1
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Koch C, Lenhard S, Räschle M, Prescianotto-Baschong C, Spang A, Herrmann JM. The ER-SURF pathway uses ER-mitochondria contact sites for protein targeting to mitochondria. EMBO Rep 2024; 25:2071-2096. [PMID: 38565738 PMCID: PMC11014988 DOI: 10.1038/s44319-024-00113-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2023] [Revised: 02/14/2024] [Accepted: 02/20/2024] [Indexed: 04/04/2024] Open
Abstract
Most mitochondrial proteins are synthesized on cytosolic ribosomes and imported into mitochondria in a post-translational reaction. Mitochondrial precursor proteins which use the ER-SURF pathway employ the surface of the endoplasmic reticulum (ER) as an important sorting platform. How they reach the mitochondrial import machinery from the ER is not known. Here we show that mitochondrial contact sites play a crucial role in the ER-to-mitochondria transfer of precursor proteins. The ER mitochondria encounter structure (ERMES) and Tom70, together with Djp1 and Lam6, are part of two parallel and partially redundant ER-to-mitochondria delivery routes. When ER-to-mitochondria transfer is prevented by loss of these two contact sites, many precursors of mitochondrial inner membrane proteins are left stranded on the ER membrane, resulting in mitochondrial dysfunction. Our observations support an active role of the ER in mitochondrial protein biogenesis.
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Affiliation(s)
- Christian Koch
- Cell Biology, University of Kaiserslautern, Kaiserslautern, Germany
| | - Svenja Lenhard
- Cell Biology, University of Kaiserslautern, Kaiserslautern, Germany
| | - Markus Räschle
- Molecular Genetics, University of Kaiserslautern, Kaiserslautern, Germany
| | | | - Anne Spang
- Biozentrum, University of Basel, 4056, Basel, Switzerland
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2
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Agrawal RR, Larrea D, Xu Y, Shi L, Zirpoli H, Cummins LG, Emmanuele V, Song D, Yun TD, Macaluso FP, Min W, Kernie SG, Deckelbaum RJ, Area-Gomez E. Alzheimer's-Associated Upregulation of Mitochondria-Associated ER Membranes After Traumatic Brain Injury. Cell Mol Neurobiol 2023; 43:2219-2241. [PMID: 36571634 PMCID: PMC10287820 DOI: 10.1007/s10571-022-01299-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2021] [Accepted: 10/04/2022] [Indexed: 12/27/2022]
Abstract
Traumatic brain injury (TBI) can lead to neurodegenerative diseases such as Alzheimer's disease (AD) through mechanisms that remain incompletely characterized. Similar to AD, TBI models present with cellular metabolic alterations and modulated cleavage of amyloid precursor protein (APP). Specifically, AD and TBI tissues display increases in amyloid-β as well as its precursor, the APP C-terminal fragment of 99 a.a. (C99). Our recent data in cell models of AD indicate that C99, due to its affinity for cholesterol, induces the formation of transient lipid raft domains in the ER known as mitochondria-associated endoplasmic reticulum (ER) membranes ("MAM" domains). The formation of these domains recruits and activates specific lipid metabolic enzymes that regulate cellular cholesterol trafficking and sphingolipid turnover. Increased C99 levels in AD cell models promote MAM formation and significantly modulate cellular lipid homeostasis. Here, these phenotypes were recapitulated in the controlled cortical impact (CCI) model of TBI in adult mice. Specifically, the injured cortex and hippocampus displayed significant increases in C99 and MAM activity, as measured by phospholipid synthesis, sphingomyelinase activity and cholesterol turnover. In addition, our cell type-specific lipidomics analyses revealed significant changes in microglial lipid composition that are consistent with the observed alterations in MAM-resident enzymes. Altogether, we propose that alterations in the regulation of MAM and relevant lipid metabolic pathways could contribute to the epidemiological connection between TBI and AD.
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Affiliation(s)
- Rishi R Agrawal
- Institute of Human Nutrition, Columbia University Irving Medical Center, 630 W. 168th St., Presbyterian Hospital 15E-1512, New York, NY, 10032, USA.
- Denali Therapeutics Inc., 161 Oyster Point Blvd., South San Francisco, CA, 94080, USA.
