High Glucose Exposure Impairs L-Cell Differentiation in Intestinal Organoids: Molecular Mechanisms and Clinical Implications
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The Organoid Handbook Building Better Organoids Introduction Organoid Culture
THE ORGANOID HANDBOOK BUILDING BETTER ORGANOIDS INTRODUCTION ORGANOID CULTURE An organoid is a miniaturized version of an organ produced in vitro that shows realistic micro-anatomy, is capable of self-renewal While different methods, such as the use of low adhesion round bottom dishes and bioreactors, have been employed for organoid and self-organization, and exhibits similar functionality as the tissue of origin. Organoids are model systems that, in conjunction with generation, generally organoids are cultured in tissue culture plates while embedded in “domes” of purified extracellular matrix advances in cell reprogramming technology and gene editing methods, allow unprecedented insight into human development, hydrogels and submerged in organoid-specific culture medium. Multiple organoids are often cultured in one “dome” and, with media disease modeling, drug screening, and transplantation. changes, submerged organoids can remain in long-term culture to accommodate developmental and maturation timelines. Organoids can be classified into those that are tissue-derived and those that are pluripotent stem cell-derived. Tissue-derived Passage organoids typically originate from adult tissues while stem cell-derived organoids are established from embryonic (ESC) or induced pluripotent stem cells (iPSC). Researchers have devised methods to generate physiologically relevant organoid models for many organs, including the intestines, lung, brain, liver, lung, pancreas, and heart. While methods for generating organoids are still evolving, presently -
Induced Quiescence of Lgr5+ Stem Cells in Intestinal Organoids Enables Differentiation of Hormone-Producing Enteroendocrine Cells
Article Induced Quiescence of Lgr5+ Stem Cells in Intestinal Organoids Enables Differentiation of Hormone- Producing Enteroendocrine Cells Graphical Abstract Authors Onur Basak, Joep Beumer, Kay Wiebrands, Hiroshi Seno, Alexander van Oudenaarden, Hans Clevers Correspondence [email protected] In Brief Basak et al. identify signals to generate rare enteroendocrine cells (EECs) at high purity through manipulation of intestinal stem cell quiescence. Single-cell sequencing reveals a high level of heterogeneity in hormonal production, which is influenced by the regional identity of the intestinal organoid cultures. Highlights Data Resources d EGFR inhibition halts DNA replication and proliferation of GSE80636 Lgr5+ ISCs through MEK d Lgr5+ ISCs reactivated from quiescence retain multilineage differentiation potential d Combined EGFR/Wnt/Notch inhibition produces enteroendocrine cells with high purity d RNA sequencing shows regional identity and heterogeneity in hormone-producing EECs Basak et al., 2017, Cell Stem Cell 20, 177–190 February 2, 2017 ª 2016 Elsevier Inc. http://dx.doi.org/10.1016/j.stem.2016.11.001 Cell Stem Cell Article Induced Quiescence of Lgr5+ Stem Cells in Intestinal Organoids Enables Differentiation of Hormone-Producing Enteroendocrine Cells Onur Basak,1,2,5 Joep Beumer,1,2,5 Kay Wiebrands,1,2,5 Hiroshi Seno,4 Alexander van Oudenaarden,1,2 and Hans Clevers1,2,3,6,* 1Hubrecht Institute, Royal Netherlands Academy of Arts and Sciences (KNAW), Uppsalalaan 8, 3584 CT, Utrecht the Netherlands 2Cancer Genomics Netherlands, UMC -
Brain Organoid
Agboola et al. Stem Cell Research & Therapy (2021) 12:430 https://doi.org/10.1186/s13287-021-02369-8 REVIEW Open Access Brain organoid: a 3D technology for investigating cellular composition and interactions in human neurological development and disease models in vitro Oluwafemi Solomon Agboola1, Xinglin Hu1, Zhiyan Shan1, Yanshuang Wu1* and Lei Lei1,2* Abstract The study of human brain physiology, including cellular interactions in normal and disease conditions, has been a challenge due to its complexity and unavailability. Induced pluripotent stem cell (iPSC) study is indispensable in the study of the pathophysiology of neurological disorders. Nevertheless, monolayer systems lack the cytoarchitecture necessary for cellular interactions and neurological disease modeling. Brain organoids generated from human pluripotent stem cells supply an ideal environment to model both cellular interactions and pathophysiology of the