1
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Lu H, Twan WK, Ikawa Y, Khare V, Mukherjee I, Schou KB, Chua KX, Aqasha A, Chakrabarti S, Hamada H, Roy S. Localisation and function of key axonemal microtubule inner proteins and dynein docking complex members reveal extensive diversity among vertebrate motile cilia. Development 2024; 151:dev202737. [PMID: 39007638 DOI: 10.1242/dev.202737] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2024] [Accepted: 06/25/2024] [Indexed: 07/16/2024]
Abstract
Vertebrate motile cilia are classified as (9+2) or (9+0), based on the presence or absence of the central pair apparatus, respectively. Cryogenic electron microscopy analyses of (9+2) cilia have uncovered an elaborate axonemal protein composition. The extent to which these features are conserved in (9+0) cilia remains unclear. CFAP53, a key axonemal filamentous microtubule inner protein (fMIP) and a centriolar satellites component, is essential for motility of (9+0), but not (9+2) cilia. Here, we show that in (9+2) cilia, CFAP53 functions redundantly with a paralogous fMIP, MNS1. MNS1 localises to ciliary axonemes, and combined loss of both proteins in zebrafish and mice caused severe outer dynein arm loss from (9+2) cilia, significantly affecting their motility. Using immunoprecipitation, we demonstrate that, whereas MNS1 can associate with itself and CFAP53, CFAP53 is unable to self-associate. We also show that additional axonemal dynein-interacting proteins, two outer dynein arm docking (ODAD) complex members, show differential localisation between types of motile cilia. Together, our findings clarify how paralogous fMIPs, CFAP53 and MNS1, function in regulating (9+2) versus (9+0) cilia motility, and further emphasise extensive structural diversity among these organelles.
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Affiliation(s)
- Hao Lu
- Institute of Molecular and Cell Biology, Agency for Science, Technology and Research, Proteos, 61 Biopolis Drive, Singapore138673
| | - Wang Kyaw Twan
- Laboratory for Organismal Patterning, RIKEN Centre for Biosystems Dynamics Research, 2-2-3 Minatojima-minamimachi, Chuo-Ku, Kobe 650-0005, Japan
| | - Yayoi Ikawa
- Laboratory for Organismal Patterning, RIKEN Centre for Biosystems Dynamics Research, 2-2-3 Minatojima-minamimachi, Chuo-Ku, Kobe 650-0005, Japan
| | - Vani Khare
- Institute of Molecular and Cell Biology, Agency for Science, Technology and Research, Proteos, 61 Biopolis Drive, Singapore138673
| | - Ishita Mukherjee
- Translational Research Unit of Excellence, Structural Biology and Bioinformatics Division, Council for Scientific and Industrial Research - Indian Institute of Chemical Biology, Kolkata 700091, India
| | - Kenneth Bødtker Schou
- The Danish Cancer Society Research Centre, Danish Cancer Institute, Strandboulevarden 49, 2100 Copenhagen, Denmark
| | - Kai Xin Chua
- Institute of Molecular and Cell Biology, Agency for Science, Technology and Research, Proteos, 61 Biopolis Drive, Singapore138673
| | - Adam Aqasha
- Institute of Molecular and Cell Biology, Agency for Science, Technology and Research, Proteos, 61 Biopolis Drive, Singapore138673
| | - Saikat Chakrabarti
- Translational Research Unit of Excellence, Structural Biology and Bioinformatics Division, Council for Scientific and Industrial Research - Indian Institute of Chemical Biology, Kolkata 700091, India
| | - Hiroshi Hamada
- Laboratory for Organismal Patterning, RIKEN Centre for Biosystems Dynamics Research, 2-2-3 Minatojima-minamimachi, Chuo-Ku, Kobe 650-0005, Japan
- National Centre for Biological Sciences, Tata Institute of Fundamental Research, Bellary Road, Bengaluru 560065, India
- Trivedi School of Biosciences, Ashoka University, Sonepat, 131029, India
| | - Sudipto Roy
- Institute of Molecular and Cell Biology, Agency for Science, Technology and Research, Proteos, 61 Biopolis Drive, Singapore138673
- Department of Paediatrics, Yong Loo Ling School of Medicine, National University of Singapore, 1E Kent Ridge Road, Singapore119288
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2
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Mastromoro G, Guadagnolo D, Novelli A, Torres B, Piane M, Magliozzi M, Bernardini L, Ventriglia F, Pizzuti A, Petrucci S. Prenatal CFAP53-related laterality defect: case report and review of the literature. J Matern Fetal Neonatal Med 2023; 36:2201653. [PMID: 37041101 DOI: 10.1080/14767058.2023.2201653] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/13/2023]
Abstract
Laterality defects include morphological anomalies with impaired left-right asymmetry induction, such as dextrocardia, situs inversus abdominis, situs inversus totalis and situs ambiguus. The different arrangement of major organs is called heterotaxy. We describe for the first time a fetus with situs viscerum inversus and azygos continuation of the inferior vena cava, due to previously unreported variants in compound heterozygosity in the CFAP53 gene, whose product is implied in cilial motility. Prenatal trio exome sequencing was performed with turn-around time during the pregnancy. The fetuses with laterality defects are suitable candidates for prenatal exome sequencing due to the emerging high diagnostic rate of this group of morphological anomalies. A timely molecular diagnosis plays a fundamental role in genetic counseling, regarding couple decisions on the ongoing pregnancy, providing recurrence risks, and in predicting possible respiratory complications due to ciliary dyskinesia.
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Affiliation(s)
- Gioia Mastromoro
- Department of Experimental Medicine, Sapienza University of Rome, Rome, Italy
| | - Daniele Guadagnolo
- Department of Experimental Medicine, Sapienza University of Rome, Rome, Italy
| | - Antonio Novelli
- Translational Cytogenomics Research Unit, Bambino Gesù Children's Hospital, IRCCS, Rome, Italy
| | - Barbara Torres
- Laboratory of Cytogenetics, Casa Sollievo della Sofferenza Foundation, San Giovanni Rotondo, Italy
| | - Maria Piane
- Medical Genetics and Advanced Cell Diagnostics Unit, S. Andrea University Hospital, Rome, Italy
| | - Monia Magliozzi
- Translational Cytogenomics Research Unit, Bambino Gesù Children's Hospital, IRCCS, Rome, Italy
| | - Laura Bernardini
- Laboratory of Cytogenetics, Casa Sollievo della Sofferenza Foundation, San Giovanni Rotondo, Italy
| | - Flavia Ventriglia
- Maternal and Child Department, Pediatric and Neonatology Unit, Sapienza of Rome, Latina, Italy
| | - Antonio Pizzuti
- Department of Experimental Medicine, Sapienza University of Rome, Rome, Italy
- Division of Medical Genetics, Casa Sollievo della Sofferenza Foundation, San Giovanni Rotondo, Italy
| | - Simona Petrucci
- Medical Genetics and Advanced Cell Diagnostics Unit, S. Andrea University Hospital, Rome, Italy
- Division of Medical Genetics, Casa Sollievo della Sofferenza Foundation, San Giovanni Rotondo, Italy
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3
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Towards an atomic model of a beating ciliary axoneme. Curr Opin Struct Biol 2023; 78:102516. [PMID: 36586349 DOI: 10.1016/j.sbi.2022.102516] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2022] [Revised: 11/15/2022] [Accepted: 11/23/2022] [Indexed: 12/30/2022]
Abstract
The axoneme of motile cilia and eukaryotic flagella is an ordered assembly of hundreds of proteins that powers the locomotion of single cells and generates flow of liquid and particles across certain mammalian tissues. The symmetric and organized structure of the axoneme has invited structural biologists to unravel its intricate architecture at different scales. In the last few years, single-particle cryo-electron microscopy provided high-resolution structures of axonemal complexes that comprise dozens of proteins and are key to cilia function. This review summarizes unique structural features of the axoneme and the framework they provide to understand cilia assembly, the mechanism of ciliary beating, and clinical conditions associated with impaired cilia motility.
