Mechanics of the Cell Nucleus 3 Dong-Hwee Kim, Jungwon Hah, and Denis Wirtz
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Glossary - Cellbiology
1 Glossary - Cellbiology Blotting: (Blot Analysis) Widely used biochemical technique for detecting the presence of specific macromolecules (proteins, mRNAs, or DNA sequences) in a mixture. A sample first is separated on an agarose or polyacrylamide gel usually under denaturing conditions; the separated components are transferred (blotting) to a nitrocellulose sheet, which is exposed to a radiolabeled molecule that specifically binds to the macromolecule of interest, and then subjected to autoradiography. Northern B.: mRNAs are detected with a complementary DNA; Southern B.: DNA restriction fragments are detected with complementary nucleotide sequences; Western B.: Proteins are detected by specific antibodies. Cell: The fundamental unit of living organisms. Cells are bounded by a lipid-containing plasma membrane, containing the central nucleus, and the cytoplasm. Cells are generally capable of independent reproduction. More complex cells like Eukaryotes have various compartments (organelles) where special tasks essential for the survival of the cell take place. Cytoplasm: Viscous contents of a cell that are contained within the plasma membrane but, in eukaryotic cells, outside the nucleus. The part of the cytoplasm not contained in any organelle is called the Cytosol. Cytoskeleton: (Gk. ) Three dimensional network of fibrous elements, allowing precisely regulated movements of cell parts, transport organelles, and help to maintain a cell’s shape. • Actin filament: (Microfilaments) Ubiquitous eukaryotic cytoskeletal proteins (one end is attached to the cell-cortex) of two “twisted“ actin monomers; are important in the structural support and movement of cells. Each actin filament (F-actin) consists of two strands of globular subunits (G-Actin) wrapped around each other to form a polarized unit (high ionic cytoplasm lead to the formation of AF, whereas low ion-concentration disassembles AF). -
Bacterial Cell Membrane
BACTERIAL CELL MEMBRANE Dr. Rakesh Sharda Department of Veterinary Microbiology NDVSU College of Veterinary Sc. & A.H., MHOW CYTOPLASMIC MEMBRANE ➢The cytoplasmic membrane, also called a cell membrane or plasma membrane, is about 7 nanometers (nm; 1/1,000,000,000 m) thick. ➢It lies internal to the cell wall and encloses the cytoplasm of the bacterium. ➢It is the most dynamic structure of a prokaryotic cell. Structure of cell membrane ➢The structure of bacterial plasma membrane is that of unit membrane, i.e., a fluid phospholipid bilayer, composed of phospholipids (40%) and peripheral and integral proteins (60%) molecules. ➢The phospholipids of bacterial cell membranes do not contain sterols as in eukaryotes, but instead consist of saturated or monounsaturated fatty acids (rarely, polyunsaturated fatty acids). ➢Many bacteria contain sterol-like molecules called hopanoids. ➢The hopanoids most likely stabilize the bacterial cytoplasmic membrane. ➢The phospholipids are amphoteric molecules with a polar hydrophilic glycerol "head" attached via an ester bond to two non-polar hydrophobic fatty acid tails. ➢The phospholipid bilayer is arranged such that the polar ends of the molecules form the outermost and innermost surface of the membrane while the non-polar ends form the center of the membrane Fluid mosaic model ➢The plasma membrane contains proteins, sugars, and other lipids in addition to the phospholipids. ➢The model that describes the arrangement of these substances in lipid bilayer is called the fluid mosaic model ➢Dispersed within the bilayer are various structural and enzymatic proteins, which carry out most membrane functions. ➢Some membrane proteins are located and function on one side or another of the membrane (peripheral proteins). -
Novel Nesprin-1 Mutations Associated with Dilated