human brain. This review article discusses the composition and interactions among neural lineage and non-central nervous system cell types in brain organoids, current studies, and future perspectives in brain organoid research. Ultimately, the promise of brain organoids is to unveil previously inaccessible features of neurobiology that emerge from complex cellular interactions and to improve our mechanistic understanding of neural development and diseases. Keywords: Brain organoid, Disease model, Cellular composition, Cellular interactions, Neurological development Introduction specific region [2, 3]. The further development of our Organoids are in vitro-derived structures that undergo understanding of the development of the human nervous some level of self-organization and resemble, at least in system and elucidation of the mechanisms that lead to part, in vivo organs [1]. Organoid generation depends on brain disorders represent some of the most challenging the outstanding ability of stem cells to self-organize to ongoing endeavors in neurobiology. -
The Intestinal Epithelium Tuft Cells: Specification and Function
Cell. Mol. Life Sci. (2012) 69:2907–2917 DOI 10.1007/s00018-012-0984-7 Cellular and Molecular Life Sciences REVIEW The intestinal epithelium tuft cells: specification and function Franc¸ois Gerbe • Catherine Legraverend • Philippe Jay Received: 23 February 2012 / Revised: 21 March 2012 / Accepted: 26 March 2012 / Published online: 19 April 2012 Ó The Author(s) 2012. This article is published with open access at Springerlink.com Abstract The intestinal epithelium, composed of at least Abbreviations seven differentiated cell types, represents an extraordinary Ac-tubulin Acetylated tubulin model to understand the details of multi-lineage differen- Atoh1 Atonal homolog 1 tiation, a question that is highly relevant in developmental BrdU 5-Bromo-20-deoxyuridine biology as well as for clinical applications. This review CFTR Cystic fibrosis transmembrane conductance focuses on intestinal epithelial tuft cells that have been regulator homolog acknowledged as a separate entity for more than 60 years CK-18 Cytokeratin 18 but whose function remains a mystery. We discuss what is DCLK1 Doublecortin-like kinase 1 currently known about the molecular basis of tuft cell fate Dll Delta-like and differentiation and why elucidating tuft cell function F-actin Fibrillar actin has been so difficult. Finally, we summarize the current Gfi1 Growth factor independent 1 hypotheses on their potential involvement in diseases of the Gfi1b Growth factor independent 1b gastro-intestinal tract. GI Gastro-intestinal GIP Gastric inhibitory polypeptide Keywords Tuft cells Á Brush cells Á Intestinal epithelium Á GLP-1 Glucagon-like peptide 1 Atoh1 Á Cell differentiation Á Dclk1 Hes1 Hairy and enhancer of split 1 Hpgds Hematopoietic prostaglandin D synthase Klf4 Kruppel-like factor 4 L-FABP Fatty acid-binding protein 1, liver Lgr5 Leucine-rich repeat-containing G protein-coupled receptor 5 F. -
Generation of Differentiating and Long-Living Intestinal Organoids
cells Article Generation of Differentiating and Long-Living Intestinal Organoids Reflecting the Cellular Diversity of Canine Intestine 1, 1, 1,2, , 3 Nina Kramer * , Barbara Pratscher z , Andre M. C. Meneses y z, Waltraud Tschulenk , Ingrid Walter 3, Alexander Swoboda 1, Hedwig S. Kruitwagen 2, Kerstin Schneeberger 2, Louis C. Penning 2, Bart Spee 2 , Matthias Kieslinger 1, Sabine Brandt 4 and Iwan A. Burgener 1 1 Division of Small Animal Internal Medicine, Department for Small Animals and Horses, University of Veterinary Medicine, 1210 Vienna, Austria 2 Department of Clinical Sciences, Faculty of Veterinary Medicine, Utrecht University, 3584 Utrecht, The Netherlands 3 Institute of Pathology, Department for Pathobiology, University of Veterinary Medicine, 1210 Vienna, Austria 4 Research Group Oncology, Equine Surgery, Department of Small Animals and Horses, University of Veterinary Medicine, 1210 Vienna, Austria * Correspondence: [email protected] Current address: Institute of Animal Health and Production, Veterinary Hospital, Amazon Rural Federal y University, Belém 66.077-830, Brazil. These authors contributed equally to this work. z Received: 17 February 2020; Accepted: 26 March 2020; Published: 28 March 2020 Abstract: Functional intestinal disorders constitute major, potentially lethal health problems in humans. Consequently, research focuses on elucidating the underlying pathobiological mechanisms and establishing therapeutic strategies. In this context, intestinal organoids have emerged as a potent in vitro model as they faithfully recapitulate the structure and function of the intestinal segment they represent. Interestingly, human-like intestinal diseases also affect dogs, making canine intestinal organoids a promising tool for canine and comparative research. Therefore, we generated organoids from canine duodenum, jejunum and colon, and focused on simultaneous long-term expansion and cell differentiation to maximize applicability. -
