protein. The mutants could be purified to homochondriomy and stably inherited their edited mtDNA in the expected maternal fashion. TALEN-GDM induces both transitions and transversions, and can access most nucleotide positions within the TALEN binding site. Our work provides an efficient method for targeted mitochondrial genome editing that produces genetically stable, homochondriomic and fertile plants with specific point mutations in their mtDNA.
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Affiliation(s)
- Joachim Forner
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Potsdam-Golm, Germany
| | - Dennis Kleinschmidt
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Potsdam-Golm, Germany
| | - Etienne H Meyer
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Potsdam-Golm, Germany
- Institut für Pflanzenphysiologie, Martin-Luther-Universität Halle-Wittenberg, Halle (Saale), Germany
| | - Axel Fischer
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Potsdam-Golm, Germany
| | - Robert Morbitzer
- ZMBP, Allgemeine Genetik, Universität Tübingen, Tübingen, Germany
| | - Thomas Lahaye
- ZMBP, Allgemeine Genetik, Universität Tübingen, Tübingen, Germany
| | - Mark A Schöttler
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Potsdam-Golm, Germany
| | - Ralph Bock
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Potsdam-Golm, Germany.
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14
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Xavier C, Le Cozler Y, Depuille L, Caillot A, Lebreton A, Allain C, Delouard J, Delattre L, Luginbuhl T, Faverdin P, Fischer A. The use of 3-dimensional imaging of Holstein cows to estimate body weight and monitor the composition of body weight change throughout lactation. J Dairy Sci 2022; 105:4508-4519. [DOI: 10.3168/jds.2021-21337] [Citation(s) in RCA: 30] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2021] [Accepted: 01/06/2022] [Indexed: 11/19/2022]
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15
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Bakker O, Bausback Y, Wittig T, Branzan D, Steiner S, Fischer A, Konert M, Düsing S, Banning-Eichenseer U, Scheinert D, Schmidt A. First Experience With The GoBack-Catheter For Successful Crossing of Complex Chronic Total Occlusions in Lower Limb Arteries. J Endovasc Ther 2021; 29:798-807. [PMID: 34964369 DOI: 10.1177/15266028211065962] [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] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
PURPOSE To evaluate the use of the GoBack-catheter (Upstream Peripheral Technologies) in complex revascularizations in lower limb arteries. MATERIALS AND METHODS In this retrospective single-center study, the results of the first 100 consecutive patients including 101 limb-revascularizations, performed between May 2018 and July 2020 with the study device, were analyzed. In all cases, guidewire-crossing failed, and all lesions were chronic total occlusions (CTO), either de novo, reocclusions, or in-stent reocclusions. Successful crossing was defined as passing the CTO using the study device. Patency at discharge and after 30 days was defined as less than 50% restenosis on duplex sonography, without target lesion revascularization. RESULTS Median lesion length was 24 cm and 38 patients (37.6%) had a calcium grading according to the peripheral arterial calcium scoring system (PACSS) of 4 or 5. In 20.8% of patients, an occluded stent was treated. CTOs involved the femoropopliteal segment in 91.1%, iliac arteries in 5.9%, and tibial arteries in 7.9%. The GoBack-catheter was employed for entering into or crossing through parts or the full length of a CTO or an occluded stent as well as for re-entering into the true lumen after subintimal crossing. The device was used via contralateral and ipsilateral antegrade as well as retrograde access with an overall technical success rate of 92.1%. In 3 patients minor bleeding occurred at the crossing or re-entry site, which were managed conservatively. Thirty-day adverse limb events comprised minor amputations in 4 patients (4.0%), 1 major amputation (1.0%), and reocclusions in 7 limbs (6.9%). CONCLUSION The new GoBack-catheter offers versatile endovascular applicability for complex CTO recanalization in a broad range of peripheral vascular interventions with a high technical success and low complication rate.
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Affiliation(s)
- Olaf Bakker
- Department of Vascular Surgery, University Hospital Leipzig, Leipzig, Germany.,Department of Surgery, St. Antonius Hospital, Nieuwegein, The Netherlands
| | - Yvonne Bausback
- Clinic of Angiology, University Hospital Leipzig, Leipzig, Germany
| | - Tim Wittig
- Clinic of Angiology, University Hospital Leipzig, Leipzig, Germany
| | - Daniela Branzan
- Department of Vascular Surgery, University Hospital Leipzig, Leipzig, Germany
| | - Sabine Steiner
- Clinic of Angiology, University Hospital Leipzig, Leipzig, Germany
| | - Axel Fischer
- Clinic of Angiology, University Hospital Leipzig, Leipzig, Germany
| | - Manuela Konert
- Clinic of Angiology, University Hospital Leipzig, Leipzig, Germany
| | - Sandra Düsing
- Clinic of Angiology, University Hospital Leipzig, Leipzig, Germany
| | | | - Dierk Scheinert
- Clinic of Angiology, University Hospital Leipzig, Leipzig, Germany
| | - Andrej Schmidt
- Clinic of Angiology, University Hospital Leipzig, Leipzig, Germany
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16
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Mello L, Fernandes F, Fischer A. Implementation of the new QUANUM 30 tool as an internal audit methodology in a large general hospital. Phys Med 2021. [DOI: 10.1016/s1120-1797(22)00049-7] [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] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/29/2022] Open
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17
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Fischer A, Siebenrock T, Liebau K, Hertwig A, Hahn R, Anwar M, Pesta M, Timmermann I, Brugger J, Posch M, Tamandl D, Ringl H, Hiesmayr M. Association of ct skeletal muscle area and density with age: a prospective study in 200 non-critically ill patients. Clin Nutr ESPEN 2021. [DOI: 10.1016/j.clnesp.2021.09.176] [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: 10/19/2022]
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18
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Fischer A, Barazzoni R, Tarantino S, Laviano A, Veraar C, Sulz I, Schneider S, Lassnigg A, Cuerda-Compes C, Pestana E, Hiesmayr M. Does bmi affect the use of enteral and parenteral nutrition in the ward: a nutritionday analysis in 191 886 adult patients. Clin Nutr ESPEN 2021. [DOI: 10.1016/j.clnesp.2021.09.062] [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: 10/19/2022]
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19
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Martin P, Ducrocq V, Fischer A, Friggens NC. Combining datasets in a dynamic residual feed intake model and comparison with linear model results in lactating Holstein cattle. Animal 2021; 15:100412. [PMID: 34844182 DOI: 10.1016/j.animal.2021.100412] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [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: 07/02/2021] [Revised: 10/22/2021] [Accepted: 10/25/2021] [Indexed: 10/19/2022] Open
Abstract
A new method to estimate residual feed intake (RFI) was recently developed based on a multi-trait random regression model. This approach deals with the dynamic nature of the lactation, which is in contrast with classical linear approaches. However, an issue remains: pooling data across sites and years, which implies dealing with different (and sometimes unknown) diet energy contents. This will be needed for genomic evaluation. In this study, we tested whether merging two individual datasets into a larger one can lead to valuable results in comparison to analysing them on their own with the multi-trait random regression model. Three datasets were defined: the first one with 1 063 lactations, the second one with 205 lactations from a second farm and the third one combining the data of the two first datasets (1 268 lactations). The model was applied to the three datasets to estimate individual RFI as well as variance components and correlations between the four traits included in the model (fat and protein corrected milk production, BW, feed intake and body condition score), and a fixed month-year-farm effect was used to define the contemporary group. The variance components and correlations between animal effects of the four traits were very similar irrespective of the dataset used with correlations higher than 0.94 between the different datasets. The RFI estimates for animals from their single farm only were also very similar (r > 0.95) to the ones computed from the merged dataset (Dataset 3). This highlights that the contemporary group correction in the model adequately accounts for differences between the two feeding environments. The dynamic model can thus be used to produce RFI estimates from merged datasets, at least when animals are raised in similar systems. In addition, the 205 lactations from the second farm were also used to estimate the RFI with a linear approach. The RFI estimated by the two approaches were similar when the considered period was rather short (r = 0.85 for RFI for the first 84 days of lactation) but this correlation weakened as the period length grew (r = 0.77 for RFI for the first 168 days of lactation). This weakening in correlations between the two approaches when increasing the used time-period reflects that only the dynamic model permits the regression coefficients to evolve in line with the physiological changes through the lactation. The results of this study enlarge the possibilities of use for the dynamic RFI model.
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Affiliation(s)
- P Martin
- UMR GABI, INRAE, AgroParisTech, Université Paris-Saclay, 78350 Jouy-en-Josas, France.
| | - V Ducrocq
- UMR GABI, INRAE, AgroParisTech, Université Paris-Saclay, 78350 Jouy-en-Josas, France
| | - A Fischer
- PEGASE, INRAE, Institut Agro, 35590 Saint Gilles, France; Institut de l'élevage, 149 rue de Bercy, 75595 Paris, France
| | - N C Friggens
- UMR 0791 MoSAR, INRAE, AgroParisTech, Université Paris-Saclay, 75005 Paris, France
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Moustafa A, Alexander S, Pitcher N, Goldberg J, Fischer A, Planet P. 511: Longitudinal evolution and adaptation of Staphylococcus aureus in cystic fibrosis. J Cyst Fibros 2021. [DOI: 10.1016/s1569-1993(21)01935-4] [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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21
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Nambiar GG, Thornell I, Stoltz D, Fischer A. 217: Pancreatic enzyme treatment of obstructive meconium from CF pigs. J Cyst Fibros 2021. [DOI: 10.1016/s1569-1993(21)01642-8] [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: 11/25/2022]
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22
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23
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Kienenberger Z, Farber T, Teresi M, Milavetz F, Singh S, Ode KL, Thoma T, Weiner R, Burlage K, Fischer A. 255: Patient and caregiver opinions of airway clearance methods used for cystic fibrosis. J Cyst Fibros 2021. [DOI: 10.1016/s1569-1993(21)01680-5] [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: 12/01/2022]
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24
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Makowski L, Feld J, Koeppe J, Engelbertz C, Illner J, Kuehnemund L, Fischer A, Lange SA, Droege P, Guenster C, Gerss J, Reinecke H, Freisinger E. Sex related differences in vascular interventions and outcome of patients with critical limb threatening ischemia in a real-world cohort. Eur Heart J 2021. [DOI: 10.1093/eurheartj/ehab724.2038] [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] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Abstract
Background
The prevalence of critical limb threatening ischemia (CLTI) is increasing worldwide and the focus is the reduction of outcome events like death or amputation of the lower limb (LL). Sex related differences in medical supply and outcome are a current matter of debate.
