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Theret M, Gsaier L, Schaffer B, Juban G, Ben Larbi S, Weiss-Gayet M, Bultot L, Collodet C, Foretz M, Desplanches D, Sanz P, Zang Z, Yang L, Vial G, Viollet B, Sakamoto K, Brunet A, Chazaud B, Mounier R. AMPKα1-LDH pathway regulates muscle stem cell self-renewal by controlling metabolic homeostasis. EMBO J 2017; 36:1946-1962. [PMID: 28515121 DOI: 10.15252/embj.201695273] [Citation(s) in RCA: 76] [Impact Index Per Article: 10.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2016] [Revised: 04/18/2017] [Accepted: 04/20/2017] [Indexed: 12/31/2022] Open
Abstract
Control of stem cell fate to either enter terminal differentiation versus returning to quiescence (self-renewal) is crucial for tissue repair. Here, we showed that AMP-activated protein kinase (AMPK), the master metabolic regulator of the cell, controls muscle stem cell (MuSC) self-renewal. AMPKα1-/- MuSCs displayed a high self-renewal rate, which impairs muscle regeneration. AMPKα1-/- MuSCs showed a Warburg-like switch of their metabolism to higher glycolysis. We identified lactate dehydrogenase (LDH) as a new functional target of AMPKα1. LDH, which is a non-limiting enzyme of glycolysis in differentiated cells, was tightly regulated in stem cells. In functional experiments, LDH overexpression phenocopied AMPKα1-/- phenotype, that is shifted MuSC metabolism toward glycolysis triggering their return to quiescence, while inhibition of LDH activity rescued AMPKα1-/- MuSC self-renewal. Finally, providing specific nutrients (galactose/glucose) to MuSCs directly controlled their fate through the AMPKα1/LDH pathway, emphasizing the importance of metabolism in stem cell fate.
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Affiliation(s)
- Marine Theret
- Institut Neuromyogène, Université Claude Bernard Lyon 1, Villeurbanne, France.,INSERM U1217, Villeurbanne, France.,CNRS UMR 5310, Villeurbanne, France.,Université Paris Descartes, Paris, France
| | - Linda Gsaier
- Institut Neuromyogène, Université Claude Bernard Lyon 1, Villeurbanne, France.,INSERM U1217, Villeurbanne, France.,CNRS UMR 5310, Villeurbanne, France
| | - Bethany Schaffer
- Department of Genetic and the Cancer Biology Program, University of Stanford, Stanford, CA, USA
| | - Gaëtan Juban
- Institut Neuromyogène, Université Claude Bernard Lyon 1, Villeurbanne, France.,INSERM U1217, Villeurbanne, France.,CNRS UMR 5310, Villeurbanne, France
| | - Sabrina Ben Larbi
- Institut Neuromyogène, Université Claude Bernard Lyon 1, Villeurbanne, France.,INSERM U1217, Villeurbanne, France.,CNRS UMR 5310, Villeurbanne, France
| | - Michèle Weiss-Gayet
- Institut Neuromyogène, Université Claude Bernard Lyon 1, Villeurbanne, France.,INSERM U1217, Villeurbanne, France.,CNRS UMR 5310, Villeurbanne, France
| | - Laurent Bultot
- Nestlé Institute of Health Sciences SA, Lausanne, Switzerland.,School of Life Sciences, Ecole Polytechnique Fédérale de Lausanne, Lausanne, Switzerland
| | - Caterina Collodet
- Nestlé Institute of Health Sciences SA, Lausanne, Switzerland.,School of Life Sciences, Ecole Polytechnique Fédérale de Lausanne, Lausanne, Switzerland
| | - Marc Foretz
- Université Paris Descartes, Paris, France.,INSERM U1016, Institut Cochin, Paris, France.,CNRS UMR 8104, Paris, France
| | - Dominique Desplanches
- Institut Neuromyogène, Université Claude Bernard Lyon 1, Villeurbanne, France.,INSERM U1217, Villeurbanne, France.,CNRS UMR 5310, Villeurbanne, France
| | - Pascual Sanz
- Instituto de Biomedecina de Valencia, CSIC, Valencia, Spain
| | - Zizhao Zang
- Department of Biomedical Engineering, University of Florida, Gainesville, FL, USA
| | - Lin Yang
- Department of Biomedical Engineering, University of Florida, Gainesville, FL, USA
| | - Guillaume Vial
- INSERM U1042, Université Grenoble Alpes, La Tronche, France
| | - Benoit Viollet
- Université Paris Descartes, Paris, France.,School of Life Sciences, Ecole Polytechnique Fédérale de Lausanne, Lausanne, Switzerland.,INSERM U1016, Institut Cochin, Paris, France
| | - Kei Sakamoto
- Nestlé Institute of Health Sciences SA, Lausanne, Switzerland.,School of Life Sciences, Ecole Polytechnique Fédérale de Lausanne, Lausanne, Switzerland
| | - Anne Brunet