| | - Delfina Larrea
- Department of Neurology, Neurological Institute, Columbia University Irving Medical Center, 710 W. 168th St., New York, NY, 10032, USA
| | - Yimeng Xu
- Biomarkers Core Laboratory, Department of Pathology and Cell Biology, Columbia University Irving Medical Center, 622 W. 168th St., Presbyterian Hospital 10-105, New York, NY, 10032, USA
| | - Lingyan Shi
- Department of Chemistry, Columbia University, 3000 Broadway, Havemeyer Hall, New York, NY, 10027, USA
- Shu Chien-Gene Lay Department of Bioengineering, University of California San Diego, 9500 Gilman Drive, La Jolla, CA, 92093, USA
| | - Hylde Zirpoli
- Institute of Human Nutrition, Columbia University Irving Medical Center, 630 W. 168th St., Presbyterian Hospital 15E-1512, New York, NY, 10032, USA
| | - Leslie G Cummins
- Analytical Imaging Facility, Albert Einstein College of Medicine, 1300 Morris Park Ave., Bronx, NY, 10461, USA
| | - Valentina Emmanuele
- Department of Neurology, Neurological Institute, Columbia University Irving Medical Center, 710 W. 168th St., New York, NY, 10032, USA
| | - Donghui Song
- Department of Chemistry, Columbia University, 3000 Broadway, Havemeyer Hall, New York, NY, 10027, USA
| | - Taekyung D Yun
- Department of Neurology, Neurological Institute, Columbia University Irving Medical Center, 710 W. 168th St., New York, NY, 10032, USA
| | - Frank P Macaluso
- Analytical Imaging Facility, Albert Einstein College of Medicine, 1300 Morris Park Ave., Bronx, NY, 10461, USA
| | - Wei Min
- Biomarkers Core Laboratory, Department of Pathology and Cell Biology, Columbia University Irving Medical Center, 622 W. 168th St., Presbyterian Hospital 10-105, New York, NY, 10032, USA
| | - Steven G Kernie
- Department of Neurology, Neurological Institute, Columbia University Irving Medical Center, 710 W. 168th St., New York, NY, 10032, USA
- Department of Pediatrics, Columbia University Irving Medical Center, 622 W. 168th St., Presbyterian Hospital 17, New York, NY, 10032, USA
| | - Richard J Deckelbaum
- Institute of Human Nutrition, Columbia University Irving Medical Center, 630 W. 168th St., Presbyterian Hospital 15E-1512, New York, NY, 10032, USA
- Department of Pediatrics, Columbia University Irving Medical Center, 622 W. 168th St., Presbyterian Hospital 17, New York, NY, 10032, USA
| | - Estela Area-Gomez
- Institute of Human Nutrition, Columbia University Irving Medical Center, 630 W. 168th St., Presbyterian Hospital 15E-1512, New York, NY, 10032, USA.
- Department of Neurology, Neurological Institute, Columbia University Irving Medical Center, 710 W. 168th St., New York, NY, 10032, USA.
- Centro de Investigaciones Biológicas Margarita Salas - CSIC, C. Ramiro de Maeztu, 9, 28040, Madrid, Spain.
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3
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Amado L, Cogan AP, Montoro AG. Tethering proteins of the same contact site affect the localization and mobility of each other. J Cell Sci 2023:316693. [PMID: 37303255 DOI: 10.1242/jcs.260786] [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] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2022] [Accepted: 06/06/2023] [Indexed: 06/13/2023] Open
Abstract
Membrane contact sites enable the exchange of metabolites between subcellular compartments and regulate organelle dynamics and positioning. These structures often contain multiple proteins that tether the membranes, establishing the apposition and functionalizing the structure. In this work, we use drug-inducible tethers in vivo to address how different tethers influence each other. We find that the establishment of a region of membrane proximity can recruit tethers, influencing their distribution between different localizations or protein complexes. In addition, restricting the localization of one tether to a subdomain of an organelle causes other tethers to be restricted there. Finally, we show that the mobility of contact site tethers can also be influenced by other tethers of the same interface. Overall, our results show that the presence of other tethers at contact sites is an important determinant of the behavior of tethering proteins. This suggests that contact sites with multiple tethers are controlled by the interplay between specific molecular interactions and the cross-influence of tethers of the same interface.
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Affiliation(s)
- Lucia Amado
- Department of Biology/Chemistry, Cellular Communication Laboratory, Osnabrück University, Barbarastraße 13, D-49076 Osnabrück, Germany
| | - Alexandra P Cogan
- Department of Biology/Chemistry, Cellular Communication Laboratory, Osnabrück University, Barbarastraße 13, D-49076 Osnabrück, Germany
| | - Ayelén González Montoro
- Department of Biology/Chemistry, Cellular Communication Laboratory, Osnabrück University, Barbarastraße 13, D-49076 Osnabrück, Germany
- Center of Cellular Nanoanalytics (CellNanOs), Osnabrück University, Barbarastraße 11, D-49076 Osnabrück, Germany
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4
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Khosravi S, Chelius X, Unger AK, Rieger D, Frickel J, Sachsenheimer T, Lüchtenborg C, Schieweck R, Brügger B, Westermann B, Klecker T, Neupert W, Harner ME. The UbiB family member Cqd1 forms a novel membrane contact site in mitochondria. J Cell Sci 2023; 136:310504. [PMID: 37073556 DOI: 10.1242/jcs.260578] [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] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2022] [Accepted: 04/11/2023] [Indexed: 04/20/2023] Open
Abstract
Mitochondria are essential organelles of eukaryotic cells that are characterized by their unique and complex membrane system. They are confined from the cytosol by an envelope consisting of two membranes. Signals, metabolites, proteins and lipids have to be transferred across these membranes via proteinaceous contact sites to keep mitochondria functional. In the present study we identified a novel mitochondrial contact site that is formed by the inner membrane protein Cqd1 and the outer membrane proteins Por1 and Om14. Similar to the mitochondrial porin, Por1, Cqd1 is highly conserved, suggesting that this complex is conserved in form and function from yeast to human. Cqd1 is a member of the UbiB protein kinase-like family (also called aarF domain containing kinases). It was recently shown that Cqd1 in cooperation with Cqd2 controls the cellular distribution of coenzyme Q by a yet unknown mechanism. Our data suggest that Cqd1 is additionally involved in phospholipid homeostasis. Moreover, overexpression of CQD1 and CQD2 causes tethering of mitochondria to the endoplasmic reticulum, which might explain the ability of Cqd2 to rescue ERMES deletion phenotypes.