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4
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Forrest K, Barricella AC, Pohar SA, Hinman AM, Amack JD. Understanding laterality disorders and the left-right organizer: Insights from zebrafish. Front Cell Dev Biol 2022; 10:1035513. [PMID: 36619867 PMCID: PMC9816872 DOI: 10.3389/fcell.2022.1035513] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2022] [Accepted: 12/12/2022] [Indexed: 12/24/2022] Open
Abstract
Vital internal organs display a left-right (LR) asymmetric arrangement that is established during embryonic development. Disruption of this LR asymmetry-or laterality-can result in congenital organ malformations. Situs inversus totalis (SIT) is a complete concordant reversal of internal organs that results in a low occurrence of clinical consequences. Situs ambiguous, which gives rise to Heterotaxy syndrome (HTX), is characterized by discordant development and arrangement of organs that is associated with a wide range of birth defects. The leading cause of health problems in HTX patients is a congenital heart malformation. Mutations identified in patients with laterality disorders implicate motile cilia in establishing LR asymmetry. However, the cellular and molecular mechanisms underlying SIT and HTX are not fully understood. In several vertebrates, including mouse, frog and zebrafish, motile cilia located in a "left-right organizer" (LRO) trigger conserved signaling pathways that guide asymmetric organ development. Perturbation of LRO formation and/or function in animal models recapitulates organ malformations observed in SIT and HTX patients. This provides an opportunity to use these models to investigate the embryological origins of laterality disorders. The zebrafish embryo has emerged as an important model for investigating the earliest steps of LRO development. Here, we discuss clinical characteristics of human laterality disorders, and highlight experimental results from zebrafish that provide insights into LRO biology and advance our understanding of human laterality disorders.
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Affiliation(s)
- Kadeen Forrest
- Department of Cell and Developmental Biology, State University of New York Upstate Medical University, Syracuse, NY, United States
| | - Alexandria C. Barricella
- Department of Cell and Developmental Biology, State University of New York Upstate Medical University, Syracuse, NY, United States
| | - Sonny A. Pohar
- Department of Cell and Developmental Biology, State University of New York Upstate Medical University, Syracuse, NY, United States
| | - Anna Maria Hinman
- Department of Cell and Developmental Biology, State University of New York Upstate Medical University, Syracuse, NY, United States
| | - Jeffrey D. Amack
- Department of Cell and Developmental Biology, State University of New York Upstate Medical University, Syracuse, NY, United States
- BioInspired Syracuse: Institute for Material and Living Systems, Syracuse, NY, United States
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5
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Liu S, Wei W, Wang P, Liu C, Jiang X, Li T, Li F, Wu Y, Chen S, Sun K, Xu R. LOF variants identifying candidate genes of laterality defects patients with congenital heart disease. PLoS Genet 2022; 18:e1010530. [PMID: 36459505 DOI: 10.1371/journal.pgen.1010530] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2022] [Revised: 12/14/2022] [Accepted: 11/15/2022] [Indexed: 12/03/2022] Open
Abstract
Defects in laterality pattern can result in abnormal positioning of the internal organs during the early stages of embryogenesis, as manifested in heterotaxy syndrome and situs inversus, while laterality defects account for 3~7% of all congenital heart defects (CHDs). However, the pathogenic mechanism underlying most laterality defects remains unknown. In this study, we recruited 70 laterality defect patients with CHDs to identify candidate disease genes by exome sequencing. We then evaluated rare, loss-of-function (LOF) variants, identifying candidates by referring to previous literature. We chose TRIP11, DNHD1, CFAP74, and EGR4 as candidates from 776 LOF variants that met the initial screening criteria. After the variants-to-gene mapping, we performed function research on these candidate genes. The expression patterns and functions of these four candidate genes were studied by whole-mount in situ hybridization, gene knockdown, and gene rescue methods in zebrafish models. Among the four genes, trip11, dnhd1, and cfap74 morphant zebrafish displayed abnormalities in both cardiac looping and expression patterns of early signaling molecules, suggesting that these genes play important roles in the establishment of laterality patterns. Furthermore, we performed immunostaining and high-speed cilia video microscopy to investigate Kupffer's vesicle organogenesis and ciliogenesis of morphant zebrafish. Impairments of Kupffer's vesicle organogenesis or ciliogenesis were found in trip11, dnhd1, and cfap74 morphant zebrafish, which revealed the possible pathogenic mechanism of their LOF variants in laterality defects. These results highlight the importance of rare, LOF variants in identifying disease-related genes and identifying new roles for TRIP11, DNHD1, and CFAP74 in left-right patterning. Additionally, these findings are consistent with the complex genetics of laterality defects.
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Affiliation(s)
- Sijie Liu
- Department of Pediatric Cardiology, Xinhua Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai, China
| | - Wei Wei
- Department of Pediatric Cardiology, Xinhua Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai, China
| | - Pengcheng Wang
- Department of Pediatric Cardiology, Xinhua Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai, China
| | - Chunjie Liu
- Department of Pediatric Cardiology, Xinhua Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai, China
| | - Xuechao Jiang
- Scientific Research Center, Xinhua Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai, China
| | - Tingting Li
- Department of Pediatric Cardiology, Xinhua Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai, China
| | - Fen Li
- Department of Cardiology, Shanghai Children's Medical Center, School of Medicine, Shanghai Jiao Tong University, Shanghai, China
| | - Yurong Wu
- Department of Pediatric Cardiology, Xinhua Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai, China
| | - Sun Chen
- Department of Pediatric Cardiology, Xinhua Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai, China
| | - Kun Sun
- Department of Pediatric Cardiology, Xinhua Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai, China
| | - Rang Xu
- Scientific Research Center, Xinhua Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai, China
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6
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Willekers S, Tessadori F, van der Vaart B, Henning HH, Stucchi R, Altelaar M, Roelen BAJ, Akhmanova A, Bakkers J. The centriolar satellite protein Cfap53 facilitates formation of the zygotic microtubule organizing center in the zebrafish embryo. Development 2022; 149:dev198762. [PMID: 35980365 PMCID: PMC9481976 DOI: 10.1242/dev.198762] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2020] [Accepted: 07/20/2022] [Indexed: 12/02/2023]
Abstract
In embryos of most animal species, the zygotic centrosome is assembled by the centriole derived from the sperm cell and pericentriolar proteins present in the oocyte. This zygotic centrosome acts as a microtubule organizing center (MTOC) to assemble the sperm aster and mitotic spindle. As MTOC formation has been studied mainly in adult cells, very little is known about the formation of the zygotic MTOC. Here, we show that zebrafish (Danio rerio) embryos lacking either maternal or paternal Cfap53, a centriolar satellite protein, arrest during the first cell cycle. Although Cfap53 is dispensable for sperm aster function, it aids proper formation of the mitotic spindle. During cell division, Cfap53 colocalizes with γ-tubulin and with other centrosomal and centriolar satellite proteins at the MTOC. Furthermore, we find that γ-tubulin localization at the MTOC is impaired in the absence of Cfap53. Based on these results, we propose a model in which Cfap53 deposited in the oocyte and the sperm participates in the organization of the zygotic MTOC to allow mitotic spindle formation.
