Defining Lyfe in the Universe: from Three Privileged Functions to Four
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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). -
Building Blocks That Fall from the Sky
Building blocks that fall from the sky How did life on Earth begin? Scientists from the “Heidelberg Initiative for the Origin of Life” have set about answering this truly existential question. Indeed, they are going one step further and examining the conditions under which life can emerge. The initiative was founded by Thomas Henning, Director at the Max Planck Institute for Astronomy in Heidelberg, and brings together researchers from chemistry, physics and the geological and biological sciences. 18 MaxPlanckResearch 3 | 18 FOCUS_The Origin of Life TEXT THOMAS BUEHRKE he great questions of our exis- However, recent developments are The initiative was triggered by the dis- tence are the ones that fasci- forcing researchers to break down this covery of an ever greater number of nate us the most: how did the specialization and combine different rocky planets orbiting around stars oth- universe evolve, and how did disciplines. “That’s what we’re trying er than the Sun. “We now know that Earth form and life begin? to do with the Heidelberg Initiative terrestrial planets of this kind are more DoesT life exist anywhere else, or are we for the Origins of Life, which was commonplace than the Jupiter-like gas alone in the vastness of space? By ap- founded three years ago,” says Thom- giants we identified initially,” says Hen- proaching these puzzles from various as Henning. HIFOL, as the initiative’s ning. Accordingly, our Milky Way alone angles, scientists can answer different as- name is abbreviated, not only incor- is home to billions of rocky planets, pects of this question. -
Prebiological Evolution and the Metabolic Origins of Life
Prebiological Evolution and the Andrew J. Pratt* Metabolic Origins of Life University of Canterbury Keywords Abiogenesis, origin of life, metabolism, hydrothermal, iron Abstract The chemoton model of cells posits three subsystems: metabolism, compartmentalization, and information. A specific model for the prebiological evolution of a reproducing system with rudimentary versions of these three interdependent subsystems is presented. This is based on the initial emergence and reproduction of autocatalytic networks in hydrothermal microcompartments containing iron sulfide. The driving force for life was catalysis of the dissipation of the intrinsic redox gradient of the planet. The codependence of life on iron and phosphate provides chemical constraints on the ordering of prebiological evolution. The initial protometabolism was based on positive feedback loops associated with in situ carbon fixation in which the initial protometabolites modified the catalytic capacity and mobility of metal-based catalysts, especially iron-sulfur centers. A number of selection mechanisms, including catalytic efficiency and specificity, hydrolytic stability, and selective solubilization, are proposed as key determinants for autocatalytic reproduction exploited in protometabolic evolution. This evolutionary process led from autocatalytic networks within preexisting compartments to discrete, reproducing, mobile vesicular protocells with the capacity to use soluble sugar phosphates and hence the opportunity to develop nucleic acids. Fidelity of information transfer in the reproduction of these increasingly complex autocatalytic networks is a key selection pressure in prebiological evolution that eventually leads to the selection of nucleic acids as a digital information subsystem and hence the emergence of fully functional chemotons capable of Darwinian evolution. 1 Introduction: Chemoton Subsystems and Evolutionary Pathways Living cells are autocatalytic entities that harness redox energy via the selective catalysis of biochemical transformations. -
Revised Glossary for AQA GCSE Biology Student Book
Biology Glossary amino acids small molecules from which proteins are A built abiotic factor physical or non-living conditions amylase a digestive enzyme (carbohydrase) that that affect the distribution of a population in an breaks down starch ecosystem, such as light, temperature, soil pH anaerobic respiration respiration without using absorption the process by which soluble products oxygen of digestion move into the blood from the small intestine antibacterial chemicals chemicals produced by plants as a defence mechanism; the amount abstinence method of contraception whereby the produced will increase if the plant is under attack couple refrains from intercourse, particularly when an egg might be in the oviduct antibiotic e.g. penicillin; medicines that work inside the body to kill bacterial pathogens accommodation ability of the eyes to change focus antibody protein normally present in the body acid rain rain water which is made more acidic by or produced in response to an antigen, which it pollutant gases neutralises, thus producing an immune response active site the place on an enzyme where the antimicrobial resistance (AMR) an increasing substrate molecule binds problem in the twenty-first century whereby active transport in active transport, cells use energy bacteria have evolved to develop resistance against to transport substances through cell membranes antibiotics due to their overuse against a concentration gradient antiretroviral drugs drugs used to treat HIV adaptation features that organisms have to help infections; they -