Purpose
In the present study, we included patients with CLTI in an unselected “real-world” cohort and studied sex related differences in their risk profile and vascular interventions, as well as their impact on long-term outcome.
Methods
We analyzed 119,953 unselected patients of the public health insurance in Germany (AOK), which were hospitalized between 2010 and 2017 for a main diagnosis of CLTI (Rutherford stage (RF) 4–6). In our data files, a baseline period of 2 years previous index hospitalization and a follow-up period until 2018 was included.
Results
In our cohort, more than half were male CLTI patients (57% male vs. 43% female), while female CLTI patients were at higher age (median: 73.8 years male vs. 81.4 years female). Male patients had higher ratios of diabetes, dyslipidemia, smoking, cerebrovascular disease and chronic coronary syndrome, whereas female CLTI patients show a higher prevalence of hypertension, atrial fibrillation, chronic heart failure and chronic kidney disease (all p<0.001). During index hospitalisation more than one quarter of all CLTI patients suffered from rest pain (RF 4), and approximately one third for minor (RF 5) and one third for major (RF 6) tissue lost. Female patients were more often diagnosed with RF 5 (32% male vs. 36% female), while the proportion of male patients was slightly higher at RF 4 (29% male vs. 27% female) and RF 6 (39% male vs. 37% female, all p<0.001).
During index hospitalization, almost 70% underwent any diagnostic angiography and in 63% of all patients a revascularization procedure was performed. Both were carried out more often in male patients (both p<0.001).The Kaplan Meier curve showed an increased mortality rate in female patients during follow up (figure 1), while no differences were observed for the combined endpoint amputation of the LL or death. Interestingly after adjustment for age and patients risk'constellation, female gender was associated with increased overall-survival (female HR 0.95; 95%-CI 0.94–0.96, p<0.001) and amputation-free survival which is a combined endpoint of amputation of the LL or death (female HR 0.84; 95%-CI 0.83–0.85, p<0.001).
Conclusion
Female patients with CLTI were older and showed lower rates of diagnostic angiography and revascularization procedures of the LL during index hopsitalization. Nevertheless, male sex was an independent risk factor for all-cause mortality and the combined endpoint amputation of the LL or death during long-term follow-up. These results indicate that further analyses are needed to determine the various individual needs of male and female CLTI patients.
Funding Acknowledgement
Type of funding sources: Public grant(s) – National budget only. Main funding source(s): The project upon which this publication is based was funded by The Federal Joint Committee, Innovation Committee (G-BA, Innovationsfonds, number 01VSF18051).
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Affiliation(s)
- L Makowski
- University Hospital of Munster, Cardiol, Dept. of Cardiology I - Coronary and Peripheral Vascular Disease, Heart Failure, Muenster, Germany
| | - J Feld
- University of Muenster, Institute of Biostatistics and Clinical Research, Muenster, Germany
| | - J Koeppe
- University of Muenster, Institute of Biostatistics and Clinical Research, Muenster, Germany
| | - C Engelbertz
- University Hospital of Munster, Cardiol, Dept. of Cardiology I - Coronary and Peripheral Vascular Disease, Heart Failure, Muenster, Germany
| | - J Illner
- University Hospital of Munster, Cardiol, Dept. of Cardiology I - Coronary and Peripheral Vascular Disease, Heart Failure, Muenster, Germany
| | - L Kuehnemund
- University Hospital of Munster, Cardiol, Dept. of Cardiology I - Coronary and Peripheral Vascular Disease, Heart Failure, Muenster, Germany
| | - A Fischer
- University Hospital of Munster, Cardiol, Dept. of Cardiology III - Adult Congenital and Valvular Heart Disease, Muenster, Germany, Muenster, Germany
| | - S A Lange
- University Hospital of Munster, Cardiol, Dept. of Cardiology I - Coronary and Peripheral Vascular Disease, Heart Failure, Muenster, Germany
| | - P Droege
- AOK Research Institute (WidO), Berlin, Germany
| | - C Guenster
- AOK Research Institute (WidO), Berlin, Germany
| | - J Gerss
- University of Muenster, Institute of Biostatistics and Clinical Research, Muenster, Germany
| | - H Reinecke
- University Hospital of Munster, Cardiol, Dept. of Cardiology I - Coronary and Peripheral Vascular Disease, Heart Failure, Muenster, Germany
| | - E Freisinger
- University Hospital of Munster, Cardiol, Dept. of Cardiology I - Coronary and Peripheral Vascular Disease, Heart Failure, Muenster, Germany
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Vanselow C, Hoppe O, Stöbener D, Fischer A. Stereoscopic particle image velocimetry in inhomogeneous refractive index fields of combustion flows. Appl Opt 2021; 60:8716-8727. [PMID: 34613097 DOI: 10.1364/ao.431977] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/20/2021] [Accepted: 08/24/2021] [Indexed: 06/13/2023]
Abstract
Particle image velocimetry (PIV) measurements in reactive flows are disturbed by inhomogeneous refractive index fields, which cause measurement deviations in particle positions due to light refraction. The resulting measurement errors are known for standard PIV, but the measurement errors for stereoscopic PIV are still unknown. Therefore, for comparison, the velocity errors for standard and stereoscopic PIV are analyzed in premixed propane flames with different Reynolds numbers. For this purpose, ray-tracing simulations based on the time-averaged inhomogeneous refractive index fields of the studied non-swirled flame flows measured by the background-oriented Schlieren technique are performed to quantify the resulting position errors of the particles. In addition, the performance of the volumetric self-calibration relevant to tomographic PIV is analyzed with respect to the remaining position errors of the particles within the flames. The position errors cause significant standard PIV errors of 2% for the velocity component radial to the burner symmetry axis. Stereoscopic PIV measurements result in measurement errors of up to 3% radial to the burner axis and 13% for the velocity component perpendicular to the measurement plane. Due to the lower refractive index gradients in the axial direction, no significant velocity errors are observed for the axial velocity component. For the investigated flame configurations, the position errors and velocity errors increase with the Reynolds numbers. However, this dependence needs to be verified for other flame configurations such as swirled flame flows.
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Cho C, Antrack T, Kroll M, An Q, Bärschneider TR, Fischer A, Meister S, Vaynzof Y, Leo K. Electrical Pumping of Perovskite Diodes: Toward Stimulated Emission. Adv Sci (Weinh) 2021; 8:e2101663. [PMID: 34240575 PMCID: PMC8425921 DOI: 10.1002/advs.202101663] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/22/2021] [Revised: 05/10/2021] [Indexed: 05/05/2023]
Abstract
The success of metal halide perovskites in photovoltaic and light-emitting diodes (LEDs) motivates their application as a solid-state thin-film laser. Various perovskites have shown optically pumped stimulated emission of lasing and amplified spontaneous emission (ASE), yet the ultimate goal of electrically pumped stimulated emission has not been achieved. As an essential step toward this goal, here, a perovskite diode structure that simultaneously exhibits stable operation at high current density (≈1 kA cm-2 ) and optically excited ASE (with a threshold of 180 µJ cm-2 ) is reported. This diode structure achieves an electroluminescence quantum efficiency of 0.8% at 850 A cm-2 , which is estimated to be ≈3% of the charge carrier population required to reach ASE in the same device. It is shown that the formation of a large angle waveguide mode and the reduction of parasitic absorption losses are two major design principles for diodes to obtain a positive gain for stimulated emission. In addition to its prospect as a perovskite laser, a new application of electrically pumped ASE is proposed as an ideal perovskite LED architecture allowing 100% external radiation efficiency.
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Affiliation(s)
- Changsoon Cho
- Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP)Technische Universität DresdenNöthnizer straße 61Dresden01187Germany
- Present address:
Cavendish LaboratoryDepartment of PhysicsUniversity of CambridgeJ.J. Thomson AvenueCambridgeCB3 0HEUK
| | - Tobias Antrack
- Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP)Technische Universität DresdenNöthnizer straße 61Dresden01187Germany
| | - Martin Kroll
- Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP)Technische Universität DresdenNöthnizer straße 61Dresden01187Germany
| | - Qingzhi An
- Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP)Technische Universität DresdenNöthnizer straße 61Dresden01187Germany
- Centre for Advancing Electronics Dresden (cfaed)Technische Universität DresdenHelmholtzstraße 18Dresden01069Germany
| | - Toni R. Bärschneider
- Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP)Technische Universität DresdenNöthnizer straße 61Dresden01187Germany
| | - Axel Fischer
- Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP)Technische Universität DresdenNöthnizer straße 61Dresden01187Germany
| | - Stefan Meister
- Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP)Technische Universität DresdenNöthnizer straße 61Dresden01187Germany
| | - Yana Vaynzof
- Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP)Technische Universität DresdenNöthnizer straße 61Dresden01187Germany
- Centre for Advancing Electronics Dresden (cfaed)Technische Universität DresdenHelmholtzstraße 18Dresden01069Germany
| | - Karl Leo
- Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP)Technische Universität DresdenNöthnizer straße 61Dresden01187Germany
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Zupok A, Kozul D, Schöttler MA, Niehörster J, Garbsch F, Liere K, Fischer A, Zoschke R, Malinova I, Bock R, Greiner S. A photosynthesis operon in the chloroplast genome drives speciation in evening primroses. Plant Cell 2021; 33:2583-2601. [PMID: 34048579 PMCID: PMC8408503 DOI: 10.1093/plcell/koab155] [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] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/06/2020] [Accepted: 05/27/2021] [Indexed: 05/09/2023]
Abstract
Genetic incompatibility between the cytoplasm and the nucleus is thought to be a major factor in species formation, but mechanistic understanding of this process is poor. In evening primroses (Oenothera spp.), a model plant for organelle genetics and population biology, hybrid offspring regularly display chloroplast-nuclear incompatibility. This usually manifests in bleached plants, more rarely in hybrid sterility or embryonic lethality. Hence, most of these incompatibilities affect photosynthetic capability, a trait that is under selection in changing environments. Here we show that light-dependent misregulation of the plastid psbB operon, which encodes core subunits of photosystem II and the cytochrome b6f complex, can lead to hybrid incompatibility, and this ultimately drives speciation. This misregulation causes an impaired light acclimation response in incompatible plants. Moreover, as a result of their different chloroplast genotypes, the parental lines differ in photosynthesis performance upon exposure to different light conditions. Significantly, the incompatible chloroplast genome is naturally found in xeric habitats with high light intensities, whereas the compatible one is limited to mesic habitats. Consequently, our data raise the possibility that the hybridization barrier evolved as a result of adaptation to specific climatic conditions.