Building Three-Dimensional Human Brain Organoids Sergiu P
Building three-dimensional human brain organoids Sergiu P. Paşca The organogenesis of the human central nervous system is an intricately culture methods, to self-organize into brain spheroids or organoids. orchestrated series of events that occurs over several months and These organoid cultures can be derived from any individual, can be ultimately gives rise to the circuits underlying cognition and behavior. guided to resemble specific brain regions, and can be employed to model There is a pressing need for developing reliable, realistic, and complex cell-cell interactions in assembloids and to build human circuits. personalized in vitro models of the human brain to advance our This emerging technology, in combination with bioengineering and other understanding of neural development, evolution, and disease. Pluripotent state-of-the-art methods for probing and manipulating neural tissue, has stem cells have the remarkable ability to dierentiate in vitro into any of the potential to bring insights into human brain organogenesis and the the germ layers and, with the advent of three-dimensional (3D) cell pathogenesis of neurological and psychiatric disorders. Brain organogenesis in vitro and in vivo Brain organogenesis in vitro and in vivo Brain assembloids Methods for generating neural cells in vitro aim to recapitulate Spinal Forebrain Forebrain Blastocyst Cerebral Dorsal Pallial-subpallial assembloid key stages of in vivo brain organogenesis. Folding of the Neural Neural cord Paired recordingOptogenetics Pharmacology fold crest cortex Glutamate uncaging ectoderm-derived neural plate gives rise to the neural tube, Embryonic Yo lk sac Region 1 Region 2Region 3 which becomes enlarged on the anterior side to form the stem cell Neural groove Ventral Inner cell forebrain in the central nervous system (CNS). -
WNT Signaling in Lung Repair and Regeneration Ahmed A
Molecules and Cells Minireview WNT Signaling in Lung Repair and Regeneration Ahmed A. Raslan1,2 and Jeong Kyo Yoon1,2,* 1Soonchunhyang Institute of Medi-bio Science and 2Department of Integrated Biomedical Science, Soonchunhyang University, Cheonan 31151, Korea *Correspondence: [email protected] https://doi.org/10.14348/molcells.2020.0059 www.molcells.org The lung has a vital function in gas exchange between the functions, the cellular composition and three-dimensional blood and the external atmosphere. It also has a critical structure of the lung must be maintained throughout an or- role in the immune defense against external pathogens ganism’s lifetime. Under normal conditions, the lung shows a and environmental factors. While the lung is classified as a low rate of cellular turnover relative to other organs, such as relatively quiescent organ with little homeostatic turnover, the skin and intestine, which exhibit rapid kinetics of cellular it shows robust regenerative capacity in response to injury, replacement characteristics (Bowden et al., 1968; Kauffman, mediated by the resident stem/progenitor cells. During 1980; Wansleeben et al., 2013). However, after injury or regeneration, regionally distinct epithelial cell populations with damage caused by different agents, including infection, toxic specific functions are generated from several different types compounds, and irradiation, the lung demonstrates a re- of stem/progenitor cells localized within four histologically markable ability to regenerate the damaged tissue (Hogan et distinguished regions: trachea, bronchi, bronchioles, and al., 2014; Lee and Rawlins, 2018; Wansleeben et al., 2013). alveoli. WNT signaling is one of the key signaling pathways If this regeneration process is not completed successfully, it involved in regulating many types of stem/progenitor cells leads to a disruption in proper lung function accompanied by in various organs. -