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Affiliation(s)
- Siavash Khosravi
- Department of Cell Biology, Biomedical Center, Medical Faculty, Ludwig-Maximilians University Munich, 82152 Planegg/Martinsried, Germany
| | - Xenia Chelius
- Institute of Cell Biology, University of Bayreuth, 95440 Bayreuth, Germany
| | - Ann-Katrin Unger
- Institute of Cell Biology, University of Bayreuth, 95440 Bayreuth, Germany
| | - Daniela Rieger
- Department of Cell Biology, Biomedical Center, Medical Faculty, Ludwig-Maximilians University Munich, 82152 Planegg/Martinsried, Germany
| | - Johanna Frickel
- Department of Cell Biology, Biomedical Center, Medical Faculty, Ludwig-Maximilians University Munich, 82152 Planegg/Martinsried, Germany
| | - Timo Sachsenheimer
- Heidelberg University Biochemistry Center (BZH), 69120 Heidelberg, Germany
| | | | - Rico Schieweck
- Department of Cell Biology, Biomedical Center, Medical Faculty, Ludwig-Maximilians University Munich, 82152 Planegg/Martinsried, Germany
| | - Britta Brügger
- Heidelberg University Biochemistry Center (BZH), 69120 Heidelberg, Germany
| | | | - Till Klecker
- Institute of Cell Biology, University of Bayreuth, 95440 Bayreuth, Germany
| | - Walter Neupert
- Department of Cell Biology, Biomedical Center, Medical Faculty, Ludwig-Maximilians University Munich, 82152 Planegg/Martinsried, Germany
| | - Max E Harner
- Department of Cell Biology, Biomedical Center, Medical Faculty, Ludwig-Maximilians University Munich, 82152 Planegg/Martinsried, Germany
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5
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Rahhali K, Di Lisa F, Kaludercic N. IP 3 receptor trafficking at the ER-mitochondria contacts impacts on mitochondrial Ca 2+ homeostasis and metabolism. Cell Calcium 2023; 110:102700. [PMID: 36716521 DOI: 10.1016/j.ceca.2023.102700] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2023] [Accepted: 01/22/2023] [Indexed: 01/26/2023]
Abstract
The close contacts between endoplasmic reticulum and mitochondria (ERMCs) play a key role in metabolic regulation, Ca2+ homeostasis, reactive oxygen species production, and many other cell functions. Nevertheless, it is not fully clear how these contacts dynamically rearrange to support cell functions. In a recent Nature Communications article [1], Katona et al. elegantly showed that motile IP3Rs can be captured at ERMCs to promptly mediate Ca2+ transfer and stimulate mitochondrial oxidative metabolism.
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Affiliation(s)
- Karim Rahhali
- Department of Biomedical Sciences, University of Padova, Italy
| | - Fabio Di Lisa
- Department of Biomedical Sciences, University of Padova, Italy; Neuroscience Institute, National Research Council of Italy (CNR), Italy
| | - Nina Kaludercic
- Department of Biomedical Sciences, University of Padova, Italy; Neuroscience Institute, National Research Council of Italy (CNR), Italy; Fondazione Istituto di Ricerca Pediatrica Città della Speranza (IRP), Italy.
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6
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Deori NM, Nagotu S. Peroxisome biogenesis and inter-organelle communication: an indispensable role for Pex11 and Pex30 family proteins in yeast. Curr Genet 2022; 68:537-550. [PMID: 36242632 DOI: 10.1007/s00294-022-01254-y] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2022] [Revised: 08/29/2022] [Accepted: 08/31/2022] [Indexed: 11/26/2022]
Abstract
Peroxisomes are highly dynamic organelles present in most eukaryotic cells. They also play an important role in human health and the optimum functioning of cells. An extensive repertoire of proteins is associated with the biogenesis and function of these organelles. Two protein families that are involved in regulating peroxisome number in a cell directly or indirectly are Pex11 and Pex30. Interestingly, these proteins are also reported to regulate the contact sites between peroxisomes and other cell organelles such as mitochondria, endoplasmic reticulum and lipid droplets. In this manuscript, we review our current knowledge of the role of these proteins in peroxisome biogenesis in various yeast species. Further, we also discuss in detail the role of these protein families in the regulation of inter-organelle contacts in yeast.