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Affiliation(s)
- Sven Willekers
- Hubrecht Institute-KNAW, Utrecht 3584 CT, The Netherlands
| | | | - Babet van der Vaart
- Cell Biology, Neurobiology and Biophysics, Department of Biology, Faculty of Science, Utrecht University, Utrecht 3584 CH, The Netherlands
| | - Heiko H. Henning
- Equine Sciences, Department Clinical Sciences, Faculty of Veterinary Medicine, Utrecht University, Utrecht 3584 CM, The Netherlands
| | - Riccardo Stucchi
- Cell Biology, Neurobiology and Biophysics, Department of Biology, Faculty of Science, Utrecht University, Utrecht 3584 CH, The Netherlands
- Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Utrecht 3584 CH, The Netherlands
| | - Maarten Altelaar
- Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Utrecht 3584 CH, The Netherlands
| | - Bernard A. J. Roelen
- Embryology, Anatomy and Physiology, Department Clinical Sciences, Faculty of Veterinary Medicine, Utrecht University, Utrecht 3584 CT, The Netherlands
| | - Anna Akhmanova
- Cell Biology, Neurobiology and Biophysics, Department of Biology, Faculty of Science, Utrecht University, Utrecht 3584 CH, The Netherlands
| | - Jeroen Bakkers
- Hubrecht Institute-KNAW, Utrecht 3584 CT, The Netherlands
- Department of Pediatric Cardiology, Division of Pediatrics, University Medical Center Utrecht, Utrecht 3584 EA, The Netherlands
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7
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Bowley G, Kugler E, Wilkinson R, Lawrie A, van Eeden F, Chico TJA, Evans PC, Noël ES, Serbanovic-Canic J. Zebrafish as a tractable model of human cardiovascular disease. Br J Pharmacol 2022; 179:900-917. [PMID: 33788282 DOI: 10.1111/bph.15473] [Citation(s) in RCA: 63] [Impact Index Per Article: 31.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2020] [Revised: 03/18/2021] [Accepted: 03/24/2021] [Indexed: 12/17/2022] Open
Abstract
Mammalian models including non-human primates, pigs and rodents have been used extensively to study the mechanisms of cardiovascular disease. However, there is an increasing desire for alternative model systems that provide excellent scientific value while replacing or reducing the use of mammals. Here, we review the use of zebrafish, Danio rerio, to study cardiovascular development and disease. The anatomy and physiology of zebrafish and mammalian cardiovascular systems are compared, and we describe the use of zebrafish models in studying the mechanisms of cardiac (e.g. congenital heart defects, cardiomyopathy, conduction disorders and regeneration) and vascular (endothelial dysfunction and atherosclerosis, lipid metabolism, vascular ageing, neurovascular physiology and stroke) pathologies. We also review the use of zebrafish for studying pharmacological responses to cardiovascular drugs and describe several features of zebrafish that make them a compelling model for in vivo screening of compounds for the treatment cardiovascular disease. LINKED ARTICLES: This article is part of a themed issue on Preclinical Models for Cardiovascular disease research (BJP 75th Anniversary). To view the other articles in this section visit http://onlinelibrary.wiley.com/doi/10.1111/bph.v179.5/issuetoc.
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Affiliation(s)
- George Bowley
- Department of Infection, Immunity and Cardiovascular Disease, University of Sheffield, Sheffield, UK
- Bateson Centre, University of Sheffield, Sheffield, UK
| | - Elizabeth Kugler
- Department of Infection, Immunity and Cardiovascular Disease, University of Sheffield, Sheffield, UK
- Bateson Centre, University of Sheffield, Sheffield, UK
- Institute of Ophthalmology, Faculty of Brain Sciences, University College London, London, UK
| | - Rob Wilkinson
- School of Life Sciences, University of Nottingham, Nottingham, UK
| | - Allan Lawrie
- Department of Infection, Immunity and Cardiovascular Disease, University of Sheffield, Sheffield, UK
| | - Freek van Eeden
- Bateson Centre, University of Sheffield, Sheffield, UK
- Department of Biomedical Science, University of Sheffield, Sheffield, UK
| | - Tim J A Chico
- Department of Infection, Immunity and Cardiovascular Disease, University of Sheffield, Sheffield, UK
- Bateson Centre, University of Sheffield, Sheffield, UK
| | - Paul C Evans
- Department of Infection, Immunity and Cardiovascular Disease, University of Sheffield, Sheffield, UK
- Bateson Centre, University of Sheffield, Sheffield, UK
| | - Emily S Noël
- Bateson Centre, University of Sheffield, Sheffield, UK
- Department of Biomedical Science, University of Sheffield, Sheffield, UK
| | - Jovana Serbanovic-Canic
- Department of Infection, Immunity and Cardiovascular Disease, University of Sheffield, Sheffield, UK
- Bateson Centre, University of Sheffield, Sheffield, UK
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8
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Qiu T, Roy S. Ciliary dynein arms: Cytoplasmic preassembly, intraflagellar transport, and axonemal docking. J Cell Physiol 2022; 237:2644-2653. [DOI: 10.1002/jcp.30689] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2021] [Revised: 01/04/2022] [Accepted: 01/14/2022] [Indexed: 12/13/2022]
Affiliation(s)
- Tao Qiu
- Institute of Molecular and Cell Biology, Proteos Singapore Singapore
| | - Sudipto Roy
- Institute of Molecular and Cell Biology, Proteos Singapore Singapore
- Department of Biological Sciences National University of Singapore Singapore Singapore
- Department of Pediatrics, Yong Loo Ling School of Medicine National University of Singapore Singapore Singapore
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9
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Gui M, Farley H, Anujan P, Anderson JR, Maxwell DW, Whitchurch JB, Botsch JJ, Qiu T, Meleppattu S, Singh SK, Zhang Q, Thompson J, Lucas JS, Bingle CD, Norris DP, Roy S, Brown A. De novo identification of mammalian ciliary motility proteins using cryo-EM. Cell 2021; 184:5791-5806.e19. [PMID: 34715025 PMCID: PMC8595878 DOI: 10.1016/j.cell.2021.10.007] [Citation(s) in RCA: 51] [Impact Index Per Article: 17.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2021] [Revised: 08/12/2021] [Accepted: 10/07/2021] [Indexed: 12/15/2022]
Abstract
Dynein-decorated doublet microtubules (DMTs) are critical components of the oscillatory molecular machine of cilia, the axoneme, and have luminal surfaces patterned periodically by microtubule inner proteins (MIPs). Here we present an atomic model of the 48-nm repeat of a mammalian DMT, derived from a cryoelectron microscopy (cryo-EM) map of the complex isolated from bovine respiratory cilia. The structure uncovers principles of doublet microtubule organization and features specific to vertebrate cilia, including previously unknown MIPs, a luminal bundle of tektin filaments, and a pentameric dynein-docking complex. We identify a mechanism for bridging 48- to 24-nm periodicity across the microtubule wall and show that loss of the proteins involved causes defective ciliary motility and laterality abnormalities in zebrafish and mice. Our structure identifies candidate genes for diagnosis of ciliopathies and provides a framework to understand their functions in driving ciliary motility.