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Affiliation(s)
| | | | - Mark Aurel Schöttler
- Department Organelle Biology, Biotechnology and Molecular Ecophysiology, Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, D-14476, Germany
| | - Julia Niehörster
- Department Organelle Biology, Biotechnology and Molecular Ecophysiology, Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, D-14476, Germany
| | - Frauke Garbsch
- Department Organelle Biology, Biotechnology and Molecular Ecophysiology, Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, D-14476, Germany
| | - Karsten Liere
- Institut für Biologie/Molekulare Genetik, Humboldt-Universität zu Berlin, Berlin, D-10115, Germany
| | - Axel Fischer
- Department Organelle Biology, Biotechnology and Molecular Ecophysiology, Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, D-14476, Germany
| | - Reimo Zoschke
- Department Organelle Biology, Biotechnology and Molecular Ecophysiology, Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, D-14476, Germany
| | - Irina Malinova
- Department Organelle Biology, Biotechnology and Molecular Ecophysiology, Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, D-14476, Germany
| | - Ralph Bock
- Department Organelle Biology, Biotechnology and Molecular Ecophysiology, Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, D-14476, Germany
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Cucchi M, Gruener C, Petrauskas L, Steiner P, Tseng H, Fischer A, Penkovsky B, Matthus C, Birkholz P, Kleemann H, Leo K. Reservoir computing with biocompatible organic electrochemical networks for brain-inspired biosignal classification. Sci Adv 2021; 7:7/34/eabh0693. [PMID: 34407948 PMCID: PMC8373129 DOI: 10.1126/sciadv.abh0693] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/14/2021] [Accepted: 06/28/2021] [Indexed: 05/12/2023]
Abstract
Early detection of malign patterns in patients' biological signals can save millions of lives. Despite the steady improvement of artificial intelligence-based techniques, the practical clinical application of these methods is mostly constrained to an offline evaluation of the patients' data. Previous studies have identified organic electrochemical devices as ideal candidates for biosignal monitoring. However, their use for pattern recognition in real time was never demonstrated. Here, we produce and characterize brain-inspired networks composed of organic electrochemical transistors and use them for time-series predictions and classification tasks using the reservoir computing approach. To show their potential use for biofluid monitoring and biosignal analysis, we classify four classes of arrhythmic heartbeats with an accuracy of 88%. The results of this study introduce a previously unexplored paradigm for biocompatible computational platforms and may enable development of ultralow-power consumption hardware-based artificial neural networks capable of interacting with body fluids and biological tissues.
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Affiliation(s)
- Matteo Cucchi
- Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP), Nöthnitzer Str. 61, 01187 Dresden, Germany.
| | - Christopher Gruener
- Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP), Nöthnitzer Str. 61, 01187 Dresden, Germany
| | - Lautaro Petrauskas
- Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP), Nöthnitzer Str. 61, 01187 Dresden, Germany
- Chair for Circuit Design and Network Theory (CCN), Technische Universität Dresden, Helmholtzstr. 18, 01069 Dresden, Germany
| | - Peter Steiner
- Institute for Acoustics and Speech Communication (IAS), Technische Universität Dresden, Helmholtzstr. 18, 01069 Dresden, Germany
| | - Hsin Tseng
- Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP), Nöthnitzer Str. 61, 01187 Dresden, Germany
| | - Axel Fischer
- Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP), Nöthnitzer Str. 61, 01187 Dresden, Germany
| | - Bogdan Penkovsky
- National University of Kyiv-Mohyla Academy, Skovorody Str. 2, 04655 Kyiv, Ukraine
- Alysophil SAS, Bio Parc, 850 Boulevard Sebastien Brant, BP 30170 F, 67405, Illkirch CEDEX, France
| | - Christian Matthus
- Chair for Circuit Design and Network Theory (CCN), Technische Universität Dresden, Helmholtzstr. 18, 01069 Dresden, Germany
| | - Peter Birkholz
- Institute for Acoustics and Speech Communication (IAS), Technische Universität Dresden, Helmholtzstr. 18, 01069 Dresden, Germany
| | - Hans Kleemann
- Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP), Nöthnitzer Str. 61, 01187 Dresden, Germany
| | - Karl Leo
- Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP), Nöthnitzer Str. 61, 01187 Dresden, Germany
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Fischer A, Hoskin P. PO-1330 Radiotherapy toxicity in prostate cancer patients with bilateral hip prostheses. Radiother Oncol 2021. [DOI: 10.1016/s0167-8140(21)07781-1] [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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Wimmer M, Radice S, Janssen D, Fischer A. Fretting-corrosion of CoCr-alloys against TiAl6V4: The importance of molybdenum in oxidative biological environments. Wear 2021; 477:203813. [PMID: 34690379 PMCID: PMC8528050 DOI: 10.1016/j.wear.2021.203813] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Periprosthetic fluids often contain reactive oxygen species, including H2O2, that are generated during inflammatory processes. Here, we investigated the fretting-corrosion behavior of CoCrX-alloys (X = Mo, Fe) in a complex protein-containing lubricant, with and without the addition of H2O2. Given the known protective role of molybdenum as an alloying element in metal degradation, we considered its effects by designing a two-way factorial experiment. The aim of the study was to investigate tribocorrosive mechanisms in modular joints of knee and hip prostheses. A previously described test-rig was used to run fretting corrosion tests of CoCrX-alloys with (X=Mo) and without (X=Fe) molybdenum against TiAl6V4 in bovine calf serum (BCS) with and without a physiological relevant H2O2 level (3 mM) in gross slip mode (4 Hz, ±50 μm, pmax=0.18 GPa, 37 °C, 50,000 cycles). Two CoCr-pins were pressed against a cylindrical TiAl6V4-rod, forming a line contact. Normal and frictional forces, the displacement, and the open circuit potential (OCP) were measured and recorded continuously. The dissipated frictional work was independent of alloy composition. The addition of H2O2 lowered the dissipated frictional work and increased wear, and this was significant in the absence of Mo. The mean OCP value was lower with Mo-containing than with Mo-free alloy in both pure BCS (p = .042), and BCS ± H2O2 (p < .0005). The wear scar was deeper for the Mo-free alloy, and this was significant (p = .013) in the presence of H2O2. These findings suggest a marked weakening of the passive film in the presence of H2O2, which is mitigated by the availability of Mo.