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by University of East Anglia digital repository Human Molecular Genetics, 2017, Vol. 0, No. 0 1–19 doi: 10.1093/hmg/ddx116 Advance Access Publication Date: 7 April 2017 Original Article ORIGINAL ARTICLE Novel nesprin-1 mutations associated with dilated cardiomyopathy cause nuclear envelope disruption and defects in myogenesis Can Zhou1,2,†, Chen Li1,2,†, Bin Zhou3,4, Huaqin Sun4,5, Victoria Koullourou1,6, Ian Holt7, Megan J. Puckelwartz8, Derek T. Warren1, Robert Hayward1, Ziyuan Lin4,5, Lin Zhang3,4, Glenn E. Morris7, Elizabeth M. McNally8, Sue Shackleton6, Li Rao2, Catherine M. Shanahan1,‡ and Qiuping Zhang1,*,‡ 1King’s College London British Heart Foundation Centre of Research Excellence, Cardiovascular Division, London SE5 9NU, UK, 2Department of Cardiology, West China Hospital of Sichuan University, Chengdu 610041, China, 3Laboratory of Molecular Translational Medicine, 4Key Laboratory of Obstetric & Gynecologic and Pediatric Diseases and Birth Defects of Ministry of Education, 5SCU-CUHK Joint Laboratory for Reproductive Medicine, West China Second University Hospital, Sichuan University, Chengdu, 610041, China, 6Department of Molecular and Cell Biology, University of Leicester, Leicester LE1 9HN, UK, 7Wolfson Centre for Inherited Neuromuscular Disease, RJAH Orthopaedic Hospital, Oswestry SY10 7AG, UK and Institute for Science and Technology in Medicine, Keele University, ST5 5BG, UK and 8Center for Genetic Medicine, Northwestern University Feinberg -
For the Safe Delivery of Essential Proteins
Dedicated ‘Bodyguards’ for the Safe Delivery of Essential Proteins Dr Brigitte Pertschy DEDICATED ‘BODYGUARDS’ FOR THE SAFE DELIVERY OF ESSENTIAL PROTEINS Ribosomes are undoubtedly one of the most essential cellular components in life. These macromolecules are responsible for the synthesis of proteins in all living cells. Dr Brigitte Pertschy, Dr Ingrid Rössler and Jutta Hafner at the Institute of Molecular Biosciences at the University of Graz, Austria, have discovered that the safe delivery of essential ribosomal proteins that make up the ribosomes is dependant on ‘private bodyguards’ or ‘chaperones’. Nascent Ribosomal Proteins Journey Ribosome synthesis is an important of their synthesis and proper folding Across the Cell to the Nucleus and continuous process. Dr Pertschy of the proteins. Importins have also describes that a growing cell requires been reported as aides in the import of The ribosome is the intricate nano- up to 1,000 ribosomes to be synthesised proteins to the cell nucleus as well as in machinery that translates messenger per minute. The r-proteins are protecting proteins from aggregation. RNA strands (mRNA) into protein. Our produced in the cell cytoplasm by the DNA holds the instructions for building ribosome itself (that way, the ribosome The team speculated that since every protein needed for our bodies to participates in its own reproduction). r-proteins are produced at extremely function. Initially, DNA is transcribed From there the r-proteins must travel high amounts and their correct into mRNA, which contains the amino to the cell nucleus where in a complex functioning is so critical for a cell, these acid sequence of a particular protein. -
Standard 2: CELL BIOLOGY – REVIEW of BASICS
Standard 2: CELL BIOLOGY – REVIEW OF BASICS CELL PART OR TYPE OF CELL WHERE FOUND WHAT DOES IT FUNCTION: MISCELLANEOUS ORGANELLE Prokaryotic cell Plant cell LOOK LIKE: Job it does in INFORMATION: things Eukaryotic cell Animal cell Describe or Draw the cell such as color, what it is Both Both made of, size, etc. plasma/cell See diagram Holds cell together Phospholipid bilayer with membrane both both Regulates what goes proteins in/out of cell Semipermeable cytoplasm both Clear thick jelly- Supports/protects both like material in cell cell organelles See diagram Control center nucleus eukaryotic both Contains DNA See diagram Where proteins are ribosome both both made See diagram Process proteins Golgi complex eukaryotic both that go to other /apparatus parts of cell Membrane-bound Digests materials lysosome eukaryotic animal sac of digestive within the cell enzymes Membrane-bound Stores water, food, One large one in plants vacuole eukaryotic both storage area waste and dissolved Many smaller ones in minerals animals endoplasmic Network of Transport materials Can be rough (with reticulum eukaryotic both membrane tubes throughout the cell ribosomes attached) or smooth (without ribosomes) See diagram Where cell respiration Called Powerhouse of cell mitochondria eukaryotic both occurs (releases Makes ATP from energy for cell to use) breaking down glucose See diagram Where photosynthesis Contains chlorophyll chloroplast eukaryotic plant takes place Converts light energy into chemical energy in glucose Some pro- and plant (also fungi Rigid structure -