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Affiliation(s)
- Miao Gui
- Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA
| | - Hannah Farley
- MRC Harwell Institute, Harwell Campus, Oxfordshire OX11 0RD, UK
| | - Priyanka Anujan
- Institute of Molecular and Cell Biology, Proteos, 138673 Singapore, Singapore; Department of Infection, Immunity & Cardiovascular Disease, The Medical School and The Florey Institute for Host Pathogen Interactions, University of Sheffield, Sheffield S10 2TN, UK
| | - Jacob R Anderson
- Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA
| | - Dale W Maxwell
- Institute of Molecular and Cell Biology, Proteos, 138673 Singapore, Singapore; School of Biological Sciences, University of Manchester, Manchester M13 9PT, UK
| | | | - J Josephine Botsch
- Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA
| | - Tao Qiu
- Institute of Molecular and Cell Biology, Proteos, 138673 Singapore, Singapore
| | - Shimi Meleppattu
- Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA
| | - Sandeep K Singh
- Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA
| | - Qi Zhang
- Department of Genetics, Harvard Medical School, Boston, MA 02115, USA
| | - James Thompson
- Biomedical Imaging Unit, Southampton General Hospital, Southampton, UK; Primary Ciliary Dyskinesia Centre, NIHR Biomedical Research Centre, University Hospital Southampton NHS Foundation Trust, Southampton, UK
| | - Jane S Lucas
- Primary Ciliary Dyskinesia Centre, NIHR Biomedical Research Centre, University Hospital Southampton NHS Foundation Trust, Southampton, UK; University of Southampton Faculty of Medicine, School of Clinical and Experimental Medicine, Southampton, UK
| | - Colin D Bingle
- Department of Infection, Immunity & Cardiovascular Disease, The Medical School and The Florey Institute for Host Pathogen Interactions, University of Sheffield, Sheffield S10 2TN, UK
| | - Dominic P Norris
- MRC Harwell Institute, Harwell Campus, Oxfordshire OX11 0RD, UK.
| | - Sudipto Roy
- Institute of Molecular and Cell Biology, Proteos, 138673 Singapore, Singapore; Department of Biological Sciences, National University of Singapore, 117543 Singapore, Singapore; Department of Pediatrics, Yong Loo Ling School of Medicine, National University of Singapore, 1E Kent Ridge Road, 119288 Singapore, Singapore.
| | - Alan Brown
- Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA.
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10
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Tessadori F, Tsingos E, Colizzi ES, Kruse F, van den Brink SC, van den Boogaard M, Christoffels VM, Merks RM, Bakkers J. Twisting of the zebrafish heart tube during cardiac looping is a tbx5-dependent and tissue-intrinsic process. eLife 2021; 10:61733. [PMID: 34372968 PMCID: PMC8354640 DOI: 10.7554/elife.61733] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2020] [Accepted: 06/24/2021] [Indexed: 12/24/2022] Open
Abstract
Organ laterality refers to the left-right asymmetry in disposition and conformation of internal organs and is established during embryogenesis. The heart is the first organ to display visible left-right asymmetries through its left-sided positioning and rightward looping. Here, we present a new zebrafish loss-of-function allele for tbx5a, which displays defective rightward cardiac looping morphogenesis. By mapping individual cardiomyocyte behavior during cardiac looping, we establish that ventricular and atrial cardiomyocytes rearrange in distinct directions. As a consequence, the cardiac chambers twist around the atrioventricular canal resulting in torsion of the heart tube, which is compromised in tbx5a mutants. Pharmacological treatment and ex vivo culture establishes that the cardiac twisting depends on intrinsic mechanisms and is independent from cardiac growth. Furthermore, genetic experiments indicate that looping requires proper tissue patterning. We conclude that cardiac looping involves twisting of the chambers around the atrioventricular canal, which requires correct tissue patterning by Tbx5a.
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Affiliation(s)
- Federico Tessadori
- Hubrecht Institute-KNAW and University Medical Center Utrecht, Utrecht, Netherlands
| | - Erika Tsingos
- Mathematical Institute, Leiden University, Leiden, Netherlands
| | - Enrico Sandro Colizzi
- Mathematical Institute, Leiden University, Leiden, Netherlands.,Origins Center, Leiden University, Leiden, Netherlands
| | - Fabian Kruse
- Hubrecht Institute-KNAW and University Medical Center Utrecht, Utrecht, Netherlands
| | | | - Malou van den Boogaard
- Amsterdam UMC, University of Amsterdam, Department of Medical Biology, Amsterdam Cardiovascular Sciences, Amsterdam, Netherlands
| | - Vincent M Christoffels
- Amsterdam UMC, University of Amsterdam, Department of Medical Biology, Amsterdam Cardiovascular Sciences, Amsterdam, Netherlands
| | - Roeland Mh Merks
- Mathematical Institute, Leiden University, Leiden, Netherlands.,Origins Center, Leiden University, Leiden, Netherlands.,Institute of Biology, Leiden University, Leiden, Netherlands
| | - Jeroen Bakkers
- Hubrecht Institute-KNAW and University Medical Center Utrecht, Utrecht, Netherlands.,Department of Pediatric Cardiology, Division of Pediatrics, University Medical Center Utrecht, Utrecht, Netherlands
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11
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Wu B, Yu X, Liu C, Wang L, Huang T, Lu G, Chen ZJ, Li W, Liu H. Essential Role of CFAP53 in Sperm Flagellum Biogenesis. Front Cell Dev Biol 2021; 9:676910. [PMID: 34124066 PMCID: PMC8195676 DOI: 10.3389/fcell.2021.676910] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2021] [Accepted: 04/30/2021] [Indexed: 11/26/2022] Open
Abstract
The sperm flagellum is essential for male fertility. Despite vigorous research progress toward understanding the pathogenesis of flagellum-related diseases, much remains unknown about the mechanisms underlying the flagellum biogenesis itself. Here, we show that the cilia and flagella associated protein 53 (Cfap53) gene is predominantly expressed in testes, and it is essential for sperm flagellum biogenesis. The knockout of this gene resulted in complete infertility in male mice but not in the females. CFAP53 localized to the manchette and sperm tail during spermiogenesis, the knockout of this gene impaired flagellum biogenesis. Furthermore, we identified two manchette and sperm tail-associated proteins that interacted with CFAP53 during spermiogenesis. Together, our results suggest that CFAP53 is an essential protein for sperm flagellum biogenesis, and its mutations might be associated with multiple morphological abnormalities of the flagella (MMAF).
