Transparent Transgenic in Vivo Zebrafish Model To
Total Page:16
File Type:pdf, Size:1020Kb
Load more
Recommended publications
-
Downloaded from NCBI Website [31]
Int. J. Mol. Sci. 2014, 15, 21788-21802; doi:10.3390/ijms151221788 OPEN ACCESS International Journal of Molecular Sciences ISSN 1422-0067 www.mdpi.com/journal/ijms Article Interactome Mapping Reveals Important Pathways in Skeletal Muscle Development of Pigs Jianhua Cao, Tinghua Huang, Xinyun Li and Shuhong Zhao * Key Laboratory of Agricultural Animal Genetics, Breeding and Reproduction of Ministry of Education of China, College of Animal Science and Technology, Huazhong Agricultural University, 1 Shizishan St., Wuhan 430070, China; E-Mails: [email protected] (J.C.); [email protected] (T.H.); [email protected] (X.L.) * Author to whom correspondence should be addressed; E-Mail: [email protected]; Tel.: +86-27-8738-7480; Fax: +86-27-8728-0408. External Editor: Mark L. Richter Received: 15 July 2014; in revised form: 19 October 2014 / Accepted: 6 November 2014 / Published: 26 November 2014 Abstract: The regulatory relationship and connectivity among genes involved in myogenesis and hypertrophy of skeletal muscle in pigs still remain large challenges. Presentation of gene interactions is a potential way to understand the mechanisms of developmental events in skeletal muscle. In this study, genome-wide transcripts and miRNA profiling was determined for Landrace pigs at four time points using microarray chips. A comprehensive method integrating gene ontology annotation and interactome network mapping was conducted to analyze the biological patterns and interaction modules of muscle development events based on differentially expressed genes and miRNAs. Our results showed that in total 484 genes and 34 miRNAs were detected for the duration from embryonic stage to adult in pigs, which composed two linear expression patterns with consensus changes. -
Inhibition of Β-Catenin Signaling Respecifies Anterior-Like Endothelium Into Beating Human Cardiomyocytes Nathan J
© 2015. Published by The Company of Biologists Ltd | Development (2015) 142, 3198-3209 doi:10.1242/dev.117010 RESEARCH ARTICLE STEM CELLS AND REGENERATION Inhibition of β-catenin signaling respecifies anterior-like endothelium into beating human cardiomyocytes Nathan J. Palpant1,2,3,*, Lil Pabon1,2,3,*, Meredith Roberts2,3,4, Brandon Hadland5,6, Daniel Jones7, Christina Jones3,8,9, Randall T. Moon3,8,9, Walter L. Ruzzo7, Irwin Bernstein5,6, Ying Zheng2,3,4 and Charles E. Murry1,2,3,4,10,‡ ABSTRACT lineages. Anterior mesoderm (mid-streak) gives rise to cardiac and endocardial endothelium, whereas posterior mesoderm (posterior During vertebrate development, mesodermal fate choices are regulated streak) gives rise to the blood-forming endothelium and vasculature by interactions between morphogens such as activin/nodal, BMPs and (Murry and Keller, 2008). Wnt/β-catenin that define anterior-posterior patterning and specify Well-described anterior-posterior morphogen gradients, downstream derivatives including cardiomyocyte, endothelial and including those of activin A/nodal and BMP4, are thought to hematopoietic cells. We used human embryonic stem cells to explore pattern mesoderm subtypes (Nostro et al., 2008; Sumi et al., 2008; how these pathways control mesodermal fate choices in vitro. Varying Kattman et al., 2011). Such gradients are proposed to specify doses of activin A and BMP4 to mimic cytokine gradient polarization anterior mesodermal fates like cardiomyocytes versus posterior in the anterior-posterior axis of the embryo led to differential activity mesodermal fates like blood. Remarkably, a recent study showed of Wnt/β-catenin signaling and specified distinct anterior-like (high activin/ that ectopic induction of a nodal/BMP gradient in zebrafish embryos low BMP) and posterior-like (low activin/high BMP) mesodermal was sufficient to create an entirely new embryonic axis that could populations. -