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Affiliation(s)
- Nayan Moni Deori
- Organelle Biology and Cellular Ageing Lab, Department of Biosciences and Bioengineering, Indian Institute of Technology Guwahati, Guwahati, Assam, 781039, India
| | - Shirisha Nagotu
- Organelle Biology and Cellular Ageing Lab, Department of Biosciences and Bioengineering, Indian Institute of Technology Guwahati, Guwahati, Assam, 781039, India.
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7
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Martín G, Bosch M, Coll E, Parton RG, Pol A, Calvo M. ContactJ: Characterization of lipid droplet-mitochondrial contacts using fluorescence microscopy and image analysis. F1000Res 2022; 10:263. [PMID: 35169460 PMCID: PMC8812330 DOI: 10.12688/f1000research.51900.2] [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] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Accepted: 01/13/2022] [Indexed: 12/17/2022] Open
Abstract
Lipid droplets (LDs) are the major lipid storage organelles of eukaryotic cells and together with mitochondria key regulators of cell bioenergetics. LDs communicate with mitochondria and other organelles forming “metabolic synapse” contacts to ensure that lipid supply occurs where and when necessary. Although transmission electron microscopy analysis allows an accurate and precise analysis of contacts, the characterization of a large number of cells and conditions can become a long-term process. In order to extend contact analysis to hundreds of cells and multiple conditions, we have combined confocal fluorescence microscopy with advanced image analysis methods. In this work, we have developed the ImageJ macro script ContactJ, a novel and straight image analysis method to identify and quantify contacts between LD and mitochondria in fluorescence microscopy images allowing the automatic analysis. This image analysis workflow combines colocalization and skeletonization methods, enabling the quantification of LD-mitochondria contacts together with a complete characterization of organelles and cellular parameters. The correlation and normalization of these parameters contribute to the complex description of cell behavior under different experimental energetic states. ContactJ is available here:
https://doi.org/10.5281/zenodo.5810874
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Affiliation(s)
- Gemma Martín
- Advanced Optical Microscopy Facility. Scientific and Technological Centers, University of Barcelona, Barcelona, 08036, Spain
| | - Marta Bosch
- Biomedicine Department. School of Medicine, University of Barcelona, Barcelona, 08036, Spain.,Cell Compartments and Signaling Group, Institut d'Investigacions Biomèdiques August Pi i Sunyer (IDIBAPS), Barcelona, 08036, Spain
| | - Elisenda Coll
- Advanced Optical Microscopy Facility. Scientific and Technological Centers, University of Barcelona, Barcelona, 08036, Spain
| | - Robert G Parton
- Institute for Molecular Bioscience (IMB), University of Queensland, Brisbane, Queensland, 4072, Australia.,Centre for Microscopy and Microanalysis, University of Queensland, Brisbane, Queensland, 4072, Australia
| | - Albert Pol
- Biomedicine Department. School of Medicine, University of Barcelona, Barcelona, 08036, Spain.,Cell Compartments and Signaling Group, Institut d'Investigacions Biomèdiques August Pi i Sunyer (IDIBAPS), Barcelona, 08036, Spain.,Institució Catalana de Recerca i Estudis Avançats (ICREA), Barcelona, 08010, Spain
| | - Maria Calvo
- Advanced Optical Microscopy Facility. Scientific and Technological Centers, University of Barcelona, Barcelona, 08036, Spain.,Biomedicine Department. School of Medicine, University of Barcelona, Barcelona, 08036, Spain
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8
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Jain A, Zoncu R. Organelle transporters and inter-organelle communication as drivers of metabolic regulation and cellular homeostasis. Mol Metab 2022; 60:101481. [PMID: 35342037 PMCID: PMC9043965 DOI: 10.1016/j.molmet.2022.101481] [Citation(s) in RCA: 25] [Impact Index Per Article: 12.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 01/28/2022] [Revised: 03/14/2022] [Accepted: 03/21/2022] [Indexed: 12/22/2022] Open
Abstract
Background Spatial compartmentalization of metabolic pathways within membrane-separated organelles is key to the ability of eukaryotic cells to precisely regulate their biochemical functions. Membrane-bound organelles such as mitochondria, endoplasmic reticulum (ER) and lysosomes enable the concentration of metabolic precursors within optimized chemical environments, greatly accelerating the efficiency of both anabolic and catabolic reactions, enabling division of labor and optimal utilization of resources. However, metabolic compartmentalization also poses a challenge to cells because it creates spatial discontinuities that must be bridged for reaction cascades to be connected and completed. To do so, cells employ different methods to coordinate metabolic fluxes occurring in different organelles, such as membrane-localized transporters to facilitate regulated metabolite exchange between mitochondria and lysosomes, non-vesicular transport pathways via physical contact sites connecting the ER with both mitochondria and lysosomes, as well as localized regulatory signaling processes that coordinately regulate the activity of all these organelles. Scope of review This review covers how cells use membrane transporters, membrane contact sites, and localized signaling pathways to mediate inter-organelle communication and coordinate metabolism. We also describe how disruption of inter-organelle communication is an emerging driver in a multitude of diseases, from cancer to neurodegeneration. Major conclusions Effective communication among organelles is essential to cellular health and function. Identifying the major molecular players involved in mediating metabolic coordination between organelles will further our understanding of cellular metabolism in health and lead us to design better therapeutics against dysregulated metabolism in disease.