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Affiliation(s)
- Bingbing Wu
- State Key Laboratory of Stem Cell and Reproductive Biology, Institute of Zoology, Stem Cell and Regenerative Medicine Innovation Institute, Chinese Academy of Sciences, Beijing, China
- College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China
| | - Xiaochen Yu
- Center for Reproductive Medicine, Cheeloo College of Medicine, Shandong University, Jinan, China
- Key laboratory of Reproductive Endocrinology of the Ministry of Education, Shandong University, Jinan, China
- Shandong Key Laboratory of Reproductive Medicine, Jinan, China
- Shandong Provincial Clinical Research Center for Reproductive Health, Jinan, China
- National Research Center for Assisted Reproductive Technology and Reproductive Genetics, Shandong University, Jinan, China
| | - Chao Liu
- State Key Laboratory of Stem Cell and Reproductive Biology, Institute of Zoology, Stem Cell and Regenerative Medicine Innovation Institute, Chinese Academy of Sciences, Beijing, China
| | - Lina Wang
- Department of Respiratory Medicine, National Clinical Research Center of Respiratory Diseases, Beijing Children’s Hospital, Capital Medical University, National Center for Children’s Health, Beijing, China
| | - Tao Huang
- Center for Reproductive Medicine, Cheeloo College of Medicine, Shandong University, Jinan, China
- Key laboratory of Reproductive Endocrinology of the Ministry of Education, Shandong University, Jinan, China
- Shandong Key Laboratory of Reproductive Medicine, Jinan, China
- Shandong Provincial Clinical Research Center for Reproductive Health, Jinan, China
- National Research Center for Assisted Reproductive Technology and Reproductive Genetics, Shandong University, Jinan, China
| | - Gang Lu
- Center for Reproductive Medicine, Cheeloo College of Medicine, Shandong University, Jinan, China
- Key laboratory of Reproductive Endocrinology of the Ministry of Education, Shandong University, Jinan, China
- Shandong Key Laboratory of Reproductive Medicine, Jinan, China
- Shandong Provincial Clinical Research Center for Reproductive Health, Jinan, China
- National Research Center for Assisted Reproductive Technology and Reproductive Genetics, Shandong University, Jinan, China
- CUHK-SDU Joint Laboratory on Reproductive Genetics, School of Biomedical Sciences, The Chinese University of Hong Kong, Hong Kong, Hong Kong
| | - Zi-Jiang Chen
- Center for Reproductive Medicine, Cheeloo College of Medicine, Shandong University, Jinan, China
- Key laboratory of Reproductive Endocrinology of the Ministry of Education, Shandong University, Jinan, China
- Shandong Key Laboratory of Reproductive Medicine, Jinan, China
- Shandong Provincial Clinical Research Center for Reproductive Health, Jinan, China
- National Research Center for Assisted Reproductive Technology and Reproductive Genetics, Shandong University, Jinan, China
- CUHK-SDU Joint Laboratory on Reproductive Genetics, School of Biomedical Sciences, The Chinese University of Hong Kong, Hong Kong, Hong Kong
| | - Wei Li
- State Key Laboratory of Stem Cell and Reproductive Biology, Institute of Zoology, Stem Cell and Regenerative Medicine Innovation Institute, Chinese Academy of Sciences, Beijing, China
- College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China
| | - Hongbin Liu
- Center for Reproductive Medicine, Cheeloo College of Medicine, Shandong University, Jinan, China
- Key laboratory of Reproductive Endocrinology of the Ministry of Education, Shandong University, Jinan, China
- Shandong Key Laboratory of Reproductive Medicine, Jinan, China
- Shandong Provincial Clinical Research Center for Reproductive Health, Jinan, China
- National Research Center for Assisted Reproductive Technology and Reproductive Genetics, Shandong University, Jinan, China
- CUHK-SDU Joint Laboratory on Reproductive Genetics, School of Biomedical Sciences, The Chinese University of Hong Kong, Hong Kong, Hong Kong
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12
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Li Y, Wang WL, Tu CF, Meng LL, Hu TY, Du J, Lin G, Nie HC, Tan YQ. A novel homozygous frameshift mutation in MNS1 associated with severe oligoasthenoteratozoospermia in humans. Asian J Androl 2021; 23:197-204. [PMID: 33037173 PMCID: PMC7991825 DOI: 10.4103/aja.aja_56_20] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022] Open
Abstract
Oligoasthenoteratozoospermia (OAT) refers to the combination of various sperm abnormalities, including a decreased sperm count, reduced motility, and abnormal sperm morphology. Only a few genetic causes have been shown to be associated with OAT. Herein, we identified a novel homozygous frameshift mutation in meiosis-specific nuclear structural 1 (MNS1; NM_018365: c.603_604insG: p.Lys202Glufs*6) by whole-exome sequencing in an OAT proband from a consanguineous Chinese family. Subsequent variant screening identified four additional heterozygous MNS1 variants in 6/219 infertile individuals with oligoasthenospermia, but no MNS1 variants were observed among 223 fertile controls. Immunostaining analysis showed MNS1 to be normally located in the whole-sperm flagella, but was absent in the proband's sperm. Expression analysis by Western blot also confirmed that MNS1 was absent in the proband's sperm. Abnormal flagellum morphology and ultrastructural disturbances in outer doublet microtubules were observed in the proband's sperm. A total of three intracytoplasmic sperm injection cycles were carried out for the proband's wife, but they all failed to lead to a successful pregnancy. Overall, this is the first study to report a loss-of-function mutation in MNS1 causing OAT in a Han Chinese patient.