Cardiomyopathy
JACC: BASIC TO TRANSLATIONAL SCIENCE VOL.1,NO.5,2016 ª 2016 THE AUTHORS. PUBLISHED BY ELSEVIER ON BEHALF OF THE AMERICAN ISSN 2452-302X COLLEGE OF CARDIOLOGY FOUNDATION. THIS IS AN OPEN ACCESS ARTICLE UNDER http://dx.doi.org/10.1016/j.jacbts.2016.05.004 THE CC BY-NC-ND LICENSE (http://creativecommons.org/licenses/by-nc-nd/4.0/). PRE-CLINICAL RESEARCH FLNC Gene Splice Mutations Cause Dilated Cardiomyopathy a a b,c a d Rene L. Begay, BS, Charles A. Tharp, MD, August Martin, Sharon L. Graw, PHD, Gianfranco Sinagra, MD, e a a b,c,f b,c Daniela Miani, MD, Mary E. Sweet, BA, Dobromir B. Slavov, PHD, Neil Stafford, MD, Molly J. Zeller, b,c a d g g Rasha Alnefaie, Teisha J. Rowland, PHD, Francesca Brun, MD, Kenneth L. Jones, PHD, Katherine Gowan, a b,c a Luisa Mestroni, MD, Deborah M. Garrity, PHD, Matthew R.G. Taylor, MD, PHD VISUAL ABSTRACT HIGHLIGHTS Deoxyribonucleic acid obtained from 2 large DCM families was studied using whole-exome sequencing and cose- gregation analysis resulting in the iden- tification of a novel disease gene, FLNC. The2families,fromthesameItalian region, harbored the same FLNC splice- site mutation (FLNC c.7251D1G>A). A third U.S. family was then identified with a novel FLNC splice-site mutation (FLNC c.5669-1delG) that leads to haploinsufficiency as shown by the FLNC Western blot analysis of the heart muscle. The FLNC ortholog flncb morpholino was injected into zebrafish embryos, and when flncb was knocked down caused a cardiac dysfunction phenotype. -
Identification of the RNA Recognition Element of the RBPMS Family of RNA-Binding Proteins and Their Transcriptome-Wide Mrna Targets
Downloaded from rnajournal.cshlp.org on October 1, 2021 - Published by Cold Spring Harbor Laboratory Press Identification of the RNA recognition element of the RBPMS family of RNA-binding proteins and their transcriptome-wide mRNA targets THALIA A. FARAZI,1,5 CARL S. LEONHARDT,1,5 NEELANJAN MUKHERJEE,2 ALEKSANDRA MIHAILOVIC,1 SONG LI,3 KLAAS E.A. MAX,1 CINDY MEYER,1 MASASHI YAMAJI,1 PAVOL CEKAN,1 NICHOLAS C. JACOBS,2 STEFANIE GERSTBERGER,1 CLAUDIA BOGNANNI,1 ERIK LARSSON,4 UWE OHLER,2 and THOMAS TUSCHL1,6 1Laboratory of RNA Molecular Biology, Howard Hughes Medical Institute, The Rockefeller University, New York, New York 10065, USA 2Berlin Institute for Medical Systems Biology, Max Delbrück Center for Molecular Medicine, 13125 Berlin, Germany 3Biology Department, Duke University, Durham, North Carolina 27708, USA 4Institute of Biomedicine, The Sahlgrenska Academy, University of Gothenburg, Gothenburg, SE-405 30, Sweden ABSTRACT Recent studies implicated the RNA-binding protein with multiple splicing (RBPMS) family of proteins in oocyte, retinal ganglion cell, heart, and gastrointestinal smooth muscle development. These RNA-binding proteins contain a single RNA recognition motif (RRM), and their targets and molecular function have not yet been identified. We defined transcriptome-wide RNA targets using photoactivatable-ribonucleoside-enhanced crosslinking and immunoprecipitation (PAR-CLIP) in HEK293 cells, revealing exonic mature and intronic pre-mRNA binding sites, in agreement with the nuclear and cytoplasmic localization of the proteins. Computational and biochemical approaches defined the RNA recognition element (RRE) as a tandem CAC trinucleotide motif separated by a variable spacer region. Similar to other mRNA-binding proteins, RBPMS family of proteins relocalized to cytoplasmic stress granules under oxidative stress conditions suggestive of a support function for mRNA localization in large and/or multinucleated cells where it is preferentially expressed. -
Mapping Calcium Dynamics in the Heart of Zebrafish Embryos With