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Affiliation(s)
- Aakriti Jain
- Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA 94720, USA
| | - Roberto Zoncu
- Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA 94720, USA.
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9
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Abstract
In the general context of an increasing prevalence of obesity-associated diseases, which follows changing paradigms in food consumption and worldwide use of industry-transformed foodstuffs, much attention has been given to the consequences of excessive fattening on health. Highly related to this clinical problem, studies at the cellular and molecular level are focused on the fundamental mechanism of lipid handling in dedicated lipid droplet (LD) organelles. This Review briefly summarizes how views on LD functions have evolved from those of a specialized intracellular compartment dedicated to lipid storage to exerting a more generalized role in the stress response. We focus on the current understanding of how proteins bind to LDs and determine their function, and on the new paradigms that have emerged from the discoveries of the multiple contact sites formed by LDs. We argue that elucidating the important roles of LD tethering to other cellular organelles allows for a better understanding of LD diversity and dynamics.
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Affiliation(s)
- Abdou Rachid Thiam
- Laboratoire de Physique de l'École Normale Supérieure, ENS, Université PSL, CNRS, Sorbonne Université, Université Paris-Diderot, Sorbonne Paris Cité, 75005 Paris, France
| | - Isabelle Dugail
- U1269 INSERM/Sorbonne Université, Nutriomics, Faculté de Médecine Pitié-Salpêtrière, 75013 Paris, France
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10
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Ktistakis NT. ER platforms mediating autophagosome generation. Biochim Biophys Acta Mol Cell Biol Lipids 2019; 1865:158433. [PMID: 30890442 DOI: 10.1016/j.bbalip.2019.03.005] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [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: 02/05/2019] [Revised: 03/12/2019] [Accepted: 03/13/2019] [Indexed: 12/12/2022]
Abstract
The origin of the autophagosomal membrane started to be debated by scientists working in the field within one year of the modern definition of autophagy in 1963. There is now converging evidence from older and newer studies that the endoplasmic reticulum is involved in formation of autophagosomes. Thus, it is possible to trace from early morphological work - done without the benefit of molecular descriptions - to recent studies - dissecting how specific proteins nucleate autophagosome biogenesis - a long series of experimental findings that are beginning to answer the 55-year old question with some confidence. The view that has emerged is that specialised regions of the endoplasmic reticulum, in dynamic cross talk with most intracellular organelles via membrane contact sites, provide a platform for autophagosome biogenesis.
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11
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Kumagai K, Elwell CA, Ando S, Engel JN, Hanada K. Both the N- and C- terminal regions of the Chlamydial inclusion protein D (IncD) are required for interaction with the pleckstrin homology domain of the ceramide transport protein CERT. Biochem Biophys Res Commun 2018; 505:1070-1076. [PMID: 30314703 DOI: 10.1016/j.bbrc.2018.09.168] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2018] [Accepted: 09/26/2018] [Indexed: 11/24/2022]
Abstract
Chlamydia trachomatis is an obligate intracellular bacterium that replicates within a membranous compartment, the inclusion, in host cells. Its intracellular life cycle requires host sphingolipids, which are in part acquired through the ER-Golgi localized ceramide transport protein (CERT). The Chlamydia-encoded inclusion membrane protein IncD is composed of two closely linked long hydrophobic domains with their N- and C-termini exposed to the host cytosol. IncD binds directly to the pleckstrin homology (PH) domain of CERT, likely redirecting ceramide to the inclusion. The precise regions of IncD required for this interaction have not been delineated. Using co-transfection studies together with phylogenetic studies, we demonstrate that both the IncD N- and C-terminal regions are required for binding to the CERT PH domain and define key interaction residues. Native gel electrophoresis analysis demonstrates that the transmembrane region of IncD forms SDS-resistant but dithiothreitol-sensitive homodimers, which in turn can assemble to form higher order oligomers through additional N- and C-terminal domain contacts. IncD oligomerization may facilitate high affinity binding to CERT, allowing C. trachomatis to efficiently redirect host ceramide to the inclusion.