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Affiliation(s)
- Yong Li
- Institute of Reproductive and Stem Cell Engineering, School of Basic Medical Science, Central South University, Changsha 410078, China
| | - Wei-Li Wang
- Institute of Reproductive and Stem Cell Engineering, School of Basic Medical Science, Central South University, Changsha 410078, China
| | - Chao-Feng Tu
- Institute of Reproductive and Stem Cell Engineering, School of Basic Medical Science, Central South University, Changsha 410078, China.,Reproductive and Genetic Hospital of CITIC-Xiangya, Changsha 410078, China.,Clinical Research Center for Reproduction and Genetics in Hunan Province, Changsha 410078, China
| | - Lan-Lan Meng
- Reproductive and Genetic Hospital of CITIC-Xiangya, Changsha 410078, China.,Clinical Research Center for Reproduction and Genetics in Hunan Province, Changsha 410078, China
| | - Tong-Yao Hu
- Institute of Reproductive and Stem Cell Engineering, School of Basic Medical Science, Central South University, Changsha 410078, China
| | - Juan Du
- Institute of Reproductive and Stem Cell Engineering, School of Basic Medical Science, Central South University, Changsha 410078, China.,Reproductive and Genetic Hospital of CITIC-Xiangya, Changsha 410078, China.,Clinical Research Center for Reproduction and Genetics in Hunan Province, Changsha 410078, China
| | - Ge Lin
- Institute of Reproductive and Stem Cell Engineering, School of Basic Medical Science, Central South University, Changsha 410078, China.,Reproductive and Genetic Hospital of CITIC-Xiangya, Changsha 410078, China.,Clinical Research Center for Reproduction and Genetics in Hunan Province, Changsha 410078, China
| | - Hong-Chuan Nie
- Institute of Reproductive and Stem Cell Engineering, School of Basic Medical Science, Central South University, Changsha 410078, China.,Reproductive and Genetic Hospital of CITIC-Xiangya, Changsha 410078, China.,Clinical Research Center for Reproduction and Genetics in Hunan Province, Changsha 410078, China
| | - Yue-Qiu Tan
- Institute of Reproductive and Stem Cell Engineering, School of Basic Medical Science, Central South University, Changsha 410078, China.,Reproductive and Genetic Hospital of CITIC-Xiangya, Changsha 410078, China.,Clinical Research Center for Reproduction and Genetics in Hunan Province, Changsha 410078, China
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13
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CFAP53 regulates mammalian cilia-type motility patterns through differential localization and recruitment of axonemal dynein components. PLoS Genet 2020; 16:e1009232. [PMID: 33347437 PMCID: PMC7817014 DOI: 10.1371/journal.pgen.1009232] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2020] [Revised: 01/20/2021] [Accepted: 10/29/2020] [Indexed: 12/12/2022] Open
Abstract
Motile cilia can beat with distinct patterns, but how motility variations are regulated remain obscure. Here, we have studied the role of the coiled-coil protein CFAP53 in the motility of different cilia-types in the mouse. While node (9+0) cilia of Cfap53 mutants were immotile, tracheal and ependymal (9+2) cilia retained motility, albeit with an altered beat pattern. In node cilia, CFAP53 mainly localized at the base (centriolar satellites), whereas it was also present along the entire axoneme in tracheal cilia. CFAP53 associated tightly with microtubules and interacted with axonemal dyneins and TTC25, a dynein docking complex component. TTC25 and outer dynein arms (ODAs) were lost from node cilia, but were largely maintained in tracheal cilia of Cfap53-/- mice. Thus, CFAP53 at the base of node cilia facilitates axonemal transport of TTC25 and dyneins, while axonemal CFAP53 in 9+2 cilia stabilizes dynein binding to microtubules. Our study establishes how differential localization and function of CFAP53 contributes to the unique motion patterns of two important mammalian cilia-types. Motile cilia in various kinds of tissues and cell-types drive fluid flow over epithelia or facilitate cellular locomotion. There are two types of motile cilia. Motile cilia with a 9+2 configuration of microtubules are found on tracheal epithelial cells and brain ependymal cells, and exhibit planar beating with effective and recovery strokes. On the other hand, 9+0 motile cilia are found in the embryonic node, show rotational movement and are involved in establishing left-right asymmetry of visceral organs. However, it is not well understood how these two types of motile cilia exhibit their characteristic motion patterns. We have uncovered distinct roles and subcellular localization of the CFAP53 protein in 9+0 versus the 9+2 motile cilia of the mouse. Our data provide novel insights into the molecular basis of motility differences that characterize these two types of mammalian motile cilia.
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14
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Rubbini D, Cornet C, Terriente J, Di Donato V. CRISPR Meets Zebrafish: Accelerating the Discovery of New Therapeutic Targets. SLAS DISCOVERY 2020; 25:552-567. [PMID: 32462967 DOI: 10.1177/2472555220926920] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
Bringing a new drug to the market costs an average of US$2.6 billion and takes more than 10 years from discovery to regulatory approval. Despite the need to reduce cost and time to increase productivity, pharma companies tend to crowd their efforts in the same indications and drug targets. This results in the commercialization of drugs that share the same mechanism of action (MoA) and, in many cases, equivalent efficacies among them-an outcome that helps neither patients nor the balance sheet of the companies trying to bring therapeutics to the same patient population. Indeed, the discovery of new therapeutic targets, based on a deeper understanding of the disease biology, would likely provide more innovative MoAs and potentially greater drug efficacies. It would also bring better chances for identifying appropriate treatments according to the patient's genetic stratification. Nowadays, we count with an enormous amount of unprocessed information on potential disease targets that could be extracted from omics data obtained from patient samples. In addition, hundreds of pharmacological and genetic screenings have been performed to identify innovative drug targets. Traditionally, rodents have been the animal models of choice to perform functional genomic studies. The high experimental cost, combined with the low throughput provided by those models, however, is a bottleneck for discovering and validating novel genetic disease associations. To overcome these limitations, we propose that zebrafish, in conjunction with the use of CRISPR/Cas9 genome-editing tools, could streamline functional genomic processes to bring biologically relevant knowledge on innovative disease targets in a shorter time frame.
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Affiliation(s)
- Davide Rubbini
- ZeClinics SL, IGTP (Germans Trias I Pujol Research Institute), Barcelona, Spain
| | - Carles Cornet
- ZeClinics SL, IGTP (Germans Trias I Pujol Research Institute), Barcelona, Spain
| | - Javier Terriente
- ZeClinics SL, IGTP (Germans Trias I Pujol Research Institute), Barcelona, Spain
| | - Vincenzo Di Donato
- ZeClinics SL, IGTP (Germans Trias I Pujol Research Institute), Barcelona, Spain
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15
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Howe DG, Blake JA, Bradford YM, Bult CJ, Calvi BR, Engel SR, Kadin JA, Kaufman TC, Kishore R, Laulederkind SJF, Lewis SE, Moxon SAT, Richardson JE, Smith C. Model organism data evolving in support of translational medicine. Lab Anim (NY) 2018; 47:277-289. [PMID: 30224793 PMCID: PMC6322546 DOI: 10.1038/s41684-018-0150-4] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2018] [Accepted: 08/13/2018] [Indexed: 02/07/2023]
Abstract
Model organism databases (MODs) have been collecting and integrating biomedical research data for 30 years and were designed to meet specific needs of each model organism research community. The contributions of model organism research to understanding biological systems would be hard to overstate. Modern molecular biology methods and cost reductions in nucleotide sequencing have opened avenues for direct application of model organism research to elucidating mechanisms of human diseases. Thus, the mandate for model organism research and databases has now grown to include facilitating use of these data in translational applications. Challenges in meeting this opportunity include the distribution of research data across many databases and websites, a lack of data format standards for some data types, and sustainability of scale and cost for genomic database resources like MODs. The issues of widely distributed data and application of data standards are some of the challenges addressed by FAIR (Findable, Accessible, Interoperable, and Re-usable) data principles. The Alliance of Genome Resources is now moving to address these challenges by bringing together expertly curated research data from fly, mouse, rat, worm, yeast, zebrafish, and the Gene Ontology consortium. Centralized multi-species data access, integration, and format standardization will lower the data utilization barrier in comparative genomics and translational applications and will provide a framework in which sustainable scale and cost can be addressed. This article presents a brief historical perspective on how the Alliance model organisms are complementary and how they have already contributed to understanding the etiology of human diseases. In addition, we discuss four challenges for using data from MODs in translational applications and how the Alliance is working to address them, in part by applying FAIR data principles. Ultimately, combined data from these animal models are more powerful than the sum of the parts.