International Journal of Molecular Sciences Article Mapping Calcium Dynamics in the Heart of Zebrafish Embryos with Ratiometric Genetically Encoded Calcium Indicators Jussep Salgado-Almario 1 , Manuel Vicente 1 , Pierre Vincent 2,* , Beatriz Domingo 1,* and Juan Llopis 1,* 1 Physiology and Cell Dynamics, Centro Regional de Investigaciones Biomédicas (CRIB), Facultad de Medicina de Albacete, Departamento de Ciencias Médicas, Universidad de Castilla-La Mancha, C/Almansa 14, 02006 Albacete, Spain; [email protected] (J.S.-A.); [email protected] (M.V.) 2 UMR8256, Biological Adaptation and Ageing, CNRS, Sorbonne Université, F-75005 Paris, France * Correspondence: [email protected] (P.V.); [email protected] (B.D.); [email protected] (J.L.) Received: 4 September 2020; Accepted: 8 September 2020; Published: 10 September 2020 Abstract: Zebrafish embryos have been proposed as a cost-effective vertebrate model to study heart function. Many fluorescent genetically encoded Ca2+ indicators (GECIs) have been developed, but those with ratiometric readout seem more appropriate to image a moving organ such as the heart. Four ratiometric GECIs based on troponin C, TN-XXL, Twitch-1, Twitch-2B, and Twitch-4 were expressed transiently in the heart of zebrafish embryos. Their emission ratio reported the Ca2+ levels in both the atrium and the ventricle. We measured several kinetic parameters of the Ca2+ transients: systolic and diastolic ratio, the amplitude of the systolic Ca2+ rise, the heart rate, as well as the rise and decay times and slopes. The systolic ratio change decreased in cells expressing high biosensor concentration, possibly caused by Ca2+ buffering. The GECIs were able to report the effect of nifedipine and propranolol on the heart, which resulted in changes in heart rate, diastolic and systolic Ca2+ levels, and Ca2+ kinetics. -
RNA Splicing Regulated by RBFOX1 Is Essential for Cardiac Function in Zebrafish Karen S
© 2015. Published by The Company of Biologists Ltd | Journal of Cell Science (2015) 128, 3030-3040 doi:10.1242/jcs.166850 RESEARCH ARTICLE RNA splicing regulated by RBFOX1 is essential for cardiac function in zebrafish Karen S. Frese1,2,*, Benjamin Meder1,2,*, Andreas Keller3,4, Steffen Just5, Jan Haas1,2, Britta Vogel1,2, Simon Fischer1,2, Christina Backes4, Mark Matzas6, Doreen Köhler1, Vladimir Benes7, Hugo A. Katus1,2 and Wolfgang Rottbauer5,‡ ABSTRACT U2, U4, U5 and U6) and several hundred associated regulator Alternative splicing is one of the major mechanisms through which proteins (Wahl et al., 2009). Some of the best-characterized the proteomic and functional diversity of eukaryotes is achieved. splicing regulators include the serine-arginine (SR)-rich family, However, the complex nature of the splicing machinery, its associated heterogeneous nuclear ribonucleoproteins (hnRNPs) proteins, and splicing regulators and the functional implications of alternatively the Nova1 and Nova2, and the PTB and nPTB (also known as spliced transcripts are only poorly understood. Here, we investigated PTBP1 and PTBP2) families (David and Manley, 2008; Gabut et al., the functional role of the splicing regulator rbfox1 in vivo using the 2008; Li et al., 2007; Matlin et al., 2005). The diversity in splicing is zebrafish as a model system. We found that loss of rbfox1 led to further increased by the location and nucleotide sequence of pre- progressive cardiac contractile dysfunction and heart failure. By using mRNA enhancer and silencer motifs that either promote or inhibit deep-transcriptome sequencing and quantitative real-time PCR, we splicing by the different regulators. Adding to this complexity, show that depletion of rbfox1 in zebrafish results in an altered isoform regulating motifs are very common throughout the genome, but are expression of several crucial target genes, such as actn3a and hug. -
In Vitro Generation of Functional Murine Heart Organoids Via FGF4