Characterization of a Full-Length Infectious Clone of Bovine Foamy Virus 3026
VIROLOGICA SINICA 2014, 29 (2): 94-102 DOI 10.1007/s12250-014-3382-5 RESEARCH ARTICLE Characterization of a full-length infectious clone of bovine foamy virus 3026 * Tiejun Bing1, Hong Yu1, 2, Yue Li1, Lei Sun3, Juan Tan1, Yunqi Geng1, Wentao Qiao1 1. Key Laboratory of Molecular Microbiology and Biotechnology (Ministry of Education) and Key Laboratory of Microbial Functional Genomics (Tianjin), College of Life Sciences, Nankai University, Tianjin 300071, China; 2. Department of Molecular and Cellular Pharmacology, the Vascular Biology Institute, University of Miami School of Medicine, Miami, FL 33136, USA; 3. National Laboratory of Biomacromolecules, Center for Biological Imaging, Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, China The biological features of most foamy viruses (FVs) are poorly understood, including bovine foamy virus (BFV). BFV strain 3026 (BFV3026) was isolated from the peripheral blood mononuclear cells of an infected cow in Zhangjiakou, China. A full-length genomic clone of BFV3026 was obtained from BFV3026-infected cells, and it exhibited more than 99% amino acid (AA) homology to another BFV strain isolated in the USA. Upon transfection into fetal canine thymus cells, the full-length BFV3026 clone produced viral structural and auxiliary proteins, typical cytopathic effects, and virus particles. These results demonstrate that the full-length BFV3026 clone is fully infectious and can be used in further BFV3026 research. KEYWORDS bovine foamy virus; infectious clone; syncytium; electron microscopy pol, and env structural genes and additional open read- INTRODUCTION ing frames (ORFs) that are under the control of the 5′- long terminal repeat (LTR) and an internal promoter (IP) Foamy viruses (FVs) are members of Retroviridae. -
Building the Interphase Nucleus: a Study on the Kinetics of 3D Chromosome Formation, Temporal Relation to Active Transcription, and the Role of Nuclear Rnas
University of Massachusetts Medical School eScholarship@UMMS GSBS Dissertations and Theses Graduate School of Biomedical Sciences 2020-07-28 Building the Interphase Nucleus: A study on the kinetics of 3D chromosome formation, temporal relation to active transcription, and the role of nuclear RNAs Kristin N. Abramo University of Massachusetts Medical School Let us know how access to this document benefits ou.y Follow this and additional works at: https://escholarship.umassmed.edu/gsbs_diss Part of the Bioinformatics Commons, Cell Biology Commons, Computational Biology Commons, Genomics Commons, Laboratory and Basic Science Research Commons, Molecular Biology Commons, Molecular Genetics Commons, and the Systems Biology Commons Repository Citation Abramo KN. (2020). Building the Interphase Nucleus: A study on the kinetics of 3D chromosome formation, temporal relation to active transcription, and the role of nuclear RNAs. GSBS Dissertations and Theses. https://doi.org/10.13028/a9gd-gw44. Retrieved from https://escholarship.umassmed.edu/ gsbs_diss/1099 Creative Commons License This work is licensed under a Creative Commons Attribution-Noncommercial 4.0 License This material is brought to you by eScholarship@UMMS. It has been accepted for inclusion in GSBS Dissertations and Theses by an authorized administrator of eScholarship@UMMS. For more information, please contact [email protected]. BUILDING THE INTERPHASE NUCLEUS: A STUDY ON THE KINETICS OF 3D CHROMOSOME FORMATION, TEMPORAL RELATION TO ACTIVE TRANSCRIPTION, AND THE ROLE OF NUCLEAR RNAS A Dissertation Presented By KRISTIN N. ABRAMO Submitted to the Faculty of the University of Massachusetts Graduate School of Biomedical Sciences, Worcester in partial fulfillment of the requirements for the degree of DOCTOR OF PHILOSPOPHY July 28, 2020 Program in Systems Biology, Interdisciplinary Graduate Program BUILDING THE INTERPHASE NUCLEUS: A STUDY ON THE KINETICS OF 3D CHROMOSOME FORMATION, TEMPORAL RELATION TO ACTIVE TRANSCRIPTION, AND THE ROLE OF NUCLEAR RNAS A Dissertation Presented By KRISTIN N. -
Introduction to the Cell Cell History Cell Structures and Functions