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Affiliation(s)
- Douglas G Howe
- The Institute of Neuroscience, University of Oregon, Eugene, OR, USA.
| | | | - Yvonne M Bradford
- The Institute of Neuroscience, University of Oregon, Eugene, OR, USA
| | | | - Brian R Calvi
- Department of Biology, Indiana University, Bloomington, IN, USA
| | - Stacia R Engel
- Department of Genetics, Stanford University, Palo Alto, CA, USA
| | | | | | - Ranjana Kishore
- Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA
| | - Stanley J F Laulederkind
- Department of Biomedical Engineering, Medical College of Wisconsin and Marquette University, Milwaukee, WI, USA
| | - Suzanna E Lewis
- Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
| | - Sierra A T Moxon
- The Institute of Neuroscience, University of Oregon, Eugene, OR, USA
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16
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Cornet C, Di Donato V, Terriente J. Combining Zebrafish and CRISPR/Cas9: Toward a More Efficient Drug Discovery Pipeline. Front Pharmacol 2018; 9:703. [PMID: 30018554 PMCID: PMC6037853 DOI: 10.3389/fphar.2018.00703] [Citation(s) in RCA: 65] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2018] [Accepted: 06/11/2018] [Indexed: 12/13/2022] Open
Abstract
The use of zebrafish larvae in basic and applied research has grown exponentially during the last 20 years. The reasons for this success lay in its specific experimental advantages: on the one hand, the small size, the large number of progeny and the fast life cycle greatly facilitate large-scale approaches while maintaining 3Rs amenability; on the other hand, high genetic and physiological homology with humans and ease of genetic manipulation make zebrafish larvae a highly robust model for understanding human disease. Together, these advantages allow using zebrafish larvae for performing high-throughput research, both in terms of chemical and genetic phenotypic screenings. Therefore, the zebrafish larva as an animal model is placed between more reductionist in vitro high-throughput screenings and informative but low-throughput preclinical assays using mammals. However, despite its biological advantages and growing translational validation, zebrafish remains scarcely used in current drug discovery pipelines. In a context in which the pharmaceutical industry is facing a productivity crisis in bringing new drugs to the market, the combined advantages of zebrafish and the CRISPR/Cas9 system, the most powerful technology for genomic editing to date, has the potential to become a valuable tool for streamlining the generation of models mimicking human disease, the validation of novel drug targets and the discovery of new therapeutics. This review will focus on the most recent advances on CRISPR/Cas9 implementation in zebrafish and all their potential uses in biomedical research and drug discovery.
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Affiliation(s)
- Carles Cornet
- ZeClinics SL, PRBB (Barcelona Biomedical Research Park), Barcelona, Spain
| | - Vincenzo Di Donato
- ZeClinics SL, PRBB (Barcelona Biomedical Research Park), Barcelona, Spain
| | - Javier Terriente
- ZeClinics SL, PRBB (Barcelona Biomedical Research Park), Barcelona, Spain
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17
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Bradford YM, Toro S, Ramachandran S, Ruzicka L, Howe DG, Eagle A, Kalita P, Martin R, Taylor Moxon SA, Schaper K, Westerfield M. Zebrafish Models of Human Disease: Gaining Insight into Human Disease at ZFIN. ILAR J 2017; 58:4-16. [PMID: 28838067 PMCID: PMC5886338 DOI: 10.1093/ilar/ilw040] [Citation(s) in RCA: 89] [Impact Index Per Article: 12.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2016] [Revised: 12/12/2016] [Accepted: 12/19/2016] [Indexed: 12/18/2022] Open
Abstract
The Zebrafish Model Organism Database (ZFIN; https://zfin.org) is the central resource for genetic, genomic, and phenotypic data for zebrafish (Danio rerio) research. ZFIN continuously assesses trends in zebrafish research, adding new data types and providing data repositories and tools that members of the research community can use to navigate data. The many research advantages and flexibility of manipulation of zebrafish have made them an increasingly attractive animal to model and study human disease.To facilitate disease-related research, ZFIN developed support to provide human disease information as well as annotation of zebrafish models of human disease. Human disease term pages at ZFIN provide information about disease names, synonyms, and references to other databases as well as a list of publications reporting studies of human diseases in which zebrafish were used. Zebrafish orthologs of human genes that are implicated in human disease etiology are routinely studied to provide an understanding of the molecular basis of disease. Therefore, a list of human genes involved in the disease with their corresponding zebrafish ortholog is displayed on the disease page, with links to additional information regarding the genes and existing mutations. Studying human disease often requires the use of models that recapitulate some or all of the pathologies observed in human diseases. Access to information regarding existing and published models can be critical, because they provide a tractable way to gain insight into the phenotypic outcomes of the disease. ZFIN annotates zebrafish models of human disease and supports retrieval of these published models by listing zebrafish models on the disease term page as well as by providing search interfaces and data download files to access the data. The improvements ZFIN has made to annotate, display, and search data related to human disease, especially zebrafish models for disease and disease-associated gene information, should be helpful to researchers and clinicians considering the use of zebrafish to study human disease.
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Affiliation(s)
- Yvonne M. Bradford
- Yvonne M. Bradford, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sabrina Toro, PhD, is a scientific curator for the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sridhar Ramachandran, MS, is a scientific curator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Leyla Ruzicka, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database, at the University of Oregon in Eugene, Oregon. Douglas G. Howe, PhD, is the Data Curation Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Anne Eagle, MSCS, is the Software Development and Project Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Patrick Kalita, MS, is a software developer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Ryan Martin, MS, is a systems administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sierra A. Taylor Moxon, BA, is the Database Administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Kevin Schaper, BS, is a software engineer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Monte Westerfield, PhD, is a Professor of Biology in the Institute of Neuroscience and directs the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon.
| | - Sabrina Toro
- Yvonne M. Bradford, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sabrina Toro, PhD, is a scientific curator for the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sridhar Ramachandran, MS, is a scientific curator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Leyla Ruzicka, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database, at the University of Oregon in Eugene, Oregon. Douglas G. Howe, PhD, is the Data Curation Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Anne Eagle, MSCS, is the Software Development and Project Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Patrick Kalita, MS, is a software developer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Ryan Martin, MS, is a systems administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sierra A. Taylor Moxon, BA, is the Database Administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Kevin Schaper, BS, is a software engineer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Monte Westerfield, PhD, is a Professor of Biology in the Institute of Neuroscience and directs the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon.
| | - Sridhar Ramachandran
- Yvonne M. Bradford, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sabrina Toro, PhD, is a scientific curator for the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sridhar Ramachandran, MS, is a scientific curator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Leyla Ruzicka, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database, at the University of Oregon in Eugene, Oregon. Douglas G. Howe, PhD, is the Data Curation Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Anne Eagle, MSCS, is the Software Development and Project Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Patrick Kalita, MS, is a software developer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Ryan Martin, MS, is a systems administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sierra A. Taylor Moxon, BA, is the Database Administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Kevin Schaper, BS, is a software engineer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Monte Westerfield, PhD, is a Professor of Biology in the Institute of Neuroscience and directs the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon.
| | - Leyla Ruzicka
- Yvonne M. Bradford, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sabrina Toro, PhD, is a scientific curator for the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sridhar Ramachandran, MS, is a scientific curator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Leyla Ruzicka, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database, at the University of Oregon in Eugene, Oregon. Douglas G. Howe, PhD, is the Data Curation Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Anne Eagle, MSCS, is the Software Development and Project Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Patrick Kalita, MS, is a software developer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Ryan Martin, MS, is a systems administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sierra A. Taylor Moxon, BA, is the Database Administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Kevin Schaper, BS, is a software engineer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Monte Westerfield, PhD, is a Professor of Biology in the Institute of Neuroscience and directs the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon.