Organoid Culture Handbook
Organoid Culture Handbook Reagents | Cells | Matrices Accelerate Discovery Through Innovative Life Science Table of Contents Introduction to Organoid Culture............................................................................................................. 5 Organoid Models......................................................................................................................................... 7 Organoid Culture Protocols ...................................................................................................................... 8 General Submerged Method for Organoid Culture....................................................................... 8 Crypt Organoid Culture Techniques................................................................................................ 9 Air Liquid Interface (ALI) Method for Organoid Culture............................................................. 10 Clonal Organoids from Lgr5+ Cells................................................................................................... 11 Brain and Retina Organoids............................................................................................................... 11 Featured Products for Organoid Culture.................................................................................................. 12 Regulating Cell Transcription............................................................................................................ 12 Wnt........................................................................................................................................... -
Organoid Cultures As Preclinical Models of Non–Small Cell Lung
Published OnlineFirst November 6, 2019; DOI: 10.1158/1078-0432.CCR-19-1376 CLINICAL CANCER RESEARCH | TRANSLATIONAL CANCER MECHANISMS AND THERAPY Organoid Cultures as Preclinical Models of Non–Small Cell Lung Cancer Ruoshi Shi1,2, Nikolina Radulovich1, Christine Ng1, Ni Liu1, Hirotsugu Notsuda1, Michael Cabanero1, Sebastiao N. Martins-Filho1, Vibha Raghavan1, Quan Li1, Arvind Singh Mer1, Joshua C. Rosen1,3, Ming Li1, Yu-Hui Wang1, Laura Tamblyn1, Nhu-An Pham1, Benjamin Haibe-Kains1,2,4,5,6, Geoffrey Liu1,2,7, Nadeem Moghal1,2, and Ming-Sound Tsao1,2,3 ABSTRACT ◥ Purpose: Non–small cell lung cancer (NSCLC) is the most Results: We have identified cell culture conditions favoring the common cause of cancer-related deaths worldwide. There is an establishment of short-term and long-term expansion of NSCLC unmet need to develop novel clinically relevant models of NSCLC to organoids derived from primary lung patient and PDX tumor tissue. accelerate identification of drug targets and our understanding of The NSCLC organoids recapitulated the histology of the patient and the disease. PDX tumor. They also retained tumorigenicity, as evidenced by Experimental Design: Thirty surgically resected NSCLC cytologic features of malignancy, xenograft formation, preservation primary patient tissue and 35 previously established of mutations, copy number aberrations, and gene expression pro- patient-derived xenograft (PDX) models were processed files between the organoid and matched parental tumor tissue by for organoid culture establishment. Organoids were histo- whole-exome and RNA sequencing. NSCLC organoid models also logically and molecularly characterized by cytology and preserved the sensitivity of the matched parental tumor to targeted histology, exome sequencing, and RNA-sequencing analysis. -
Downloaded on 27 May 2020
bioRxiv preprint doi: https://doi.org/10.1101/2021.04.07.438755; this version posted April 7, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. Title: Cells of the human intestinal tract mapped across space and time Elmentaite R1, Kumasaka N1, King HW2, Roberts K1, Dabrowska M1, Pritchard S1, Bolt L1, Vieira SF1, Mamanova L1, Huang N1, Goh Kai’En I3, Stephenson E3, Engelbert J3, Botting RA3, Fleming A1,4, Dann E1, Lisgo SN3, Katan M7, Leonard S1, Oliver TRW1,8, Hook CE8, Nayak K10, Perrone F10, Campos LS1, Dominguez-Conde C1, Polanski K1, Van Dongen S1, Patel M1, Morgan MD5,6, Marioni JC1,5,6, Bayraktar OA1, Meyer KB1, Zilbauer M9,10,11, Uhlig H12,13,14, Clatworthy MR1,4, Mahbubani KT15, Saeb Parsy K15, Haniffa M1,3, James KR1* & Teichmann SA1,16* Affiliations: 1. Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SA, UK. 2. Centre for Immunobiology, Blizard Institute, Queen Mary University of London, London E1 2AT, UK 3. Biosciences Institute, Faculty of Medical Sciences, Newcastle University, Newcastle upon Tyne NE2 4HH, UK. 4. Molecular Immunity Unit, Department of Medicine, University of Cambridge, MRC Laboratory of Molecular Biology, Cambridge, CB2 0QH, UK 5. European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Cambridge, CB10 1SD, UK. 6. Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK 7. Structural and Molecular Biology, Division of Biosciences, University College London WC1E 6BT, UK 8. -