Introduction to the cell cell history cell structures and functions CK-12 Foundation December 16, 2009 CK-12 Foundation is a non-profit organization with a mission to reduce the cost of textbook materials for the K-12 market both in the U.S. and worldwide. Using an open-content, web-based collaborative model termed the “FlexBook,” CK-12 intends to pioneer the generation and distribution of high quality educational content that will serve both as core text as well as provide an adaptive environment for learning. Copyright ©2009 CK-12 Foundation This work is licensed under the Creative Commons Attribution-Share Alike 3.0 United States License. To view a copy of this license, visit http://creativecommons.org/licenses/by-sa/3.0/us/ or send a letter to Creative Commons, 171 Second Street, Suite 300, San Francisco, California, 94105, USA. Contents 1 Cell structure and function dec 16 5 1.1 Lesson 3.1: Introduction to Cells .................................. 5 3 www.ck12.org www.ck12.org 4 Chapter 1 Cell structure and function dec 16 1.1 Lesson 3.1: Introduction to Cells Lesson Objectives • Identify the scientists that first observed cells. • Outline the importance of microscopes in the discovery of cells. • Summarize what the cell theory proposes. • Identify the limitations on cell size. • Identify the four parts common to all cells. • Compare prokaryotic and eukaryotic cells. Introduction Knowing the make up of cells and how cells work is necessary to all of the biological sciences. Learning about the similarities and differences between cell types is particularly important to the fields of cell biology and molecular biology. -
Nuclear Domains
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Cold Spring Harbor Laboratory Institutional Repository CELL SCIENCE AT A GLANCE 2891 Nuclear domains dynamic structures and, in addition, nuclear pore complex has been shown to rapid protein exchange occurs between have a remarkable substructure, in which David L. Spector many of the domains and the a basket extends into the nucleoplasm. Cold Spring Harbor Laboratory, One Bungtown nucleoplasm (Misteli, 2001). An The peripheral nuclear lamina lies Road, Cold Spring Harbor, NY 11724, USA extensive effort is currently underway by inside the nuclear envelope and is (e-mail: [email protected]) numerous laboratories to determine the composed of lamins A/C and B and is biological function(s) associated with thought to play a role in regulating Journal of Cell Science 114, 2891-2893 (2001) © The Company of Biologists Ltd each domain. The accompanying poster nuclear envelope structure and presents an overview of commonly anchoring interphase chromatin at the The mammalian cell nucleus is a observed nuclear domains. nuclear periphery. Internal patches of membrane-bound organelle that contains lamin protein are also present in the the machinery essential for gene The nucleus is bounded by a nuclear nucleoplasm (Moir et al., 2000). The expression. Although early studies envelope, a double-membrane structure, cartoon depicts much of the nuclear suggested that little organization exists of which the outer membrane is envelope/peripheral lamina as within this compartment, more contiguous with the rough endoplasmic transparent, so that internal structures contemporary studies have identified an reticulum and is often studded with can be more easily observed. -
Biogenesis of Nuclear Bodies
Downloaded from http://cshperspectives.cshlp.org/ on September 30, 2021 - Published by Cold Spring Harbor Laboratory Press Biogenesis of Nuclear Bodies Miroslav Dundr1 and Tom Misteli2 1Department of Cell Biology, Rosalind Franklin University of Medicine and Science, North Chicago, Ilinois 60064 2National Cancer Institute, National Institutes of Health, Bethesda, Maryland 20892 Correspondence: [email protected]; [email protected] The nucleus is unique amongst cellular organelles in that it contains a myriad of discrete suborganelles. These nuclear bodies are morphologically and molecularly distinct entities, and they host specific nuclear processes. Although the mode of biogenesis appears to differ widely between individual nuclear bodies, several common design principles are emerging, particularly, the ability of nuclear bodies to form de novo, a role of RNA as a struc- tural element and self-organization as a mode of formation. The controlled biogenesis of nuclear bodies is essential for faithful maintenance of nuclear architecture during the cell cycle and is an important part of cellular responses to intra- and extracellular events. he mammalian cell nucleus contains a mul- seems to act indirectly by regulating the local Ttitude of discrete suborganelles, referred to concentration of its components in the nucleo- as nuclear bodies or nuclear compartments plasm. (reviewed in Dundr and Misteli 2001; Spector In many ways, nuclear bodies are similar 2001; Lamond and Spector 2003; Handwerger to conventional cellular organelles in the cy- and Gall 2006; Zhao et al. 2009). These bodies toplasm. Like cytoplasmic organelles, they con- are an essential part of the nuclear landscape tain a specific set of resident proteins, which as they compartmentalize the nuclear space defines each structure molecularly. -