| | - Douglas G. Howe
- Yvonne M. Bradford, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sabrina Toro, PhD, is a scientific curator for the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sridhar Ramachandran, MS, is a scientific curator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Leyla Ruzicka, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database, at the University of Oregon in Eugene, Oregon. Douglas G. Howe, PhD, is the Data Curation Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Anne Eagle, MSCS, is the Software Development and Project Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Patrick Kalita, MS, is a software developer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Ryan Martin, MS, is a systems administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sierra A. Taylor Moxon, BA, is the Database Administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Kevin Schaper, BS, is a software engineer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Monte Westerfield, PhD, is a Professor of Biology in the Institute of Neuroscience and directs the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon.
| | - Anne Eagle
- Yvonne M. Bradford, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sabrina Toro, PhD, is a scientific curator for the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sridhar Ramachandran, MS, is a scientific curator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Leyla Ruzicka, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database, at the University of Oregon in Eugene, Oregon. Douglas G. Howe, PhD, is the Data Curation Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Anne Eagle, MSCS, is the Software Development and Project Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Patrick Kalita, MS, is a software developer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Ryan Martin, MS, is a systems administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sierra A. Taylor Moxon, BA, is the Database Administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Kevin Schaper, BS, is a software engineer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Monte Westerfield, PhD, is a Professor of Biology in the Institute of Neuroscience and directs the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon.
| | - Patrick Kalita
- Yvonne M. Bradford, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sabrina Toro, PhD, is a scientific curator for the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sridhar Ramachandran, MS, is a scientific curator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Leyla Ruzicka, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database, at the University of Oregon in Eugene, Oregon. Douglas G. Howe, PhD, is the Data Curation Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Anne Eagle, MSCS, is the Software Development and Project Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Patrick Kalita, MS, is a software developer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Ryan Martin, MS, is a systems administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sierra A. Taylor Moxon, BA, is the Database Administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Kevin Schaper, BS, is a software engineer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Monte Westerfield, PhD, is a Professor of Biology in the Institute of Neuroscience and directs the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon.
| | - Ryan Martin
- Yvonne M. Bradford, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sabrina Toro, PhD, is a scientific curator for the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sridhar Ramachandran, MS, is a scientific curator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Leyla Ruzicka, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database, at the University of Oregon in Eugene, Oregon. Douglas G. Howe, PhD, is the Data Curation Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Anne Eagle, MSCS, is the Software Development and Project Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Patrick Kalita, MS, is a software developer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Ryan Martin, MS, is a systems administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sierra A. Taylor Moxon, BA, is the Database Administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Kevin Schaper, BS, is a software engineer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Monte Westerfield, PhD, is a Professor of Biology in the Institute of Neuroscience and directs the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon.
| | - Sierra A. Taylor Moxon
- Yvonne M. Bradford, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sabrina Toro, PhD, is a scientific curator for the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sridhar Ramachandran, MS, is a scientific curator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Leyla Ruzicka, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database, at the University of Oregon in Eugene, Oregon. Douglas G. Howe, PhD, is the Data Curation Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Anne Eagle, MSCS, is the Software Development and Project Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Patrick Kalita, MS, is a software developer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Ryan Martin, MS, is a systems administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sierra A. Taylor Moxon, BA, is the Database Administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Kevin Schaper, BS, is a software engineer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Monte Westerfield, PhD, is a Professor of Biology in the Institute of Neuroscience and directs the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon.
| | - Kevin Schaper
- Yvonne M. Bradford, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sabrina Toro, PhD, is a scientific curator for the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sridhar Ramachandran, MS, is a scientific curator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Leyla Ruzicka, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database, at the University of Oregon in Eugene, Oregon. Douglas G. Howe, PhD, is the Data Curation Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Anne Eagle, MSCS, is the Software Development and Project Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Patrick Kalita, MS, is a software developer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Ryan Martin, MS, is a systems administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sierra A. Taylor Moxon, BA, is the Database Administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Kevin Schaper, BS, is a software engineer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Monte Westerfield, PhD, is a Professor of Biology in the Institute of Neuroscience and directs the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon.
| | - Monte Westerfield
- Yvonne M. Bradford, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sabrina Toro, PhD, is a scientific curator for the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sridhar Ramachandran, MS, is a scientific curator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Leyla Ruzicka, PhD, is a scientific curator and senior research associate at the Zebrafish Model Organism Database, at the University of Oregon in Eugene, Oregon. Douglas G. Howe, PhD, is the Data Curation Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Anne Eagle, MSCS, is the Software Development and Project Manager at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Patrick Kalita, MS, is a software developer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Ryan Martin, MS, is a systems administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Sierra A. Taylor Moxon, BA, is the Database Administrator at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Kevin Schaper, BS, is a software engineer at the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon. Monte Westerfield, PhD, is a Professor of Biology in the Institute of Neuroscience and directs the Zebrafish Model Organism Database at the University of Oregon in Eugene, Oregon.
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Doetschman T, Georgieva T. Gene Editing With CRISPR/Cas9 RNA-Directed Nuclease. Circ Res 2017; 120:876-894. [DOI: 10.1161/circresaha.116.309727] [Citation(s) in RCA: 57] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 08/04/2016] [Revised: 01/30/2017] [Accepted: 02/06/2017] [Indexed: 12/22/2022]
Abstract
Genetic engineering of model organisms and cultured cells has for decades provided important insights into the mechanisms underlying cardiovascular development and disease. In the past few years the development of several nuclease systems has broadened the range of model/cell systems that can be engineered. Of these, the CRISPR (clustered regularly interspersed short palindromic repeats)/Cas9 (CRISPR-associated protein 9) system has become the favorite for its ease of application. Here we will review this RNA-guided nuclease system for gene editing with respect to its usefulness for cardiovascular studies and with an eye toward potential therapy. Studies on its off-target activity, along with approaches to minimize this activity will be given. The advantages of gene editing versus gene targeting in embryonic stem cells, including the breadth of species and cell types to which it is applicable, will be discussed. We will also cover its use in iPSC for research and possible therapeutic purposes; and we will review its use in muscular dystrophy studies where considerable progress has been made toward dystrophin correction in mice. The CRISPR/Ca9s system is also being used for high-throughput screening of genes, gene regulatory regions, and long noncoding RNAs. In addition, the CRISPR system is being used for nongene-editing purposes such as activation and inhibition of gene expression, as well as for fluorescence tagging of chromosomal regions and individual mRNAs to track their cellular location. Finally, an approach to circumvent the inability of post-mitotic cells to support homologous recombination-based gene editing will be presented. In conclusion, applications of the CRISPR/Cas system are expanding at a breath-taking pace and are revolutionizing approaches to gain a better understanding of human diseases.
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Affiliation(s)
- Thomas Doetschman
- From the BIO5 Institute (T.D., T.G.) and Department of Cellular and Molecular Medicine (T.D.), University of Arizona, Tucson
| | - Teodora Georgieva
- From the BIO5 Institute (T.D., T.G.) and Department of Cellular and Molecular Medicine (T.D.), University of Arizona, Tucson
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