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Affiliation(s)
- M.A. Wimmer
- Rush University Medical Center, Chicago, IL, USA
| | - S. Radice
- Rush University Medical Center, Chicago, IL, USA
| | - D. Janssen
- University of Duisburg-Essen, Materials Science and Engineering, Duisburg, Germany
| | - A. Fischer
- Rush University Medical Center, Chicago, IL, USA
- University of Duisburg-Essen, Materials Science and Engineering, Duisburg, Germany
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Asnagli H, Novak A, Birch L, Lane R, Minet N, Laughton D, George P, De Ribains G, Latour S, Fischer A, Bourne T, Parker A. OP0034 STP938, A NOVEL, POTENT AND SELECTIVE INHIBITOR OF CTP SYNTHASE 1 (CTPS1) DEMONSTRATES EFFICACY IN RODENT MODELS OF INFLAMMATION AND ARTHRITIS. Ann Rheum Dis 2021. [DOI: 10.1136/annrheumdis-2021-eular.148] [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
Background:The final rate-limiting step in pyrimidine synthesis is the conversion of UTP to CTP which is catalyzed by cytidine triphosphate synthase 1 (CTPS1) or CTPS2. A hypomorphic mutation in the CTPS1 gene has highlighted the essential and non-redundant role of CTPS1 in T and B lymphocyte proliferation1. These patients exhibit no effects on non-hematopoietic tissues. Thus, selective inhibition of CTPS1 represents a novel targeted approach to dampen pathological T- and B-cell lympho-proliferation. STP938 is an orally bioavailable, small molecular weight, selective inhibitor of CTPS1 developed by Step Pharma.Objectives:To demonstrate the in vitro effects of CTPS1 inhibition on T and B cell proliferation and the therapeutic potential of STP938 using in vivo models of disease.Methods:The in vitro anti-proliferative activity of STP938 was investigated using cell lines and primary human PBMCs. STP938 was assessed in vivo using the DTH-KLH rat model and the mouse collagen-induced arthritis (CIA) model. For the KLH-DTH model, Lewis rats were immunized with KLH, a week later, challenged locally at the ear with KLH antigen, ear swelling was assessed after 24 hours. Blood samples were collected for detection of KLH-specific IgG levels at day 8. STP938 was given orally one-hour prior to immunization and then b.i.d. for 7 days. For the CIA model, DBA-1 mice were immunized with Collagen type II and complete Freund’s adjuvant and received a booster immunization three weeks later. STP938 was administered to mice developing signs of arthritis from Day 28 to 45 orally daily b.i.d.Results:STP938 inhibited in vitro proliferation of HEKwt but not HEK-CTPS1KO cells as well as Jurkat and human PBMCs. STP938 demonstrated a significant and dose-dependent inhibition of KLH-specific T and B cell responses in vivo. STP938 significantly reduced the disease severity in the CIA model in a dose-dependent manner as determined by clinical and histopathological readouts.Conclusion:Our preliminary in vitro and in vivo results indicate that inhibition of CTPS1 specifically blocks proliferation of cells derived from the lymphocyte lineage and reduces the T cell driven inflammatory response. These data highlight the therapeutical potential of STP938 in treating patients with autoimmune diseases such as rheumatoid arthritis.References:[1]Martin et al, JCI Insight. 2020, 12;5(5):133880Disclosure of Interests:Hélène ASNAGLI Employee of: Step Pharma, Andrew Novak: None declared, Louise Birch Shareholder of: Step Pharma, Rebecca Lane: None declared, Norbert Minet Employee of: employee as Ph D student under CIFRE grant, David Laughton: None declared, Pascal George Shareholder of: Step Pharma, Geoffroy de Ribains Shareholder of: as former employee of Step Pharma, Employee of: former employee of Step Pharma, Sylvain Latour: None declared, Alain Fischer: None declared, Tim Bourne Shareholder of: UCB, Step Pharma, Sitryx Therapeutics, Consultant of: a range of biotech companies, Employee of: former employee of Step Pharma and Sitryx Therapeutics, Andrew Parker Employee of: Step Pharma
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Eickelpasch N, Stang W, Fischer A. Status of decommissioning work at the Gundremmingen unit A power station / Kontinuierlicher Rückbau des Kernkraftwerkes Gundremmingen A. KERNTECHNIK 2021. [DOI: 10.1515/kern-1991-560614] [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: 11/15/2022]
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Wacker E, Fischer A, Schorlemmer J. Effects of person-environment fit of gender-role orientation on burnout, engagement and hair steroids as stress biomarkers among women. J Occup Med Toxicol 2021; 16:13. [PMID: 33863346 PMCID: PMC8050924 DOI: 10.1186/s12995-021-00303-5] [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] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2021] [Accepted: 04/07/2021] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Analysis on gender related differences in occupational stress and burnout levels usually reveal higher occupational stress and burnout levels for women compared to men, especially in male-dominated working environments. In opposition to group differentiation, more specific gender-related dimensions feminity and masculinity were used in the study to describe individual and work environment characteristics and analyze their effects. METHODS In a cross-sectional design, survey results were linked to steroid levels in hair samples. Data was collected in a German medical services company with 146 employed women age 22-66 years (M = 40.48, SD = 10.38), 58 of them provided hair samples for steroid detection. Feminity and masculinity were measured by Gender Role Orientation Scale GTS+. Two Person-Environment fit scores in feminity and masculinity were calculated by subtracting individual from environment values. Both fit scores were proved as predictors in hierarchical linear regression models predicting burnout and work engagement as well as hair steroids cortisol, cortisone, DHEA, testosterone and progesterone detected by Liquid Chromatography-Mass Spectrometry (LC-MS/MS) as stress biomarkers. Bivariate correlations as well as moderator and mediator analysis were implemented. RESULTS After considering age, role clarity, and work organization, Person-Environment fit in feminity still added significant variance explanation (β = .23, ∆ R2 = .05, p = .003) for burnout. Person-Environment fit in feminity also explained poor variance in work engagement (β = -.29, R2 = .09, p < .001). Person-Environment fit in masculinity added considerable variance explanation (β = .34, ∆ R2 = .12, p = 0.018) to cortisol levels after including quantitative demands to the model. CONCLUSIONS Person-Environment fit in feminity might be inspected as a predictor for burnout and work engagement. Person-Environment fit in masculinity can be taken into consideration as a predictor for hair cortisol as stress biomarker. Feminity and masculinity can be used as personality traits as well as characteristics of work environment, thus providing a particular gender-role related method of differentiation within gender groups. Also, specific methods could be derived for stress and burnout prevention and promotion of work engagement. Representative population studies with bigger samples and longitudinal surveys are needed to better explore the benefits and limitations of this approach.
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Affiliation(s)
- Eva Wacker
- FOM Hochschule für Oekonomie und Management Berlin, Institut für Gesundheit und Soziales, Bismarckstr. 107, 10625, Berlin, Germany.
- Charité - Universitätsmedizin Berlin, Campus Virchow-Klinikum, Augustenburger Platz 1, 13353, Berlin, Germany.
| | - Axel Fischer
- Charité - Universitätsmedizin Berlin, Campus Virchow-Klinikum, Augustenburger Platz 1, 13353, Berlin, Germany
| | - Julia Schorlemmer
- FOM Hochschule für Oekonomie und Management Berlin, Institut für Gesundheit und Soziales, Bismarckstr. 107, 10625, Berlin, Germany
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Muiños-Landin S, Fischer A, Holubec V, Cichos F. Reinforcement learning with artificial microswimmers. Sci Robot 2021; 6:6/52/eabd9285. [PMID: 34043550 DOI: 10.1126/scirobotics.abd9285] [Citation(s) in RCA: 32] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2020] [Accepted: 02/26/2021] [Indexed: 01/05/2023]
Abstract
Artificial microswimmers that can replicate the complex behavior of active matter are often designed to mimic the self-propulsion of microscopic living organisms. However, compared with their living counterparts, artificial microswimmers have a limited ability to adapt to environmental signals or to retain a physical memory to yield optimized emergent behavior. Different from macroscopic living systems and robots, both microscopic living organisms and artificial microswimmers are subject to Brownian motion, which randomizes their position and propulsion direction. Here, we combine real-world artificial active particles with machine learning algorithms to explore their adaptive behavior in a noisy environment with reinforcement learning. We use a real-time control of self-thermophoretic active particles to demonstrate the solution of a simple standard navigation problem under the inevitable influence of Brownian motion at these length scales. We show that, with external control, collective learning is possible. Concerning the learning under noise, we find that noise decreases the learning speed, modifies the optimal behavior, and also increases the strength of the decisions made. As a consequence of time delay in the feedback loop controlling the particles, an optimum velocity, reminiscent of optimal run-and-tumble times of bacteria, is found for the system, which is conjectured to be a universal property of systems exhibiting delayed response in a noisy environment.
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Affiliation(s)
- S Muiños-Landin
- Molecular Nanophotonics Group, Peter Debye Institute for Soft Matter Physics, Universität Leipzig, 04103 Leipzig, Germany.,AIMEN Technology Centre, Smart Systems and Smart Manufacturing-Artificial Intelligence and Data Analytics Laboratory, PI. Cataboi, 36418 Pontevedra, Spain
| | - A Fischer
- Molecular Nanophotonics Group, Peter Debye Institute for Soft Matter Physics, Universität Leipzig, 04103 Leipzig, Germany
| | - V Holubec
- Institute for Theoretical Physics, Universität Leipzig, 04103 Leipzig, Germany.,Department of Macromolecular Physics, Faculty of Mathematics and Physics, Charles University, 18000 Prague, Czech Republic
| | - F Cichos
- Molecular Nanophotonics Group, Peter Debye Institute for Soft Matter Physics, Universität Leipzig, 04103 Leipzig, Germany.
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Del Castillo J, Russi M, Filomeno P, Kenny-Pujadas JE, Cabrera-Frola JA, Fischer A, Bongiovanni JC, Amaya J. [Experimental cadaveric study assesing protection and osteotomy guide system (BARU) in hallux valgus surgery using Reverdin-Isham technic]. Acta Ortop Mex 2021; 35:132-136. [PMID: 34731912] [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] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
INTRODUCTION Hallux valgus is a high frequency disorder, affecting the first ray. Operative correction techniques have grown popularity lately. One of them is the Reverdin-Isham technique (first metatarsal medial incomplete osteotomy). Recently, a protection and osteotomy cutting guide has been developed: the BARU system. OBJECTIVE To test the usefulness of the BARU system as a protective factor for soft structures adjacent to the surgical site and guidance for osteotomy. MATERIAL AND METHODS Experimental cadaveric study. Six cadaveric feet (two fresh-frozen and four in formaldehyde solution), unapproached. Feet were numbered and intervened with RI technique, three of them with BARU system and three without it. Afterwards, dissection by two dissectors who did not know whether the BARU system had been used or not, establishing a single-blinded model. 13 structures were evaluated in each foot. Data was recovered into Microsoft Office Excel and processed with SPSS. 2 test (significative if p value < 0.05) and relative risk were calculated. RESULTS Approach using BARU system was satisfactory, with usual-size operation-ports. BARU system colocation was simple and radiological control showed adequate spatial location. The device contributed as reference for cutting direction and depth. 65 out of the 78 searched structures were found (83.3%). Six injuries were found among the assessed structures: plantar medial nerve (one injury), plantar medial artery (one injury), flexor brevis muscle (three injuries), abductor muscle (one injury). Five of these injuries occurred in non-utilizing BARU system feet. CONCLUSION Promising results in terms of protection of nearby structures, cutting guide, and ease of intervention. Avoids X-rays exposure. Not significant statistical calculations, the sample should be enlarged.
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Affiliation(s)
- J Del Castillo
- Departamento de Anatomía, Universidad de la República, Uruguay
| | - M Russi
- Sanatorio Americano, Uruguay
| | - P Filomeno
- Clínica de Traumatología y Ortopedia, Universidad de la República, Uruguay
| | | | | | - A Fischer
- Hospital Banco de Seguros del Estado, Uruguay
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Kublitski J, Hofacker A, Boroujeni BK, Benduhn J, Nikolis VC, Kaiser C, Spoltore D, Kleemann H, Fischer A, Ellinger F, Vandewal K, Leo K. Reverse dark current in organic photodetectors and the major role of traps as source of noise. Nat Commun 2021; 12:551. [PMID: 33483507 PMCID: PMC7822930 DOI: 10.1038/s41467-020-20856-z] [Citation(s) in RCA: 40] [Impact Index Per Article: 13.3] [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: 03/04/2020] [Accepted: 12/17/2020] [Indexed: 01/30/2023] Open
Abstract
Organic photodetectors have promising applications in low-cost imaging, health monitoring and near-infrared sensing. Recent research on organic photodetectors based on donor-acceptor systems has resulted in narrow-band, flexible and biocompatible devices, of which the best reach external photovoltaic quantum efficiencies approaching 100%. However, the high noise spectral density of these devices limits their specific detectivity to around 1013 Jones in the visible and several orders of magnitude lower in the near-infrared, severely reducing performance. Here, we show that the shot noise, proportional to the dark current, dominates the noise spectral density, demanding a comprehensive understanding of the dark current. We demonstrate that, in addition to the intrinsic saturation current generated via charge-transfer states, dark current contains a major contribution from trap-assisted generated charges and decreases systematically with decreasing concentration of traps. By modeling the dark current of several donor-acceptor systems, we reveal the interplay between traps and charge-transfer states as source of dark current and show that traps dominate the generation processes, thus being the main limiting factor of organic photodetectors detectivity.