ARTICLE https://doi.org/10.1038/s41467-020-18031-5 OPEN In vitro generation of functional murine heart organoids via FGF4 and extracellular matrix ✉ Jiyoung Lee 1 , Akito Sutani1,2, Rin Kaneko1, Jun Takeuchi3, Tetsuo Sasano4, Takashi Kohda1,5, Kensuke Ihara3, ✉ Kentaro Takahashi3, Masahiro Yamazoe3, Tomohiro Morio2, Tetsushi Furukawa3 & Fumitoshi Ishino 1 Our understanding of the spatiotemporal regulation of cardiogenesis is hindered by the difficulties in modeling this complex organ currently by in vitro models. Here we develop a 1234567890():,; method to generate heart organoids from mouse embryonic stem cell-derived embryoid bodies. Consecutive morphological changes proceed in a self-organizing manner in the presence of the laminin-entactin (LN/ET) complex and fibroblast growth factor 4 (FGF4), and the resulting in vitro heart organoid possesses atrium- and ventricle-like parts containing cardiac muscle, conducting tissues, smooth muscle and endothelial cells that exhibited myocardial contraction and action potentials. The heart organoids exhibit ultrastructural, histochemical and gene expression characteristics of considerable similarity to those of developmental hearts in vivo. Our results demonstrate that this method not only provides a biomimetic model of the developing heart-like structure with simplified differentiation pro- tocol, but also represents a promising research tool with a broad range of applications, including drug testing. 1 Department of Epigenetics, Medical Research Institute, Tokyo Medical and Dental University (TMDU), Tokyo 113-8510, Japan. 2 Department of Pediatrics and Developmental Biology, Tokyo Medical and Dental University (TMDU), Tokyo 113-8510, Japan. 3 Department of Bio-Informational Pharmacology, Medical Research Institute, Tokyo Medical and Dental University (TMDU), Tokyo 113-8510, Japan. -
Genotype-Related Clinical Characteristics and Myocardial Fibrosis and Their Association with Prognosis in Hypertrophic Cardiomyopathy
Journal of Clinical Medicine Article Genotype-Related Clinical Characteristics and Myocardial Fibrosis and Their Association with Prognosis in Hypertrophic Cardiomyopathy 1, 2, 3, 3 Hyung Yoon Kim y , Jong Eun Park y, Sang-Chol Lee * , Eun-Seok Jeon , Young Keun On 3, Sung Mok Kim 4 , Yeon Hyeon Choe 4 , Chang-Seok Ki 5, Jong-Won Kim 6 and Kye Hun Kim 1 1 Department of Cardiovascular Medicine, Chonnam National University Medical School/Hospital, Gwangju 61469, Korea; [email protected] (H.Y.K.); [email protected] (K.H.K.) 2 Department of Laboratory Medicine, Hanyang University Guri Hospital, Hanyang University College of Medicine, Guri 11923, Korea; [email protected] 3 Department of Internal Medicine, Cardiovascular Imaging Center, Heart, Vascular & Stroke Institute, Samsung Medical Center, Sungkyunkwan University School of Medicine, Seoul 06351, Korea; [email protected] (E.-S.J.); [email protected] (Y.K.O.) 4 Department of Radiology, Cardiovascular Imaging Center, Heart, Vascular & Stroke Institute, Samsung Medical Center, Sungkyunkwan University School of Medicine, Seoul 06351, Korea; [email protected] (S.M.K.); [email protected] (Y.H.C.) 5 Green Cross Genome, Yongin 16924, Korea; [email protected] 6 Department of Laboratory Medicine and Genetics, Samsung Medical Center, Sungkyunkwan University School of Medicine, Seoul 06351, Korea; [email protected] * Correspondence: [email protected]; Tel.: +82-2-3410-3419 These authors equally contributed to this work as co-first authors. y Received: 27 April 2020; Accepted: 27 May 2020; Published: 1 June 2020 Abstract: Background: The spectrum of genetic variants and their clinical significance of Hypertrophic cardiomyopathy (HCM) have been poorly studied in Asian patients. -
The Use of Genetic Analyses and Functional Assays for the Interpretation of Rare Variants in Pediatric Heart Disease