- Department of Genetic and the Cancer Biology Program, University of Stanford, Stanford, CA, USA
| | - Bénédicte Chazaud
- Institut Neuromyogène, Université Claude Bernard Lyon 1, Villeurbanne, France.,INSERM U1217, Villeurbanne, France.,CNRS UMR 5310, Villeurbanne, France
| | - Rémi Mounier
- Institut Neuromyogène, Université Claude Bernard Lyon 1, Villeurbanne, France .,INSERM U1217, Villeurbanne, France.,CNRS UMR 5310, Villeurbanne, France
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Liang Y, Wang F, Treanor D, Magee D, Roberts N, Teodoro G, Zhu Y, Kong J. A Framework for 3D Vessel Analysis using Whole Slide Images of Liver Tissue Sections. INTERNATIONAL JOURNAL OF COMPUTATIONAL BIOLOGY AND DRUG DESIGN 2016; 9:102-119. [PMID: 27034719 PMCID: PMC4809644 DOI: 10.1504/ijcbdd.2016.074983] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Three-dimensional (3D) high resolution microscopic images have high potential for improving the understanding of both normal and disease processes where structural changes or spatial relationship of disease features are significant. In this paper, we develop a complete framework applicable to 3D pathology analytical imaging, with an application to whole slide images of sequential liver slices for 3D vessel structure analysis. The analysis workflow consists of image registration, segmentation, vessel cross-section association, interpolation, and volumetric rendering. To identify biologically-meaningful correspondence across adjacent slides, we formulate a similarity function for four association cases. The optimal solution is then obtained by constrained Integer Programming. We quantitatively and qualitatively compare our vessel reconstruction results with human annotations. Validation results indicate a satisfactory concordance as measured both by region-based and distance-based metrics. These results demonstrate a promising 3D vessel analysis framework for whole slide images of liver tissue sections.
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Affiliation(s)
- Yanhui Liang
- Department of Biomedical Informatics, Emory University, Atlanta, GA, USA
| | - Fusheng Wang
- Department of Biomedical Informatics, Emory University, Atlanta, GA, USA
| | - Darren Treanor
- Department of Pathology Leeds Teaching Hospitals NHS Trust Leeds Institute of Cancer and Pathology The University of Leeds, Leeds LS9 7TF, United Kingdom
| | - Derek Magee
- School of Computing, The University of Leeds, Leeds, LS2 9JT, United Kingdom
| | - Nick Roberts
- Leeds Institute of Cancer and Pathology The University of Leeds, Leeds LS9 7TF, United Kingdom
| | - George Teodoro
- Department of Computer Science, University of Brasília, Brasília, DF, Brazil
| | - Yangyang Zhu
- Department of Mathematics and Computer Science, Emory University, Atlanta, GA, USA
| | - Jun Kong
- Department of Biomedical Informatics, Emory University, Atlanta, GA, USA
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Haux R, Lehmann CU. From bed to bench: bridging from informatics practice to theory: an exploratory analysis. Appl Clin Inform 2015; 5:907-15. [PMID: 25589906 DOI: 10.4338/aci-2014-10-ra-0095] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2014] [Accepted: 10/22/2014] [Indexed: 11/23/2022] Open
Abstract
BACKGROUND In 2009, Applied Clinical Informatics (ACI)--focused on applications in clinical informatics--was launched as a companion journal to Methods of Information in Medicine (MIM). Both journals are official journals of the International Medical Informatics Association. OBJECTIVES To explore which congruencies and interdependencies exist in publications from theory to practice and from practice to theory and to determine existing gaps. Major topics discussed in ACI and MIM were analyzed. We explored if the intention of publishing companion journals to provide an information bridge from informatics theory to informatics practice and vice versa could be supported by this model. In this manuscript we will report on congruencies and interdependences from practice to theory and on major topics in MIM. METHODS Retrospective, prolective observational study on recent publications of ACI and MIM. All publications of the years 2012 and 2013 were indexed and analyzed. RESULTS Hundred and ninety-six