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Affiliation(s)
- Jonas Kublitski
- grid.4488.00000 0001 2111 7257Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP) and Institute for Applied Physics, Technische Universität Dresden, Nöthnitzer Str. 61, 01187 Dresden, Germany
| | - Andreas Hofacker
- grid.4488.00000 0001 2111 7257Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP) and Institute for Applied Physics, Technische Universität Dresden, Nöthnitzer Str. 61, 01187 Dresden, Germany
| | - Bahman K. Boroujeni
- grid.4488.00000 0001 2111 7257Chair of Circuit Design and Network Theory (CCN), Technische Universität Dresden, 01069 Dresden, Germany ,grid.4488.00000 0001 2111 7257Center for Advancing Electronics Dresden (cfaed), Technische Universität Dresden, 01062 Dresden, Germany
| | - Johannes Benduhn
- grid.4488.00000 0001 2111 7257Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP) and Institute for Applied Physics, Technische Universität Dresden, Nöthnitzer Str. 61, 01187 Dresden, Germany
| | - Vasileios C. Nikolis
- grid.4488.00000 0001 2111 7257Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP) and Institute for Applied Physics, Technische Universität Dresden, Nöthnitzer Str. 61, 01187 Dresden, Germany ,grid.435234.7Heliatek GmbH, Treidlerstrasse 3, 01139 Dresden, Germany
| | - Christina Kaiser
- grid.4827.90000 0001 0658 8800Swansea University, Singleton Park, SA2 8PP Wales UK
| | - Donato Spoltore
- grid.4488.00000 0001 2111 7257Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP) and Institute for Applied Physics, Technische Universität Dresden, Nöthnitzer Str. 61, 01187 Dresden, Germany
| | - Hans Kleemann
- grid.4488.00000 0001 2111 7257Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP) and Institute for Applied Physics, Technische Universität Dresden, Nöthnitzer Str. 61, 01187 Dresden, Germany
| | - Axel Fischer
- grid.4488.00000 0001 2111 7257Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP) and Institute for Applied Physics, Technische Universität Dresden, Nöthnitzer Str. 61, 01187 Dresden, Germany
| | - Frank Ellinger
- grid.4488.00000 0001 2111 7257Chair of Circuit Design and Network Theory (CCN), Technische Universität Dresden, 01069 Dresden, Germany ,grid.4488.00000 0001 2111 7257Center for Advancing Electronics Dresden (cfaed), Technische Universität Dresden, 01062 Dresden, Germany
| | - Koen Vandewal
- grid.12155.320000 0001 0604 5662Instituut voor Materiaalonderzoek (IMO), Hasselt University, Wetenschapspark 1, BE-3590 Diepenbeek, Belgium
| | - Karl Leo
- grid.4488.00000 0001 2111 7257Dresden Integrated Center for Applied Physics and Photonic Materials (IAPP) and Institute for Applied Physics, Technische Universität Dresden, Nöthnitzer Str. 61, 01187 Dresden, Germany ,grid.4488.00000 0001 2111 7257Center for Advancing Electronics Dresden (cfaed), Technische Universität Dresden, 01062 Dresden, Germany
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Moreno JC, Martinez-Jaime S, Kosmacz M, Sokolowska EM, Schulz P, Fischer A, Luzarowska U, Havaux M, Skirycz A. A Multi-OMICs Approach Sheds Light on the Higher Yield Phenotype and Enhanced Abiotic Stress Tolerance in Tobacco Lines Expressing the Carrot lycopene β -cyclase1 Gene. Front Plant Sci 2021; 12:624365. [PMID: 33613605 PMCID: PMC7893089 DOI: 10.3389/fpls.2021.624365] [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] [Subscribe] [Scholar Register] [Received: 10/31/2020] [Accepted: 01/18/2021] [Indexed: 05/17/2023]
Abstract
Recently, we published a set of tobacco lines expressing the Daucus carota (carrot) DcLCYB1 gene with accelerated development, increased carotenoid content, photosynthetic efficiency, and yield. Because of this development, DcLCYB1 expression might be of general interest in crop species as a strategy to accelerate development and increase biomass production under field conditions. However, to follow this path, a better understanding of the molecular basis of this phenotype is essential. Here, we combine OMICs (RNAseq, proteomics, and metabolomics) approaches to advance our understanding of the broader effect of LCYB expression on the tobacco transcriptome and metabolism. Upon DcLCYB1 expression, the tobacco transcriptome (~2,000 genes), proteome (~700 proteins), and metabolome (26 metabolites) showed a high number of changes in the genes involved in metabolic processes related to cell wall, lipids, glycolysis, and secondary metabolism. Gene and protein networks revealed clusters of interacting genes and proteins mainly involved in ribosome and RNA metabolism and translation. In addition, abiotic stress-related genes and proteins were mainly upregulated in the transgenic lines. This was well in line with an enhanced stress (high light, salt, and H2O2) tolerance response in all the transgenic lines compared with the wild type. Altogether, our results show an extended and coordinated response beyond the chloroplast (nucleus and cytosol) at the transcriptome, proteome, and metabolome levels, supporting enhanced plant growth under normal and stress conditions. This final evidence completes the set of benefits conferred by the expression of the DcLCYB1 gene, making it a very promising bioengineering tool to generate super crops.
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Affiliation(s)
- Juan C. Moreno
- Max Planck Institut für Molekulare Pflanzenphysiologie, Potsdam, Germany
- Biological and Environmental Science and Engineering Division, Center for Desert Agriculture, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia
- *Correspondence: Juan C. Moreno
| | | | - Monika Kosmacz
- Max Planck Institut für Molekulare Pflanzenphysiologie, Potsdam, Germany
- Biological and Environmental Science and Engineering Division, Center for Desert Agriculture, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia
| | | | - Philipp Schulz
- Max Planck Institut für Molekulare Pflanzenphysiologie, Potsdam, Germany
| | - Axel Fischer
- Max Planck Institut für Molekulare Pflanzenphysiologie, Potsdam, Germany
| | - Urszula Luzarowska
- Max Planck Institut für Molekulare Pflanzenphysiologie, Potsdam, Germany
| | - Michel Havaux
- Aix-Marseille Univ., CEA, CNRS UMR7265, BIAM, CEA/Cadarache, Saint-Paul-lez-Durance, France
| | - Aleksandra Skirycz
- Max Planck Institut für Molekulare Pflanzenphysiologie, Potsdam, Germany
- Boyce Thompson Institute, Cornell University, Ithaca, NY, United States
- Aleksandra Skirycz
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Zapletal B, Veraar C, Sulz I, Fischer A, Mouhieddine M, Schuh C, Tarantino S, Hiesmayr M. Infections are associated with a higher substrate provision in icu patients: An icu nutritionday analysis. Clin Nutr ESPEN 2020. [DOI: 10.1016/j.clnesp.2020.09.293] [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: 11/27/2022]
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Hadjadj J, Carla C, Tusseau M, Stolzenberg M, Aladjidi N, Lega J, Jean-François V, Picard C, Walzer T, Ehl S, Fischer A, Neven B, Belot A, Rieux-Laucat F. Mutations haplo-insuffisantes du gène SOCS1 : une nouvelle cause d’auto-immunité à début précoce traitée par une thérapie ciblée. Rev Med Interne 2020. [DOI: 10.1016/j.revmed.2020.10.096] [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]
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Fischer A, Veraar C, Tarantino S, Moick S, Sulz I, Schuh C, Mouhieddine M, Hiesmayr M. Cut-off for risk increase with low bmi in hospitalized patients: A regional nutritionday analysis. Clin Nutr ESPEN 2020. [DOI: 10.1016/j.clnesp.2020.09.255] [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: 10/23/2022]
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Tombor L, John D, Glaser S, Luxan G, Forte E, Furtado M, Rosenthal N, Manavski Y, Fischer A, Muhly-Reinholz M, Looso M, Acker T, Harvey R, Abplanalp A, Dimmeler S. Single cell sequencing reveals endothelial plasticity with transient mesenchymal activation after myocardial infarction. Eur Heart J 2020. [DOI: 10.1093/ehjci/ehaa946.3736] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Abstract
After myocardial infarct (MI), followed by ischemia and scar formation, interstitial cells play key roles in the adaptation to injury. Endothelial cells (ECs), for instance, can clonally expand, migrate into the infarct area and facilitate crucial functions promoting revascularization, reestablishment of oxygen supply and secretion of paracrine factors. Moreover, ECs can transiently undergo changes towards a mesenchymal phenotype (Endothelial-to-mesenchymal transition; EndMT). Whether this process contributes to long-term cardiac fibrosis or helps to facilitate post-ischemic vessel growth remains controversial. Here, we aim to delineate kinetics and characteristics of phenotypic changes in ECs with single cell RNA-sequencing (scRNA-seq).
We performed a time course (homeostasis or 0 day (d), 1d, 3d, 5d, 7d, 14d, 28d post-MI) in mice and isolated the non-cardiomyocyte fraction for scRNA-seq (n=35,312 cells). Pecam1/Cdh5 double positive ECs showed expression of apoptosis, hypoxia and inflammation markers at 3d. Bioinformatic cell cycle analysis predicted high association with proliferative capacities at 3d, indicative of EC turnover post-MI. Metabolism, recently linked to regulate EndMT, was altered. We found genes of the glycolysis and the TCA-cycle pathway upregulated at 1d to 3d, and a decrease of fatty acid signaling genes. At 3d, mesenchymal markers Fn1, Vim, S100a4, Serpine1 transiently increased compared to homeostasis (>1.6-fold, p<0.05) together with a reduction of EC genes such as Pecam1. Interestingly, mesenchymal transition was transient and returned to baseline levels at 28d after MI. Cell fate trajectory analysis confirmed these findings by identifying an EC state characterized by high proliferation and mesenchymal but low EC properties. At 3d to 7d the majority of the ECs were assigned to this state, based on their transcriptomic profile.