The use of genetic analyses and functional assays for the interpretation of rare variants in pediatric heart disease A dissertation submitted to the Division of Graduate Studies and Research, University of Cincinnati in partial fulfillment of the requirements for the degree of Doctor of Philosophy in Molecular Genetics by Jeffrey A. Schubert Bachelor of Science, Mount St. Joseph University, 2012 Committee Chair: Stephanie M. Ware, M.D., Ph.D. Edmund Choi, Ph.D. Benjamin Landis, M.D. Anil Menon, Ph.D. David Wieczorek, Ph.D. Molecular Genetics, Biochemistry, and Microbiology Graduate Program College of Medicine, University of Cincinnati Cincinnati, Ohio, USA, 2018 ABSTRACT The use of next generation technologies such as whole exome sequencing (WES) has paved the way for discovering novel causes of Mendelian diseases. This has been demonstrated in pediatric heart diseases, including cardiomyopathy (CM) and familial thoracic aortic aneurysm (TAA). Each of these conditions carries a high risk of a serious cardiac event, including sudden heart failure or aortic rupture, which are often fatal. Patients with either disease can be asymptomatic before presenting with these events, which necessitates early diagnosis. Though there are many known genetic causes of disease for both conditions, there is still room for discovery of novel pathogenic genes and variants, as many patients have an undefined genetic diagnosis. WES covers the protein-coding portion of the genome, which yields a massive amount of data, though it comprises only 1% of the genome. Sorting and filtering sequencing information to identify (sometimes) a single base pair change responsible for the patient phenotype is challenging. Further, interpreting identified candidate variants must be done according to strict standards, which makes it difficult to definitively say whether a coding change is pathogenic or benign. -
82474202.Pdf
Developmental Biology 361 (2012) 364–376 Contents lists available at SciVerse ScienceDirect Developmental Biology journal homepage: www.elsevier.com/developmentalbiology Distinct phases of Wnt/β-catenin signaling direct cardiomyocyte formation in zebrafish Tracy E. Dohn a,b,c,d, Joshua S. Waxman c,d,⁎ a Molecular and Developmental Biology Graduate Program, University of Cincinnati, USA b Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229, USA c Molecular Cardiovascular Biology Division, Cincinnati Children's Hospital Medical Center, Cincinnati, OH, 45229, USA d The Heart Institute, Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229, USA article info abstract Article history: Normal heart formation requires reiterative phases of canonical Wnt/β-catenin (Wnt) signaling. Understanding Received for publication 7 February 2011 the mechanisms by which Wnt signaling directs cardiomyocyte (CM) formation in vivo is critical to being able to Revised 25 October 2011 precisely direct differentiated CMs from stem cells in vitro. Here, we investigate the roles of Wnt signaling in Accepted 27 October 2011 zebrafish CM formation using heat-shock inducible transgenes that increase and decrease Wnt signaling. We Available online 4 November 2011 find that there are three phases during which CM formation is sensitive to modulation of Wnt signaling through the first 24 h of development. In addition to the previously recognized roles for Wnt signaling during mesoderm Keywords: fi fi Cardiomyocyte speci cation and in the pre-cardiac mesoderm, we nd a previously unrecognized role during CM differentiation Differentiation where Wnt signaling is necessary and sufficient to promote the differentiation of additional atrial cells. We also Wnt signaling extend the previous studies of the roles of Wnt signaling during mesoderm specification and in pre-cardiac Zebrafish mesoderm. -
Transcriptional Profiling Reveals Extraordinary Diversity Among