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Affiliation(s)
- Keigo Kumagai
- Department of Biochemistry and Cell Biology, National Institute of Infectious Diseases, 1-23-1 Toyama, Shinjuku-ku, Tokyo, 162-8640, Japan.
| | - Cherilyn A Elwell
- Department of Medicine, University of California, San Francisco, CA, USA
| | - Shuji Ando
- Department of Virology I, National Institute of Infectious Diseases, 1-23-1 Toyama, Shinjuku-ku, Tokyo, 162-8640, Japan
| | - Joanne N Engel
- Department of Medicine, University of California, San Francisco, CA, USA; Department of Microbiology and Immunology, University of California, San Francisco, CA, USA
| | - Kentaro Hanada
- Department of Biochemistry and Cell Biology, National Institute of Infectious Diseases, 1-23-1 Toyama, Shinjuku-ku, Tokyo, 162-8640, Japan.
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12
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Akşit A, van der Klei IJ. Yeast peroxisomes: How are they formed and how do they grow? Int J Biochem Cell Biol 2018; 105:24-34. [PMID: 30268746 DOI: 10.1016/j.biocel.2018.09.019] [Citation(s) in RCA: 20] [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: 06/22/2018] [Revised: 09/24/2018] [Accepted: 09/25/2018] [Indexed: 01/01/2023]
Abstract
Peroxisomes are single membrane enclosed cell organelles, which are present in almost all eukaryotic cells. In addition to the common peroxisomal pathways such as β-oxidation of fatty acids and decomposition of H2O2, these organelles fulfil a range of metabolic and non-metabolic functions. Peroxisomes are very important since various human disorders exist that are caused by a defect in peroxisome function. Here we describe our current knowledge on the molecular mechanisms of peroxisome biogenesis in yeast, including peroxisomal protein sorting, organelle dynamics and peroxisomal membrane contact sites.
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Affiliation(s)
- Arman Akşit
- Molecular Cell Biology, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, the Netherlands
| | - Ida J van der Klei
- Molecular Cell Biology, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, the Netherlands.
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13
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Wu H, de Boer R, Krikken AM, Akşit A, Yuan W, van der Klei IJ. Peroxisome development in yeast is associated with the formation of Pex3-dependent peroxisome-vacuole contact sites. Biochim Biophys Acta Mol Cell Res 2018; 1866:349-359. [PMID: 30595161 DOI: 10.1016/j.bbamcr.2018.08.021] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/24/2018] [Revised: 08/28/2018] [Accepted: 08/30/2018] [Indexed: 12/29/2022]
Abstract
Using electron and fluorescence microscopy techniques, we identified various physical contacts between peroxisomes and other cell organelles in the yeast Hansenula polymorpha. In exponential glucose-grown cells, which typically contain a single small peroxisome, contacts were only observed with the endoplasmic reticulum and the plasma membrane. Here we focus on a novel peroxisome-vacuole contact site that is formed when glucose-grown cells are shifted to methanol containing media, conditions that induce strong peroxisome development. At these conditions, the small peroxisomes rapidly increase in size, a phenomenon that is paralleled by the formation of distinct intimate contacts with the vacuole. Localization studies showed that the peroxin Pex3 accumulated in patches at the peroxisome-vacuole contact sites. In wild-type cells growing exponentially on medium containing glucose, peroxisome-vacuole contact sites were never observed. However, upon overproduction of Pex3 peroxisomes also associated to vacuoles at these growth conditions. Our observations strongly suggest a role for Pex3 in the formation of a novel peroxisome-vacuole contact site. This contact likely plays a role in membrane growth as it is formed solely at conditions of strong peroxisome expansion.
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Affiliation(s)
- Huala Wu
- Molecular Cell Biology, University of Groningen, PO Box 11103, 9300, CC, Groningen, the Netherlands
| | - Rinse de Boer
- Molecular Cell Biology, University of Groningen, PO Box 11103, 9300, CC, Groningen, the Netherlands
| | - Arjen M Krikken
- Molecular Cell Biology, University of Groningen, PO Box 11103, 9300, CC, Groningen, the Netherlands
| | - Arman Akşit
- Molecular Cell Biology, University of Groningen, PO Box 11103, 9300, CC, Groningen, the Netherlands
| | - Wei Yuan
- Molecular Cell Biology, University of Groningen, PO Box 11103, 9300, CC, Groningen, the Netherlands
| | - Ida J van der Klei
- Molecular Cell Biology, University of Groningen, PO Box 11103, 9300, CC, Groningen, the Netherlands.
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14
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Abstract
Peroxisomes are dynamic organelles essential for optimum functioning of a eukaryotic cell. Biogenesis of these organelles and the diverse functions performed by them have been extensively studied in the past decade. Their ability to perform functions depending on the cell type and growth conditions is unique and remarkable. Oxidation of fatty acids and reactive oxygen species metabolism are the two most important functions of these ubiquitous organelles. They are often referred to as both source and sink of reactive oxygen species in a cell. Recent research connects peroxisome dysfunction to fatal oxidative damage associated with ageing-related diseases/disorders. It is now widely accepted that mitochondria and peroxisomes are required to maintain oxidative balance in a cell. However, our understanding on the inter-dependence of these organelles to maintain cellular homeostasis of reactive oxygen species is still in its infancy. Herein, we summarize findings that highlight the role of peroxisomes in cellular reactive oxygen species metabolism, ageing and age-related disorders.