Ipsc-Derived Liver Organoids: a Journey from Drug Screening, to Disease Modeling, Arriving to Regenerative Medicine
International Journal of Molecular Sciences Review iPSC-Derived Liver Organoids: A Journey from Drug Screening, to Disease Modeling, Arriving to Regenerative Medicine Cristina Olgasi y , Alessia Cucci y and Antonia Follenzi * Department of Health Sciences, School of Medicine, University of Piemonte Orientale, 28100 Novara, Italy; [email protected] (C.O.); [email protected] (A.C.) * Correspondence: [email protected]; Tel.: +39-0321-660674 These authors equally contributed. y Received: 7 July 2020; Accepted: 23 August 2020; Published: 27 August 2020 Abstract: Liver transplantation is the most common treatment for patients suffering from liver failure that is caused by congenital diseases, infectious agents, and environmental factors. Despite a high rate of patient survival following transplantation, organ availability remains the key limiting factor. As such, research has focused on the transplantation of different cell types that are capable of repopulating and restoring liver function. The best cellular mix capable of engrafting and proliferating over the long-term, as well as the optimal immunosuppression regimens, remain to be clearly well-defined. Hence, alternative strategies in the field of regenerative medicine have been explored. Since the discovery of induced pluripotent stem cells (iPSC) that have the potential of differentiating into a broad spectrum of cell types, many studies have reported the achievement of iPSCs differentiation into liver cells, such as hepatocytes, cholangiocytes, endothelial cells, and Kupffer cells. In parallel, an increasing interest in the study of self-assemble or matrix-guided three-dimensional (3D) organoids have paved the way for functional bioartificial livers. In this review, we will focus on the recent breakthroughs in the development of iPSCs-based liver organoids and the major drawbacks and challenges that need to be overcome for the development of future applications. -
Liver Organoids: from Basic Research to Therapeutic Applications
Recent advances in basic science Liver organoids: from basic research to therapeutic applications Gut: first published as 10.1136/gutjnl-2019-319256 on 12 July 2019. Downloaded from Nicole Prior, 1 Patricia Inacio,1 Meritxell Huch 1,2 1Wellcome Trust-Cancer ABStract resemble architectural and functional properties of Research UK Gurdon Institute, Organoid cultures have emerged as an alternative in vitro in vivo tissues compared with cells cultured with University of Cambridge, two-dimensional (2D) techniques. One reason Cambridge, UK system to recapitulate tissues in a dish. While mouse 2Max Planck Institute of models and cell lines have furthered our understanding for this is the generation of cell–cell or cell–ECM Molecular Cell Biology and of liver biology and associated diseases, they suffer in interactions in all three dimensions, while in 2D Genetics, Dresden, Germany replicating key aspects of human liver tissue, in particular monolayer cultures interactions are limited to the its complex architecture and metabolic functions. Liver horizontal plane. Cells within a tissue are often Correspondence to organoids have now been established for multiple exposed to concentration gradients of signalling Dr Meritxell Huch, Wellcome Trust-Cancer Research UK species from induced pluripotent stem cells, embryonic effector molecules, nutrients and waste products; Gurdon Institute, University of stem cells, hepatoblasts and adult tissue-derived cells. this is mimicked to an extent in 3D culture systems Cambridge, Cambridge CB2 These represent a promising addition to our toolbox to with the cells at the centre of an aggregate/organoid 1QN, UK; gain a deeper understanding of this complex organ. In having less access to factors in the culture medium.