SMC Complexes Orchestrate the Mitotic Chromatin Interaction Landscape
Curr Genet DOI 10.1007/s00294-017-0755-y REVIEW SMC complexes orchestrate the mitotic chromatin interaction landscape Yasutaka Kakui1 · Frank Uhlmann1 Received: 13 September 2017 / Revised: 14 September 2017 / Accepted: 16 September 2017 © The Author(s) 2017. This article is an open access publication Abstract Chromatin is a very long DNA–protein complex Keywords Chromosome condensation · SMC complex · that controls the expression and inheritance of the genetic Chromatin · Cell cycle · Hi-C information. Chromatin is stored within the nucleus in interphase and further compacted into chromosomes dur- ing mitosis. This process, known as chromosome condensa- Introduction tion, is essential for faithful segregation of genomic DNA into daughter cells. Condensin and cohesin, members of How chromatin is spatially organized within the cell nucleus the structural maintenance of chromosomes (SMC) fam- and within chromosomes is a fundamental question in cell ily, are fundamental for chromosome architecture, both biology. Centimeter-long DNA molecules change their spa- for establishment of chromatin structure in the interphase tial chromatin organization within micrometer-sized cells nucleus and for the formation of condensed chromosomes during cell cycle progression. In interphase, chromatin is in mitosis. These ring-shaped SMC complexes are thought distributed throughout the nucleus to express the genetic to regulate the interactions between DNA strands by topo- information. When cells enter mitosis, chromatin becomes logically entrapping DNA. How this activity shapes chro- compacted to form mitotic chromosomes. Chromosome mosomes is not yet understood. Recent high throughput condensation, the gross morphological change of spatial chromosome conformation capture studies revealed how chromatin organization in mitosis, is indispensable for chromatin is reorganized during the cell cycle and have the faithful inheritance of genetic information. -
DEAD-Box RNA Helicases in Cell Cycle Control and Clinical Therapy
cells Review DEAD-Box RNA Helicases in Cell Cycle Control and Clinical Therapy Lu Zhang 1,2 and Xiaogang Li 2,3,* 1 Department of Nephrology, Renmin Hospital of Wuhan University, Wuhan 430060, China; [email protected] 2 Department of Internal Medicine, Mayo Clinic, 200 1st Street, SW, Rochester, MN 55905, USA 3 Department of Biochemistry and Molecular Biology, Mayo Clinic, 200 1st Street, SW, Rochester, MN 55905, USA * Correspondence: [email protected]; Tel.: +1-507-266-0110 Abstract: Cell cycle is regulated through numerous signaling pathways that determine whether cells will proliferate, remain quiescent, arrest, or undergo apoptosis. Abnormal cell cycle regula- tion has been linked to many diseases. Thus, there is an urgent need to understand the diverse molecular mechanisms of how the cell cycle is controlled. RNA helicases constitute a large family of proteins with functions in all aspects of RNA metabolism, including unwinding or annealing of RNA molecules to regulate pre-mRNA, rRNA and miRNA processing, clamping protein complexes on RNA, or remodeling ribonucleoprotein complexes, to regulate gene expression. RNA helicases also regulate the activity of specific proteins through direct interaction. Abnormal expression of RNA helicases has been associated with different diseases, including cancer, neurological disorders, aging, and autosomal dominant polycystic kidney disease (ADPKD) via regulation of a diverse range of cellular processes such as cell proliferation, cell cycle arrest, and apoptosis. Recent studies showed that RNA helicases participate in the regulation of the cell cycle progression at each cell cycle phase, including G1-S transition, S phase, G2-M transition, mitosis, and cytokinesis.