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Affiliation(s)
- Nayan M Deori
- Department of Biosciences and Bioengineering, Indian Institute of Technology Guwahati, Guwahati, 781039, Assam, India
| | - Avinash Kale
- UM-DAE, Centre for Excellence in Basic Sciences, Health Centre, University of Mumbai, Mumbai, 400098, India
| | - Pawan K Maurya
- Interdisciplinary Laboratory for Clinical Neuroscience (LiNC), Universidade Federal de Sao Paulo-UNIFESP, Sao Paulo, Brazil
| | - Shirisha Nagotu
- Department of Biosciences and Bioengineering, Indian Institute of Technology Guwahati, Guwahati, 781039, Assam, India.
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15
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Schorr S, van der Laan M. Integrative functions of the mitochondrial contact site and cristae organizing system. Semin Cell Dev Biol 2017; 76:191-200. [PMID: 28923515 DOI: 10.1016/j.semcdb.2017.09.021] [Citation(s) in RCA: 40] [Impact Index Per Article: 5.7] [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: 07/26/2017] [Revised: 09/13/2017] [Accepted: 09/14/2017] [Indexed: 12/23/2022]
Abstract
Mitochondria are complex double-membrane-bound organelles of eukaryotic cells that function as energy-converting powerhouses, metabolic factories and signaling centers. The outer membrane controls the exchange of material and information with other cellular compartments. The inner membrane provides an extended, highly folded surface for selective transport and energy-coupling reactions. It can be divided into an inner boundary membrane and tubular or lamellar cristae membranes that accommodate the oxidative phosphorylation units. Outer membrane, inner boundary membrane and cristae come together at crista junctions, where the mitochondrial contact site and cristae organizing system (MICOS) acts as a membrane-shaping and -connecting scaffold. This peculiar architecture is of pivotal importance for multiple mitochondrial functions. Many elaborate studies in the past years have shed light on the subunit composition and organization of MICOS. In this review article, we summarize these insights and then move on to discuss exciting recent discoveries on the integrative functions of MICOS. Multi-faceted connections to other major players of mitochondrial biogenesis and physiology, like the protein import machineries, the oxidative phosphorylation system, carrier proteins and phospholipid biosynthesis enzymes, are currently emerging. Therefore, we propose that MICOS acts as a central hub in mitochondrial membrane architecture and functionality.
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Affiliation(s)
- Stefan Schorr
- Medical Biochemistry and Molecular Biology, Center for Molecular Signaling, PZMS, Saarland University, School of Medicine, 66421, Homburg, Germany
| | - Martin van der Laan
- Medical Biochemistry and Molecular Biology, Center for Molecular Signaling, PZMS, Saarland University, School of Medicine, 66421, Homburg, Germany.
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16
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Wollweber F, von der Malsburg K, van der Laan M. Mitochondrial contact site and cristae organizing system: A central player in membrane shaping and crosstalk. Biochim Biophys Acta Mol Cell Res 2017; 1864:1481-9. [PMID: 28526561 DOI: 10.1016/j.bbamcr.2017.05.004] [Citation(s) in RCA: 68] [Impact Index Per Article: 9.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/12/2017] [Accepted: 05/01/2017] [Indexed: 01/08/2023]
Abstract
Mitochondria are multifunctional metabolic factories and integrative signaling organelles of eukaryotic cells. The structural basis for their numerous functions is a complex and dynamic double-membrane architecture. The outer membrane connects mitochondria to the cytosol and other organelles. The inner membrane is composed of a boundary region and highly folded cristae membranes. The evolutionarily conserved mitochondrial contact site and cristae organizing system (MICOS) connects the two inner membrane domains via formation and stabilization of crista junction structures. Moreover, MICOS establishes contact sites between inner and outer mitochondrial membranes by interacting with outer membrane protein complexes. MICOS deficiency leads to a grossly altered inner membrane architecture resulting in far-reaching functional perturbations in mitochondria. Consequently, mutations affecting the function of MICOS are responsible for a diverse spectrum of human diseases. In this article, we summarize recent insights and concepts on the role of MICOS in the organization of mitochondrial membranes. This article is part of a Special Issue entitled: Membrane Contact Sites edited by Christian Ungermann and Benoit Kornmann.