We additionally used Cdh5-CreERT2; R26-mT/mG mice followed by scRNA-seq to trace the fate of ECs. Bioinformatic analysis of GFP-positive ECs confirmed the gain in mesenchymal marker but revealed no full transition to the mesenchymal state at later timepoints. This suggests a transient mesenchymal activation of ECs rather than a complete lineage transition. We further induced EndMT with TGF-β2 in ECs in vitro and observed reversibility of the phenotype after withdrawal of the stimulus. After treatment, ECs upregulated various mesenchymal marker genes. Withdrawal of TGF-β2 at 3d or 7d, reverted expression to baseline levels. We further determined DNA methylation of EndMT gene loci to assess if TGF-β2 leads to a true fate change but did not observe changes after TGF-β2 stimulation and withdrawal. Taken together, our data suggests that ECs undergo a transient mesenchymal activation concomitant with a metabolic adaptation early after MI but do not acquire a long-term mesenchymal fate. This activation may facilitate EC migration and clonal expansion to regenerate the vascular network.
Funding Acknowledgement
Type of funding source: Foundation. Main funding source(s): German Center of Cardiovascular Research (DZHK), Deutsche Forschungsgemeinschaft (DFG) CRC1366 Project B4
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Affiliation(s)
- L Tombor
- Institute for Cardiovascular Regeneration, Goethe University, Frankfurt am Main, Germany
| | - D John
- Institute for Cardiovascular Regeneration, Goethe University, Frankfurt am Main, Germany
| | - S.F Glaser
- Institute for Cardiovascular Regeneration, Goethe University, Frankfurt am Main, Germany
| | - G Luxan
- Institute for Cardiovascular Regeneration, Goethe University, Frankfurt am Main, Germany
| | - E Forte
- The Jackson Lab, Bar Harbor, United States of America
| | - M Furtado
- The Jackson Lab, Bar Harbor, United States of America
| | - N Rosenthal
- The Jackson Lab, Bar Harbor, United States of America
| | - Y Manavski
- Institute for Cardiovascular Regeneration, Goethe University, Frankfurt am Main, Germany
| | - A Fischer
- Institute for Cardiovascular Regeneration, Goethe University, Frankfurt am Main, Germany
| | - M Muhly-Reinholz
- Institute for Cardiovascular Regeneration, Goethe University, Frankfurt am Main, Germany
| | - M Looso
- Max Planck Institute for Heart and Lung Research, Bad Nauheim, Germany
| | - T Acker
- Justus-Liebig University of Giessen, Giessen, Germany
| | - R Harvey
- Victor Chang Cardiac Research Institute, Sydney, Australia
| | - A Abplanalp
- Institute for Cardiovascular Regeneration, Goethe University, Frankfurt am Main, Germany
| | - S Dimmeler
- Institute for Cardiovascular Regeneration, Goethe University, Frankfurt am Main, Germany
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Buchholz E, Berulava T, Elerdashvili V, Pena T, Lbik D, Mohamed B, Bohnsack K, Bohnsack M, Hasenfuss G, Fischer A, Toischer K. m6A RNA methylation contributes to translational control in heart failure progression. Eur Heart J 2020. [DOI: 10.1093/ehjci/ehaa946.3587] [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] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Abstract
Background/Introduction
Heart failure, characterized by reduced cardiac function and left ventricular dilatation, is a leading cause of hospital admission and mortality. Among increased apoptosis and fibrosis, the progression of heart failure is accompanied by changes in gene expression. There is increasing evidence, that also epigenetic processes such as DNA and histone modifications, long non-coding RNAs and transcription factors orchestrate aberrant gene expression in heart failure. Among these epigenetic processes, N6-methyladenosine (m6A) is the most prevalent modification found in all classes of RNA. Such m6A patterns in for example mRNA can have influence on various mechanisms such as splicing, transport, storage or decay of mRNAs. Due to its reversible and dynamic nature regulated via methyltransferases (mainly the METTL3/METTL14/WTAP-complex) and demethylases (mainly FTO and ALkBH5) it adds a new layer of epigenetic regulation.
Purpose
Changes in epigenetic processes are important mechanisms in heart failure progression. We aimed to elucidate the potential role of m6A methylation in heart failure development.
Methods
We analysed m6A methylation in different stages of heart failure progression in mouse and human tissue via methylated RNA immunoprecipitation (meRIP) followed by next generation sequencing (NGS). With polysome fractionation followed by NGS, we studied a potential link between polysomal occupancy and m6a RNA methylation.
Results
We found that approximately one quarter of all RNA transcripts in healthy mouse and human tissue carry m6A RNA methylation. During progression to heart failure we found that changes in m6A methylation exceed changes in gene expression in both, mouse and human. RNAs with altered m6A levels were mainly linked to metabolic and regulatory pathways, whereas changes in expression represented changes in structural plasticity. Furthermore, we found a link between m6A RNA methylation and altered RNA translation. Interestingly, transcripts with unchanged expression level but a differential change in their methylation level also showed differential polysomal occupancy. We could show a corresponding change in protein level, which points to a potential new mechanism of transcription-independent modulation of translation. The importance of m6A methylation was furthermore confirmed in a cardiomyocyte specific knock-out of the RNA demethylase FTO in mice where it lead to impaired cardiac function compared to control mice.
Conclusions
We could show that the m6A landscape is altered in heart hypertrophy and heart failure. Methylation changes exceed expression changes in disease progression and lead to changes in protein abundance, which uncovers a new transcription-independent mechanism of translation regulation. Therefore, our data suggest that targeting epitranscriptomic mechansims, such as m6A methylation, might be a an interesting approach for thereapeutic interventions.
Funding Acknowledgement
Type of funding source: Public grant(s) – EU funding. Main funding source(s): SFB 1002 Modulatory Units in Heart Failure
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Affiliation(s)
- E Buchholz
- University Medical Center Goettingen, Cardiology, Goettingen, Germany
| | - T Berulava
- German Center for Neurodegenerative Diseases, Goettingen, Germany
| | - V Elerdashvili
- German Center for Neurodegenerative Diseases, Goettingen, Germany
| | - T Pena
- German Center for Neurodegenerative Diseases, Goettingen, Germany
| | - D Lbik
- University Medical Center Goettingen, Cardiology, Goettingen, Germany
| | - B.A Mohamed
- University Medical Center Goettingen, Cardiology, Goettingen, Germany
| | - K.E Bohnsack
- University Medical Center Goettingen, Institute for Molecular Biology, Goettingen, Germany
| | - M.T Bohnsack
- University Medical Center Goettingen, Institute for Molecular Biology, Goettingen, Germany
| | - G Hasenfuss
- University Medical Center Goettingen, Cardiology, Goettingen, Germany
| | - A Fischer
- German Center for Neurodegenerative Diseases, Goettingen, Germany
| | - K Toischer
- University Medical Center Goettingen, Cardiology, Goettingen, Germany
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Schaarschmidt S, Fischer A, Lawas LMF, Alam R, Septiningsih EM, Bailey-Serres J, Jagadish SVK, Huettel B, Hincha DK, Zuther E. Utilizing PacBio Iso-Seq for Novel Transcript and Gene Discovery of Abiotic Stress Responses in Oryza sativa L. Int J Mol Sci 2020; 21:ijms21218148. [PMID: 33142722 PMCID: PMC7663775 DOI: 10.3390/ijms21218148] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [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: 10/20/2020] [Revised: 10/20/2020] [Accepted: 10/30/2020] [Indexed: 01/05/2023] Open
Abstract
The wide natural variation present in rice is an important source of genes to facilitate stress tolerance breeding. However, identification of candidate genes from RNA-Seq studies is hampered by the lack of high-quality genome assemblies for the most stress tolerant cultivars. A more targeted solution is the reconstruction of transcriptomes to provide templates to map RNA-seq reads. Here, we sequenced transcriptomes of ten rice cultivars of three subspecies on the PacBio Sequel platform. RNA was isolated from different organs of plants grown under control and abiotic stress conditions in different environments. Reconstructed de novo reference transcriptomes resulted in 37,500 to 54,600 plant-specific high-quality isoforms per cultivar. Isoforms were collapsed to reduce sequence redundancy and evaluated, e.g., for protein completeness (BUSCO). About 40% of all identified transcripts were novel isoforms compared to the Nipponbare reference transcriptome. For the drought/heat tolerant aus cultivar N22, 56 differentially expressed genes in developing seeds were identified at combined heat and drought in the field. The newly generated rice transcriptomes are useful to identify candidate genes for stress tolerance breeding not present in the reference transcriptomes/genomes. In addition, our approach provides a cost-effective alternative to genome sequencing for identification of candidate genes in highly stress tolerant genotypes.
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Affiliation(s)
- Stephanie Schaarschmidt
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476 Potsdam, Germany; (A.F.); (L.M.F.L.); (D.K.H.)
- Correspondence: (S.S.); (E.Z.)
| | - Axel Fischer
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476 Potsdam, Germany; (A.F.); (L.M.F.L.); (D.K.H.)
| | - Lovely Mae F. Lawas
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476 Potsdam, Germany; (A.F.); (L.M.F.L.); (D.K.H.)
- Department of Biological Sciences, Auburn University, Auburn, AL 36849, USA
| | - Rejbana Alam
- Center for Plant Cell Biology, Department of Botany and Plant Sciences, University of California Riverside, Riverside, CA 92521, USA; (R.A.); (J.B.-S.)
| | - Endang M. Septiningsih
- Department of Soil and Crop Sciences, Texas A&M University, College Station, TX 77843, USA;
| | - Julia Bailey-Serres
- Center for Plant Cell Biology, Department of Botany and Plant Sciences, University of California Riverside, Riverside, CA 92521, USA; (R.A.); (J.B.-S.)
| | - S. V. Krishna Jagadish
- International Rice Research Institute, DAPO Box 7777, Metro Manila 1301, Philippines;
- Department of Agronomy, Kansas State University, Manhattan, KS 66506, USA
| | - Bruno Huettel
- Max Planck Genome Centre Cologne, Carl-von-Linné-Weg 10, 50829 Cologne, Germany;
| | - Dirk K. Hincha
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476 Potsdam, Germany; (A.F.); (L.M.F.L.); (D.K.H.)
| | - Ellen Zuther
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476 Potsdam, Germany; (A.F.); (L.M.F.L.); (D.K.H.)