Solar System Simulator NASA SUMMER of INNOVATION
National Aeronautics and Space Administration Solar System Simulator NASA SUMMER OF INNOVATION UNIT Earth and Space Science – Year of the Solar System DESCRIPTION This online software generates views of GRADE LEVELS the bodies of our planetary system at any th th 7 – 9 date from any artificial or natural point of observation. CONNECTION TO CURRICULUM Science and technology OBJECTIVES TEACHER PREPARATION TIME Students will: 1 hour • Investigate how to determine the relative position of the sun, LESSON TIME NEEDED planets, and a number of 30 minutes Complexity: Basic planetary spacecraft using a simple web-based program • Explore how planets change their position in space over time NATIONAL STANDARDS National Science Education Standards (NSTA) Science and Technology Standards • Abilities of technological design • Understanding about science and technology Earth and Space Science • Earth in the solar system • Objects in the sky Common Core State Standards for Mathematics (NCTM) Number and Operations in Base Ten • Perform operations with multi-digit whole numbers and with decimals to hundredths Operations and Algebraic Thinking • Generate and analyze patterns ISTE NETS and Performance Indicators for Students (ISTE) Creativity and Innovation • Use models and simulations to explore complex systems and issues. Technology Operations and Concepts • Understand and use technology systems Aerospace Education Services Project MANAGEMENT MATERIALS Take time to practice with this software. While simple, it offers a • Computer with Internet variety of views with which to become familiar. access On the simulator homepage, a FIELD OF VIEW of 2 will show the inner solar system very nicely. It will be difficult to see the position of ALL the planets at one time. -
Foucault's Darwinian Genealogy
genealogy Article Foucault’s Darwinian Genealogy Marco Solinas Political Philosophy, University of Florence and Deutsches Institut Florenz, Via dei Pecori 1, 50123 Florence, Italy; [email protected] Academic Editor: Philip Kretsedemas Received: 10 March 2017; Accepted: 16 May 2017; Published: 23 May 2017 Abstract: This paper outlines Darwin’s theory of descent with modification in order to show that it is genealogical in a narrow sense, and that from this point of view, it can be understood as one of the basic models and sources—also indirectly via Nietzsche—of Foucault’s conception of genealogy. Therefore, this essay aims to overcome the impression of a strong opposition to Darwin that arises from Foucault’s critique of the “evolutionistic” research of “origin”—understood as Ursprung and not as Entstehung. By highlighting Darwin’s interpretation of the principles of extinction, divergence of character, and of the many complex contingencies and slight modifications in the becoming of species, this essay shows how his genealogical framework demonstrates an affinity, even if only partially, with Foucault’s genealogy. Keywords: Darwin; Foucault; genealogy; natural genealogies; teleology; evolution; extinction; origin; Entstehung; rudimentary organs “Our classifications will come to be, as far as they can be so made, genealogies; and will then truly give what may be called the plan of creation. The rules for classifying will no doubt become simpler when we have a definite object in view. We possess no pedigrees or armorial bearings; and we have to discover and trace the many diverging lines of descent in our natural genealogies, by characters of any kind which have long been inherited. -
Secretariat of the CBD Technical Series No. 82 Convention on Biological Diversity
Secretariat of the CBD Technical Series No. 82 Convention on Biological Diversity 82 SYNTHETIC BIOLOGY FOREWORD To be added by SCBD at a later stage. 1 BACKGROUND 2 In decision X/13, the Conference of the Parties invited Parties, other Governments and relevant 3 organizations to submit information on, inter alia, synthetic biology for consideration by the Subsidiary 4 Body on Scientific, Technical and Technological Advice (SBSTTA), in accordance with the procedures 5 outlined in decision IX/29, while applying the precautionary approach to the field release of synthetic 6 life, cell or genome into the environment. 7 Following the consideration of information on synthetic biology during the sixteenth meeting of the 8 SBSTTA, the Conference of the Parties, in decision XI/11, noting the need to consider the potential 9 positive and negative impacts of components, organisms and products resulting from synthetic biology 10 techniques on the conservation and sustainable use of biodiversity, requested the Executive Secretary 11 to invite the submission of additional relevant information on this matter in a compiled and synthesised 12 manner. The Secretariat was also requested to consider possible gaps and overlaps with the applicable 13 provisions of the Convention, its Protocols and other relevant agreements. A synthesis of this 14 information was thus prepared, peer-reviewed and subsequently considered by the eighteenth meeting 15 of the SBSTTA. The documents were then further revised on the basis of comments from the SBSTTA 16 and peer review process, and submitted for consideration by the twelfth meeting of the Conference of 17 the Parties to the Convention on Biological Diversity. -