TOOLS AND RESOURCES Transcriptional profiling reveals extraordinary diversity among skeletal muscle tissues Erin E Terry1, Xiping Zhang2, Christy Hoffmann1, Laura D Hughes3, Scott A Lewis1, Jiajia Li1, Matthew J Wallace1, Lance A Riley2, Collin M Douglas2, Miguel A Gutierrez-Monreal2, Nicholas F Lahens4, Ming C Gong5, Francisco Andrade5, Karyn A Esser2, Michael E Hughes1* 1Division of Pulmonary and Critical Care Medicine, Washington University School of Medicine, St. Louis, United States; 2Department of Physiology and Functional Genomics, University of Florida College of Medicine, Gainesville, United States; 3Department of Integrative, Structural and Computational Biology, The Scripps Research Institute, La Jolla, United States; 4Institute for Translational Medicine and Therapeutics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, United States; 5Department of Physiology, University of Kentucky School of Medicine, Lexington, United States Abstract Skeletal muscle comprises a family of diverse tissues with highly specialized functions. Many acquired diseases, including HIV and COPD, affect specific muscles while sparing others. Even monogenic muscular dystrophies selectively affect certain muscle groups. These observations suggest that factors intrinsic to muscle tissues influence their resistance to disease. Nevertheless, most studies have not addressed transcriptional diversity among skeletal muscles. Here we use RNAseq to profile mRNA expression in skeletal, smooth, and cardiac muscle tissues from mice and rats. Our data set, MuscleDB, reveals extensive transcriptional diversity, with greater than 50% of transcripts differentially expressed among skeletal muscle tissues. We detect mRNA expression of *For correspondence: hundreds of putative myokines that may underlie the endocrine functions of skeletal muscle. We [email protected] identify candidate genes that may drive tissue specialization, including Smarca4, Vegfa, and Competing interests: The Myostatin. -
Transcriptome of Human Foetal Heart Compared with Cardiomyocytes from Pluripotent Stem Cells Cathelijne W
© 2015. Published by The Company of Biologists Ltd | Development (2015) 142, 3231-3238 doi:10.1242/dev.123810 RESEARCH REPORT TECHNIQUES AND RESOURCES Transcriptome of human foetal heart compared with cardiomyocytes from pluripotent stem cells Cathelijne W. van den Berg1, Satoshi Okawa2, Susana M. Chuva de Sousa Lopes1, Liesbeth van Iperen1, Robert Passier1, Stefan R. Braam3, Leon G. Tertoolen1, Antonio del Sol2, Richard P. Davis1,* and Christine L. Mummery1,*,‡ ABSTRACT et al., 2003). The left ventricular wall is thicker than the right because Differentiated derivatives of human pluripotent stem cells (hPSCs) are it pumps oxygenated blood from the lungs to all parts of the body via often considered immature because they resemble foetal cells more the aorta. The right side of the heart receives de-oxygenated blood than adult, with hPSC-derived cardiomyocytes (hPSC-CMs) being no and pumps it through the lungs to re-oxygenate. Although much is exception. Many functional features of these cardiomyocytes, such as known about the molecular mechanisms that drive heart formation their cell morphology, electrophysiological characteristics, sarcomere and morphogenesis in laboratory animals (Harvey, 2002), little organization and contraction force, are underdeveloped compared with equivalent data is available on the human heart. This is important for adult cardiomyocytes. However, relatively little is known about how understanding how specific mutations in different genes (i.e. their gene expression profiles compare with the human foetal heart, in missense mutations), rather than knockouts commonly used in part because of the paucityof data on the human foetal heart at different experimental animals, affect human heart development and function stages of development.