publications were analyzed (ACI 87, MIM 109). In MIM publications, modelling aspects as well as methodological and evaluation approaches for the analysis of data, information, and knowledge in biomedicine and health care were frequently raised - and often discussed from an interdisciplinary point of view. Important themes were ambient-assisted living, anatomic spatial relations, biomedical informatics as scientific discipline, boosting, coding, computerized physician order entry, data analysis, grid and cloud computing, health care systems and services, health-enabling technologies, health information search, health information systems, imaging, knowledge-based decision support, patient records, signal analysis, and web science. Congruencies between journals could be found in themes, but with a different focus on content. Interdependencies from practice to theory, found in these publications, were only limited. CONCLUSIONS Bridging from informatics theory to practice and vice versa remains a major component of successful research and practice as well as a major challenge.
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Affiliation(s)
- R Haux
- Peter L. Reichertz Institute for Medical Informatics, University of Braunschweig and Hannover Medical School , Germany
| | - C U Lehmann
- Departments of Pediatrics and Biomedical Informatics, Vanderbilt University , Nashville, TN, USA
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Lehmann CU, Haux R. From bench to bed: bridging from informatics theory to practice. An exploratory analysis. Methods Inf Med 2014; 53:511-5. [PMID: 25377761 DOI: 10.3414/me14-01-0098] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 10/21/2014] [Indexed: 11/09/2022]
Abstract
BACKGROUND In 2009, the journal Applied Clinical Informatics (ACI) commenced publication. Focused on applications in clinical informatics, ACI was intended to be a companion journal to METHODS of Information in Medicine (MIM). Both journals are official journals of IMIA, the International Medical Informatics Association. OBJECTIVES To explore, after five years, which congruencies and interdependencies exist in publications of these journals and to determine if gaps exist. To achieve this goal, major topics discussed in ACI and in MIM had to be analysed. Finally, we wanted to explore, whether the intention of publishing these companion journals to provide an information bridge from informatics theory to informatics practice and from practice to theory could be supported by this model. In this manuscript we will report on congruencies and interdependencies from practise to theory and on major topis in ACI. Further results will be reported in a second paper. METHODS Retrospective, prolective observational study on recent publications of ACI and MIM. All publications of the years 2012 and 2013 from these journals were indexed and analysed. RESULTS Hundred and ninety-six publications have been analysed (87 ACI, 109 MIM). In ACI publications addressed care coordination, shared decision support, and provider communication in its importance for complex patient care and safety and quality. Other major themes included improving clinical documentation quality and efficiency, effectiveness of clinical decision support and alerts, implementation of health information technology systems including discussion of failures and succeses. An emerging topic in the years analyzed was a focus on health information technology to predict and prevent hospital admissions and managing population health including the application of mobile health technology. Congruencies between journals could be found in themes, but with different focus in its contents. Interdependencies from practise to theory found in these publications, were only limited. CONCLUSIONS Bridging from informatics theory to practise and vice versa remains a major component of successful research and practise as well as a major challenge.
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Affiliation(s)
- C U Lehmann
- Prof. Dr. Christoph U. Lehmann, Pediatrics and Biomedical Informatics, Vanderbilt University, 2200 Children's Way, 11111 Doctors' Office Tower, Nashville, TN 37232-9544, USA, E-mail:
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