Artificial Cell Research As a Field That Connects Chemical, Biological and Philosophical Questions
Zurich Open Repository and Archive University of Zurich Main Library Strickhofstrasse 39 CH-8057 Zurich www.zora.uzh.ch Year: 2016 Artificial cell research as a field that connects chemical, biological and philosophical questions Deplazes-Zemp, Anna Abstract: This review article discusses the interdisciplinary nature and implications of artificial cell research. It starts from two historical theories: Gánti’s chemoton model and the autopoiesis theory by Maturana and Varela. They both explain the transition from chemical molecules to biological cells. These models exemplify two different ways in which disciplines of chemistry, biology and philosophy canprofit from each other. In the chemoton model, conclusions from one disciplinary approach are relevant for the other disciplines. In contrast, the autopoiesis model itself (rather than its conclusions) is transferred from one discipline to the other. The article closes by underpinning the relevance of artificial cell research for philosophy with reference to the on-going philosophical debates on emergence, biological functions and biocentrism. DOI: https://doi.org/10.2533/chimia.2016.443 Posted at the Zurich Open Repository and Archive, University of Zurich ZORA URL: https://doi.org/10.5167/uzh-135057 Journal Article Published Version Originally published at: Deplazes-Zemp, Anna (2016). Artificial cell research as a field that connects chemical, biological and philosophical questions. CHIMIA International Journal for Chemistry, 70(6):443-448. DOI: https://doi.org/10.2533/chimia.2016.443 NCCR MoleCulaR SySteMS eNgiNeeRiNg CHIMIA 2016, 70, No. 6 443 doi:10.2533/chimia.2016.443 Chimia 70 (2016) 443–448 © Swiss Chemical Society Artificial Cell Research as a Field that Connects Chemical, Biological and Philosophical Questions Anna Deplazes-Zemp* Abstract: This review article discusses the interdisciplinary nature and implications of artificial cell research. -
1 "Principles of Phylogenetics: Ecology
"PRINCIPLES OF PHYLOGENETICS: ECOLOGY AND EVOLUTION" Integrative Biology 200 Spring 2016 University of California, Berkeley D.D. Ackerly March 7, 2016. Phylogenetics and Adaptation What is to be explained? • What is the evolutionary history of trait x that we see in a lineage (homology) or multiple lineages (homoplasy) - adaptations as states • Is natural selection the primary evolutionary process leading to the ‘fit’ of organisms to their environment? • Why are some traits more prevalent (occur in more species): number of origins vs. trait- dependent diversification rates (speciation – extinction) Some high points in the history of the adaptation debate: 1950s • Modern Synthesis of Genetics (Dobzhansky), Paleontology (Simpson) and Systematics (Mayr, Grant) 1960s • Rise of evolutionary ecology – synthesis of ecology with strong adaptationism via optimality theory, with little to no history; leads to Sociobiology in the 70s • Appearance of cladistics (Hennig) 1972 • Eldredge and Gould – punctuated equilibrium – argue that Modern Synthesis can’t explain pervasive observation of stasis in fossil record; Gould focuses on development and constraint as explanations, Eldredge more on ecology and importance of migration to minimize selective pressure 1979 • Gould and Lewontin – Spandrels – general critique of adaptationist program and call for rigorous hypothesis testing of alternatives for the ‘fit’ between organism and environment 1980’s • Debate on whether macroevolution can be explained by microevolutionary processes • Comparative methods -
Synthesis of Phylogeny and Taxonomy Into a Comprehensive Tree of Life