- Correspondence: (S.S.); (E.Z.)
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Mittelstadt S, Grube M, Hartkopf A, Engler T, Walter CB, Oberlechner E, Krämer B, Grischke EM, Brucker SY, Fischer A, Staebler A, Kommoss S. Charakterisierung von Langzeitüberleberinnen nach Ovarialkarzinom im Patientenkollektiv der Universitätsfrauenklinik Tübingen. Geburtshilfe Frauenheilkd 2020. [DOI: 10.1055/s-0040-1718208] [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: 10/23/2022] Open
Affiliation(s)
| | - M Grube
- Universitätsfrauenklinik Tübingen
| | | | - T Engler
- Universitätsfrauenklinik Tübingen
| | | | | | - B Krämer
- Universitätsfrauenklinik Tübingen
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Grube M, Krämer P, Chiu D, Bosse T, Scheunhage D, Koebel M, Singh N, Manchanda R, Hammond R, Heitz F, Harter P, du Bois A, Ataseven B, Neudeck N, Beschorner C, Fischer A, Greif K, Krämer B, Brucker S, Talhouk A, Anglesio M, Staebler A, Kommoss S. Immunhistochemische Expression von L1CAM in endometrioiden Ovarialkarzinomen – Ein neuer prognostischer Marker? Geburtshilfe Frauenheilkd 2020. [DOI: 10.1055/s-0040-1718139] [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: 10/23/2022] Open
Affiliation(s)
- M Grube
- Universitätsfrauenklinik Tübingen
| | - P Krämer
- Universitätsfrauenklinik Tübingen
| | - D Chiu
- Department of Obstetrics and Gynecology, University of British Columbia
| | - T Bosse
- Leiden University Medical Center
| | | | - M Koebel
- Department of Pathology and Laboratory Medicine, University of Calgary
| | - N Singh
- Dept of Cellular Pathology, BartsHealth NHS Trust
| | - R Manchanda
- Dept of Cellular Pathology, BartsHealth NHS Trust
| | - R Hammond
- Dept of Cellular Pathology, BartsHealth NHS Trust
| | | | | | | | | | - N Neudeck
- Institut für Pathologie, Universitätsklinikum Tübingen
| | - C Beschorner
- Institut für Pathologie, Universitätsklinikum Tübingen
| | - A Fischer
- Institut für Pathologie, Universitätsklinikum Tübingen
| | - K Greif
- Institut für Pathologie, Universitätsklinikum Tübingen
| | - B Krämer
- Universitätsfrauenklinik Tübingen
| | | | - A Talhouk
- Department of Obstetrics and Gynecology, University of British Columbia
| | - M Anglesio
- Department of Obstetrics and Gynecology, University of British Columbia
| | - A Staebler
- Institut für Pathologie, Universitätsklinikum Tübingen
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Wupper S, Fischer A, Luersen K, Ipharraguerre IR, Chikamoto K, Furune T, Ishida Y, Terao K, Rimbach G. Effects of dietary gamma-cyclodextrin on voluntary activity and muscle strength in mice. J Physiol Pharmacol 2020; 71. [PMID: 32991317 DOI: 10.26402/jpp.2020.3.08] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Subscribe] [Scholar Register] [Received: 05/05/2020] [Accepted: 06/30/2020] [Indexed: 11/03/2022]
Abstract
Gamma-cyclodextrin (γCD) is a cyclic oligosaccharide consisting of eight α-(1,4)-linked glucopyranose subunits, which is often used in the food and pharmaceutical industries. However, little is known regarding the metabolic activity of "empty" γCD per se. Therefore, in the present study young C57BL/6 male mice received a control diet (CON) or an experimental diet that was supplemented with 12.88% γCD exchanged against corn starch. After 6 weeks of treatment, the voluntary wheel running activity was monitored and the muscle strength of mice was measured by employing Kondziela's inverted screen test and forelimb grip strength assay. The γCD-treated mice covered a significantly larger distance per night (CON 8.6 km, γCD 12.4 km) and were significantly longer active (CON 340 min, γCD 437 min). Moreover, γCD-treated mice significantly performed better at the inverted screen test indicated by an enhanced Kondziela score (CON 3.10, γCD 4.63). These data suggest that dietary γCD leads to an increased endurance. We also found a slightly anti-glycemic effect of γCD during oral glucose tolerance test. However, our mice from the γCD group exhibited no difference in terms of GLUT2 protein level in ileum tissue nor increased muscle glycogen storage. Furthermore, γCD exhibited no DPP-4 inhibitory activity in vitro. By analysing candidate muscle genes and proteins related to endurance and muscle performance we did not observe any differences in terms of Sirt1, Pgc1α, Cpt1b, Mef2c, Myh1 and Myh2 gene expression levels as well as total oxidative phosphorylation (OXPHOS), mtTFA and GLUT4 protein expression levels in skeletal muscle in response to γCD. We could not fully establish the exact underlying molecular mechanisms of the fitness improvement by dietary γCD which warrants further investigations.
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Affiliation(s)
- S Wupper
- Institute of Human Nutrition and Food Science, University of Kiel, Kiel, Germany.
| | - A Fischer
- Institute of Human Nutrition and Food Science, University of Kiel, Kiel, Germany
| | - K Luersen
- Institute of Human Nutrition and Food Science, University of Kiel, Kiel, Germany
| | - I R Ipharraguerre
- Institute of Human Nutrition and Food Science, University of Kiel, Kiel, Germany
| | - K Chikamoto
- CycloChem Bio Co., Ltd., 7-4-5 Minatojima-minamimachi, Chuo-ku, Kobe, Japan
| | - T Furune
- CycloChem Bio Co., Ltd., 7-4-5 Minatojima-minamimachi, Chuo-ku, Kobe, Japan
| | - Y Ishida
- CycloChem Bio Co., Ltd., 7-4-5 Minatojima-minamimachi, Chuo-ku, Kobe, Japan
| | - K Terao
- CycloChem Bio Co., Ltd., 7-4-5 Minatojima-minamimachi, Chuo-ku, Kobe, Japan
| | - G Rimbach
- Institute of Human Nutrition and Food Science, University of Kiel, Kiel, Germany
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Bae-Gartz I, Kasper P, Großmann N, Breuer S, Janoschek R, Kretschmer T, Appel S, Schmitz L, Vohlen C, Quaas A, Schweiger MR, Grimm C, Fischer A, Ferrari N, Graf C, Frese CK, Lang S, Demir M, Schramm C, Fink G, Goeser T, Dötsch J, Hucklenbruch-Rother E. Maternal exercise conveys protection against NAFLD in the offspring via hepatic metabolic programming. Sci Rep 2020; 10:15424. [PMID: 32963289 PMCID: PMC7508970 DOI: 10.1038/s41598-020-72022-6] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [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: 10/16/2019] [Accepted: 05/11/2020] [Indexed: 12/13/2022] Open
Abstract
Maternal exercise (ME) during pregnancy has been shown to improve metabolic health in offspring and confers protection against the development of non-alcoholic fatty liver disease (NAFLD). However, its underlying mechanism are still poorly understood, and it remains unclear whether protective effects on hepatic metabolism are already seen in the offspring early life. This study aimed at determining the effects of ME during pregnancy on offspring body composition and development of NAFLD while focusing on proteomic-based analysis of the hepatic energy metabolism during developmental organ programming in early life. Under an obesogenic high-fat diet (HFD), male offspring of exercised C57BL/6J-mouse dams were protected from body weight gain and NAFLD in adulthood (postnatal day (P) 112). This was associated with a significant activation of hepatic AMP-activated protein kinase (AMPK), peroxisome proliferator-activated receptor alpha (PPARα) and PPAR coactivator-1 alpha (PGC1α) signaling with reduced hepatic lipogenesis and increased hepatic β-oxidation at organ programming peak in early life (P21). Concomitant proteomic analysis revealed a characteristic hepatic expression pattern in offspring as a result of ME with the most prominent impact on Cholesterol 7 alpha-hydroxylase (CYP7A1). Thus, ME may offer protection against offspring HFD-induced NAFLD by shaping hepatic proteomics signature and metabolism in early life. The results highlight the potential of exercise during pregnancy for preventing the early origins of NAFLD.