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17
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Eisenberg-Bord M, Schuldiner M. Mitochatting - If only we could be a fly on the cell wall. Biochim Biophys Acta Mol Cell Res 2017; 1864:1469-1480. [PMID: 28433686 DOI: 10.1016/j.bbamcr.2017.04.012] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Received: 01/07/2017] [Revised: 04/12/2017] [Accepted: 04/18/2017] [Indexed: 12/24/2022]
Abstract
Mitochondria, cellular metabolic hubs, perform many essential processes and are required for the production of metabolites such as ATP, iron-sulfur clusters, heme, amino acids and nucleotides. To fulfill their multiple roles, mitochondria must communicate with all other organelles to exchange small molecules, ions and lipids. Since mitochondria are largely excluded from vesicular trafficking routes, they heavily rely on membrane contact sites. Contact sites are areas of close proximity between organelles that allow efficient transfer of molecules, saving the need for slow and untargeted diffusion through the cytosol. More globally, multiple metabolic pathways require coordination between mitochondria and additional organelles and mitochondrial activity affects all other cellular entities and vice versa. Therefore, uncovering the different means of mitochondrial communication will allow us a better understanding of mitochondria and may illuminate disease processes that occur in the absence of proper cross-talk. In this review we focus on how mitochondria interact with all other organelles and emphasize how this communication is essential for mitochondrial and cellular homeostasis. This article is part of a Special Issue entitled: Membrane Contact Sites edited by Christian Ungermann and Benoit Kornmann.
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Affiliation(s)
- Michal Eisenberg-Bord
- Department of Molecular Genetics, Weizmann Institute of Science, 7610001 Rehovot, Israel
| | - Maya Schuldiner
- Department of Molecular Genetics, Weizmann Institute of Science, 7610001 Rehovot, Israel.
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18
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Harner M. Isolation of Contact Sites Between Inner and Outer Mitochondrial Membranes. Methods Mol Biol 2017; 1567:43-51. [PMID: 28276012 DOI: 10.1007/978-1-4939-6824-4_4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register]
Abstract
Mitochondria are essential organelles of all eukaryotic cells. They perform a plethora of important metabolic functions and have a highly complex architecture that differs drastically between different cells and tissues. Mitochondria are delimited from the cytosol by the mitochondrial envelope that consists of the outer membrane and the inner membrane. The inner membrane is subdivided into the inner boundary membrane that runs parallel to the outer membrane and the crista membrane. Both sections of the inner membrane are linked by crista junctions. A further important architectural element of mitochondria are the contact sites between outer membrane and inner membrane. These sites were observed a long time ago by classical electron microscopy, but their molecular structure was identified only recently when it was recognized that proteins of crista junctions and proteins of the outer membrane are responsible for these strong contacts. Mitochondrial function is severely affected when contact sites are disturbed. This underlines the notion that mitochondrial architecture and function are intimately connected. In the following a method is described to generate and to isolate membrane vesicles from isolated yeast mitochondria that contain these contact sites.
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19
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Abstract
During the last decades, increasing evidence indicated that subcellular organelles do not exist as autarkic units but instead communicate constantly and extensively with each other in various ways. Some communication, for example, the exchange of small molecules, requires the marked convergence of two distinct organelles for a certain period of time. The cross talk between endoplasmic reticulum (ER) and mitochondria, two subcellular organelles of utmost importance for cellular bioenergetics and protein homeostasis, has been increasingly investigated under the last years. This development was significantly driven by the establishment of optimized subcellular fractionation techniques. In this chapter, we will describe and critically discuss the currently used protocol for the isolation of the membrane fraction containing mitochondria-associated membranes (MAM).
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Affiliation(s)
- Bernadette Schreiner
- Center for Alzheimer Research, Division of Neurogeriatrics, Department of Neurobiology, Care Sciences and Society,, Karolinska Institutet, SE, -141 57, Huddinge, Sweden.
| | - Maria Ankarcrona
- Center for Alzheimer Research, Division of Neurogeriatrics, Department of Neurobiology, Care Sciences and Society,, Karolinska Institutet, SE, -141 57, Huddinge, Sweden
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20
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Dimmer KS, Rapaport D. Mitochondrial contact sites as platforms for phospholipid exchange. Biochim Biophys Acta Mol Cell Biol Lipids 2016; 1862:69-80. [PMID: 27477677 DOI: 10.1016/j.bbalip.2016.07.010] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2016] [Revised: 07/21/2016] [Accepted: 07/22/2016] [Indexed: 12/15/2022]
Abstract
Mitochondria are unique organelles that contain their own - although strongly reduced - genome, and are surrounded by two membranes. While most cellular phospholipid biosynthesis takes place in the ER, mitochondria harbor the whole spectrum of glycerophospholipids common to biological membranes. Mitochondria also contribute to overall phospholipid biosynthesis in cells by producing phosphatidylethanolamine, phosphatidylglycerol, and cardiolipin. Considering these features, it is not surprising that mitochondria maintain highly active exchange of phospholipids with other cellular compartments. In this contribution we describe the transport of phospholipids between mitochondria and other organelles, and discuss recent developments in our understanding of the molecular functions of the protein complexes that mediate these processes. This article is part of a Special Issue entitled: Lipids of Mitochondria edited by Guenther Daum.
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Affiliation(s)
- Kai Stefan Dimmer
- Interfaculty Institute of Biochemistry, University of Tübingen, Hoppe-Seyler-Str. 4, 72076 Tübingen, Germany.
| | - Doron Rapaport
- Interfaculty Institute of Biochemistry, University of Tübingen, Hoppe-Seyler-Str. 4, 72076 Tübingen, Germany
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