Synthesis of phylogeny and taxonomy into a comprehensive tree of life Cody E. Hinchliffa,1, Stephen A. Smitha,1,2, James F. Allmanb, J. Gordon Burleighc, Ruchi Chaudharyc, Lyndon M. Coghilld, Keith A. Crandalle, Jiabin Dengc, Bryan T. Drewf, Romina Gazisg, Karl Gudeh, David S. Hibbettg, Laura A. Katzi, H. Dail Laughinghouse IVi, Emily Jane McTavishj, Peter E. Midfordd, Christopher L. Owenc, Richard H. Reed, Jonathan A. Reesk, Douglas E. Soltisc,l, Tiffani Williamsm, and Karen A. Cranstonk,2 aEcology and Evolutionary Biology, University of Michigan, Ann Arbor, MI 48109; bInterrobang Corporation, Wake Forest, NC 27587; cDepartment of Biology, University of Florida, Gainesville, FL 32611; dField Museum of Natural History, Chicago, IL 60605; eComputational Biology Institute, George Washington University, Ashburn, VA 20147; fDepartment of Biology, University of Nebraska-Kearney, Kearney, NE 68849; gDepartment of Biology, Clark University, Worcester, MA 01610; hSchool of Journalism, Michigan State University, East Lansing, MI 48824; iBiological Science, Clark Science Center, Smith College, Northampton, MA 01063; jDepartment of Ecology and Evolutionary Biology, University of Kansas, Lawrence, KS 66045; kNational Evolutionary Synthesis Center, Duke University, Durham, NC 27705; lFlorida Museum of Natural History, University of Florida, Gainesville, FL 32611; and mComputer Science and Engineering, Texas A&M University, College Station, TX 77843 Edited by David M. Hillis, The University of Texas at Austin, Austin, TX, and approved July 28, 2015 (received for review December 3, 2014) Reconstructing the phylogenetic relationships that unite all line- published phylogenies are available only as journal figures, rather ages (the tree of life) is a grand challenge. The paucity of homologous than in electronic formats that can be integrated into databases and character data across disparately related lineages currently renders synthesis methods (7–9). -
Prebiotic Chemistry, Origin, and Early Evolution of Life
Say what you are going to say, say it, say what you said Guiding theory Richard Feynman Polyelectrolytes with uniform structure are universal for Darwinism A specific hypothesis to provide context The polyelectrolyte that supported Earth’s first Darwinism was RNA Focus on paradoxes to constrain human self-deception "Settled science" says that RNA is impossible to form prebiotically Strategies for paradox resolution Mineral-guided processes allow RNA to form nonetheless Natural history context The needed chemistry-mineral combination was transient on Earth Your reward A relatively simple path to form RNA prebiotically A relatively narrow date when life on Earth originated prebiotically A clear statement of the next round of paradoxes Elisa Biondi, Hyo-Joong Kim, Daniel Hutter, Clemens Richert, Stephen Mojzsis, Ramon Brasser, Dustin Trail, Kevin Zahnle, David Catling, Rob Lavinsky Say what you are going to say, say it, say what you said Guiding theory Richard Feynman Polyelectrolytes with uniform structure are universal for Darwinism A specific hypothesis to provide context The polyelectrolyte that supported Earth’s first Darwinism was RNA Focus on paradoxes to constrain human self-deception "Settled science" says that RNA is impossible to form prebiotically Strategies for paradox resolution Mineral-guided processes allow RNA to form nonetheless Natural history context The needed chemistry-mineral combination was transient on Earth Your reward A relatively simple path to form RNA prebiotically A relatively narrow date when life on Earth originated prebiotically A clear statement of the next round of paradoxes Elisa Biondi, Hyo-Joong Kim, Daniel Hutter, Clemens Richert, Stephen Mojzsis, Ramon Brasser, Dustin Trail, Kevin Zahnle, David Catling, Rob Lavinsky What does a repeating backbone charge do for informational molecule? O 1. -
MMM #278 Since December 1986 SEPTEMBER 2014 – P 1
MMM #278 Since December 1986 SEPTEMBER 2014 – p 1 Two worlds of the Inner Solar System that present enormous challenges for human visitors, explorers, and settlers Feature Articles: 2 In Focus: Venus & Mercury: Why Limit Human Frontiers to Moon and Mars? 3 Venus: The Sources of Radical Transformation are already “on Location” 5 Mercury: Discovery of a hidden Settlement Sweet Spot; “Location, Location, Location” 7 Moon Base Costs: Dave Dietzler Below: Previous Articles about Venus have focused on “Aerostat stations” high above the surface, where air pressure and temperatures are human-friendly Above left: a Venus aerostat station - right: at an altitude where temperatures and pressures are benign For past articles, Visit http://www.moonsociety.org/publications/mmm_classics/ or /mmm_themes/ MMM #278 Since December 1986 SEPTEMBER 2014 – p 2 About Moon Miners’ Manifesto - “The Moon - it’s not Earth, but it’s Earth’s!” • MMM’s VISION: “expanding the human economy through of-planet resources”; early heavy reliance on Lunar materials; early use of Mars system and asteroid resources; and permanent settlements supporting this economy. • MMM’s MISSION: to encourage “spin-up” entrepreneurial development of the novel technologies needed and promote the economic-environmental rationale of space and lunar settlement. • Moon Miners’ Manifesto CLASSICS: The non-time-sensitive articles and editorials of MMM’s first twenty years plus have been re-edited, reillustrated, and republished in 23 PDF format volumes, for free downloading from this location: http://www.MoonSociety.org/publications/mmm_classics/ • MMM THEME Issues: 14 collections of articles according to themes: ..../publications/mmm_themes/ • MMM Glossary: new terms, old terms/new meanings: www.moonsociety.org/publications/m3glossary.html • MMM retains its editorial independence and serves many groups, each with its own philosophy, agenda, and programs.