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Affiliation(s)
- Inga Bae-Gartz
- Department of Pediatrics and Adolescent Medicine, University of Cologne, Faculty of Medicine and University Hospital Cologne, Robert-Koch Str. 16, Building 44a, 50931, Cologne, Germany.
| | - Philipp Kasper
- Department of Gastroenterology and Hepatology, University of Cologne, Faculty of Medicine and University Hospital Cologne, Cologne, Germany
| | - Nora Großmann
- Department of Pediatrics and Adolescent Medicine, University of Cologne, Faculty of Medicine and University Hospital Cologne, Robert-Koch Str. 16, Building 44a, 50931, Cologne, Germany
| | - Saida Breuer
- Department of Pediatrics and Adolescent Medicine, University of Cologne, Faculty of Medicine and University Hospital Cologne, Robert-Koch Str. 16, Building 44a, 50931, Cologne, Germany
| | - Ruth Janoschek
- Department of Pediatrics and Adolescent Medicine, University of Cologne, Faculty of Medicine and University Hospital Cologne, Robert-Koch Str. 16, Building 44a, 50931, Cologne, Germany
| | - Tobias Kretschmer
- Department of Pediatrics and Adolescent Medicine, University of Cologne, Faculty of Medicine and University Hospital Cologne, Robert-Koch Str. 16, Building 44a, 50931, Cologne, Germany
| | - Sarah Appel
- Department of Pediatrics and Adolescent Medicine, University of Cologne, Faculty of Medicine and University Hospital Cologne, Robert-Koch Str. 16, Building 44a, 50931, Cologne, Germany
| | - Lisa Schmitz
- Department of Pediatrics and Adolescent Medicine, University of Cologne, Faculty of Medicine and University Hospital Cologne, Robert-Koch Str. 16, Building 44a, 50931, Cologne, Germany
| | - Christina Vohlen
- Department of Pediatrics and Adolescent Medicine, University of Cologne, Faculty of Medicine and University Hospital Cologne, Robert-Koch Str. 16, Building 44a, 50931, Cologne, Germany
| | - Alexander Quaas
- Department of Pathology, University Hospital of Cologne, Cologne, Germany
| | - Michal R Schweiger
- Translational Epigenetics and Tumor Genetic, University Hospital of Cologne, Cologne, Germany
| | - Christina Grimm
- Translational Epigenetics and Tumor Genetic, University Hospital of Cologne, Cologne, Germany
| | | | - Nina Ferrari
- Cologne Center for Prevention in Childhood and Youth / Heart Center Cologne, University Hospital of Cologne, Cologne, Germany.,Institute of Movement and Neuroscience, Department of Movement and Health Promotion, German Sport University, Cologne, Germany
| | - Christine Graf
- Institute of Movement and Neuroscience, Department of Movement and Health Promotion, German Sport University, Cologne, Germany
| | - Christian K Frese
- Proteomics Core Facility, CECAD Research Center, University Hospital of Cologne, Cologne, Germany.,Max-Planck-Unit for the Science of Pathogens, Charité University Medicine Berlin, Berlin, Germany
| | - Sonja Lang
- Department of Medicine, University of California San Diego, La Jolla, CA, USA
| | - Münevver Demir
- Department of Hepatology and Gastroenterology, Charité Campus Mitte and Campus Virchow Clinic, Charité University Medicine Berlin, Berlin, Germany
| | - Christoph Schramm
- Department of Gastroenterology and Hepatology, University of Cologne, Faculty of Medicine and University Hospital Cologne, Cologne, Germany
| | - Gregor Fink
- Department of Pediatrics and Adolescent Medicine, University of Cologne, Faculty of Medicine and University Hospital Cologne, Robert-Koch Str. 16, Building 44a, 50931, Cologne, Germany
| | - Tobias Goeser
- Department of Gastroenterology and Hepatology, University of Cologne, Faculty of Medicine and University Hospital Cologne, Cologne, Germany
| | - Jörg Dötsch
- Department of Pediatrics and Adolescent Medicine, University of Cologne, Faculty of Medicine and University Hospital Cologne, Robert-Koch Str. 16, Building 44a, 50931, Cologne, Germany
| | - Eva Hucklenbruch-Rother
- Department of Pediatrics and Adolescent Medicine, University of Cologne, Faculty of Medicine and University Hospital Cologne, Robert-Koch Str. 16, Building 44a, 50931, Cologne, Germany
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48
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Becker T, Weberpals J, Jegg AM, So WV, Fischer A, Weisser M, Schmich F, Rüttinger D, Bauer-Mehren A. An enhanced prognostic score for overall survival of patients with cancer derived from a large real-world cohort. Ann Oncol 2020; 31:1561-1568. [PMID: 32739409 DOI: 10.1016/j.annonc.2020.07.013] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [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: 03/13/2020] [Revised: 07/09/2020] [Accepted: 07/14/2020] [Indexed: 11/28/2022] Open
Abstract
BACKGROUND By understanding prognostic biomarkers, we gain insights into disease biology and may improve design, conduct, and data analysis of clinical trials and real-world data. In this context, we used the Flatiron Health Electronic Health Record-derived deidentified database that provides treatment outcome and biomarker data from >280 oncology centers in the USA, organized into 17 cohorts defined by cancer type. PATIENTS AND METHODS In 122 694 patients, we analyzed demographic, clinical, routine hematology, and blood chemistry parameters within a Cox proportional hazard framework to derive a multivariable prognostic risk model for overall survival (OS), the 'Real wOrld PROgnostic score (ROPRO)'. We validated ROPRO in two independent phase I and III clinical studies. RESULTS A total of 27 variables contributed independently and homogeneously across cancer indications to OS. In the largest cohort (advanced non-small-cell lung cancer), for example, patients with elevated ROPRO scores (upper 10%) had a 7.91-fold (95% confidence interval 7.45-8.39) increased death hazard compared with patients with low scores (lower 10%). Median survival was 23.9 months (23.3-24.5) in the lowest ROPRO quartile Q1, 14.8 months (14.4-15.2) in Q2, 9.4 months (9.1-9.7) in Q3, and 4.7 months (4.6-4.8) in Q4. The ROPRO model performance indicators [C-index = 0.747 (standard error 0.001), 3-month area under the curve (AUC) = 0.822 (0.819-0.825)] strongly outperformed those of the Royal Marsden Hospital Score [C-index = 0.54 (standard error 0.0005), 3-month AUC = 0.579 (0.577-0.581)]. We confirmed the high prognostic relevance of ROPRO in clinical Phase 1 and III trials. CONCLUSIONS The ROPRO provides improved prognostic power for OS. In oncology clinical development, it has great potential for applications in patient stratification, patient enrichment strategies, data interpretation, and early decision-making in clinical studies.
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Affiliation(s)
- T Becker
- Data Science, Pharma Research and Development, Roche Innovation Center Munich, Munich, Germany
| | - J Weberpals
- Data Science, Pharma Research and Development, Roche Innovation Center Munich, Munich, Germany
| | - A M Jegg
- Early Clinical Development Oncology, Pharma Research and Development, Roche Innovation Center Munich, Munich, Germany
| | - W V So
- Data Science, Pharma Research and Development, Roche Innovation Center New York, New York, USA
| | - A Fischer
- Data Science, Pharma Research and Development, Roche Innovation Center Munich, Munich, Germany
| | - M Weisser
- Early Clinical Development Oncology, Pharma Research and Development, Roche Innovation Center Munich, Munich, Germany
| | - F Schmich
- Data Science, Pharma Research and Development, Roche Innovation Center Munich, Munich, Germany
| | - D Rüttinger
- Early Clinical Development Oncology, Pharma Research and Development, Roche Innovation Center Munich, Munich, Germany
| | - A Bauer-Mehren
- Data Science, Pharma Research and Development, Roche Innovation Center Munich, Munich, Germany.
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49
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Whitcomb SJ, Rakpenthai A, Brückner F, Fischer A, Parmar S, Erban A, Kopka J, Hawkesford MJ, Hoefgen R. Cysteine and Methionine Biosynthetic Enzymes Have Distinct Effects on Seed Nutritional Quality and on Molecular Phenotypes Associated With Accumulation of a Methionine-Rich Seed Storage Protein in Rice. Front Plant Sci 2020; 11:1118. [PMID: 32793268 PMCID: PMC7387578 DOI: 10.3389/fpls.2020.01118] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/28/2020] [Accepted: 07/07/2020] [Indexed: 06/11/2023]
Abstract
Staple crops in human and livestock diets suffer from deficiencies in certain "essential" amino acids including methionine. With the goal of increasing methionine in rice seed, we generated a pair of "Push × Pull" double transgenic lines, each containing a methionine-dense seed storage protein (2S albumin from sunflower, HaSSA) and an exogenous enzyme for either methionine (feedback desensitized cystathionine gamma synthase from Arabidopsis, AtD-CGS) or cysteine (serine acetyltransferase from E. coli, EcSAT) biosynthesis. In both double transgenic lines, the total seed methionine content was approximately 50% higher than in their untransformed parental line, Oryza sativa ssp. japonica cv. Taipei 309. HaSSA-containing rice seeds were reported to display an altered seed protein profile, speculatively due to insufficient sulfur amino acid content. However, here we present data suggesting that this may result from an overloaded protein folding machinery in the endoplasmic reticulum rather than primarily from redistribution of limited methionine from endogenous seed proteins to HaSSA. We hypothesize that HaSSA-associated endoplasmic reticulum stress results in redox perturbations that negatively impact sulfate reduction to cysteine, and we speculate that this is mitigated by EcSAT-associated increased sulfur import into the seed, which facilitates additional synthesis of cysteine and glutathione. The data presented here reveal challenges associated with increasing the methionine content in rice seed, including what may be relatively low protein folding capacity in the endoplasmic reticulum and an insufficient pool of sulfate available for additional cysteine and methionine synthesis. We propose that future approaches to further improve the methionine content in rice should focus on increasing seed sulfur loading and avoiding the accumulation of unfolded proteins in the endoplasmic reticulum. Oryza sativa ssp. japonica: urn:lsid:ipni.org:names:60471378-2.
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Affiliation(s)
- Sarah J. Whitcomb
- Laboratory of Amino Acid and Sulfur Metabolism, Department of Molecular Physiology, Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
| | - Apidet Rakpenthai
- Laboratory of Amino Acid and Sulfur Metabolism, Department of Molecular Physiology, Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
| | - Franziska Brückner
- Laboratory of Amino Acid and Sulfur Metabolism, Department of Molecular Physiology, Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
| | - Axel Fischer
- Bioinformatics Infrastructure Group, Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
| | - Saroj Parmar
- Plant Sciences Department, Rothamsted Research, Harpenden, United Kingdom
| | - Alexander Erban
- Applied Metabolome Analysis Infrastructure Group, Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
| | - Joachim Kopka
- Applied Metabolome Analysis Infrastructure Group, Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
| | | | - Rainer Hoefgen
- Laboratory of Amino Acid and Sulfur Metabolism, Department of Molecular Physiology, Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
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50
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Fischer A, Klein P, Radulescu P, Gulsun M, Mohamed Ali A, R.S V, Schoebinger M, Sahbaee P, Sharma P, Schoepf U. Deep Learning Based Automated Coronary Labeling For Structured Reporting Of Coronary CT Angiography In Accordance With SCCT Guidelines. J Cardiovasc Comput Tomogr 2020. [DOI: 10.1016/j.jcct.2020.06.019] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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