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Biochemistry and the Genomic Revolution 1.1
Dedication About the authors Preface Tools and Techniques Clinical Applications Molecular Evolution Supplements Supporting Biochemistry, Fifth Edition Acknowledgments I. The Molecular Design of Life 1. Prelude: Biochemistry and the Genomic Revolution 1.1. DNA Illustrates the Relation between Form and Function 1.2. Biochemical Unity Underlies Biological Diversity 1.3. Chemical Bonds in Biochemistry 1.4. Biochemistry and Human Biology Appendix: Depicting Molecular Structures 2. Biochemical Evolution 2.1. Key Organic Molecules Are Used by Living Systems 2.2. Evolution Requires Reproduction, Variation, and Selective Pressure 2.3. Energy Transformations Are Necessary to Sustain Living Systems 2.4. Cells Can Respond to Changes in Their Environments Summary Problems Selected Readings 3. Protein Structure and Function 3.1. Proteins Are Built from a Repertoire of 20 Amino Acids 3.2. Primary Structure: Amino Acids Are Linked by Peptide Bonds to Form Polypeptide Chains 3.3. Secondary Structure: Polypeptide Chains Can Fold Into Regular Structures Such as the Alpha Helix, the Beta Sheet, and Turns and Loops 3.4. Tertiary Structure: Water-Soluble Proteins Fold Into Compact Structures with Nonpolar Cores 3.5. Quaternary Structure: Polypeptide Chains Can Assemble Into Multisubunit Structures 3.6. The Amino Acid Sequence of a Protein Determines Its Three-Dimensional Structure Summary Appendix: Acid-Base Concepts Problems Selected Readings 4. Exploring Proteins 4.1. The Purification of Proteins Is an Essential First Step in Understanding Their Function 4.2. Amino Acid Sequences Can Be Determined by Automated Edman Degradation 4.3. Immunology Provides Important Techniques with Which to Investigate Proteins 4.4. Peptides Can Be Synthesized by Automated Solid-Phase Methods 4.5. -
Sequencing As a Way of Work
Edinburgh Research Explorer A new insight into Sanger’s development of sequencing Citation for published version: Garcia-Sancho, M 2010, 'A new insight into Sanger’s development of sequencing: From proteins to DNA, 1943-77', Journal of the History of Biology, vol. 43, no. 2, pp. 265-323. https://doi.org/10.1007/s10739-009- 9184-1 Digital Object Identifier (DOI): 10.1007/s10739-009-9184-1 Link: Link to publication record in Edinburgh Research Explorer Document Version: Peer reviewed version Published In: Journal of the History of Biology Publisher Rights Statement: © Garcia-Sancho, M. (2010). A new insight into Sanger’s development of sequencing: From proteins to DNA, 1943-77. Journal of the History of Biology, 43(2), 265-323. 10.1007/s10739-009-9184-1 General rights Copyright for the publications made accessible via the Edinburgh Research Explorer is retained by the author(s) and / or other copyright owners and it is a condition of accessing these publications that users recognise and abide by the legal requirements associated with these rights. Take down policy The University of Edinburgh has made every reasonable effort to ensure that Edinburgh Research Explorer content complies with UK legislation. If you believe that the public display of this file breaches copyright please contact [email protected] providing details, and we will remove access to the work immediately and investigate your claim. Download date: 28. Sep. 2021 THIS IS AN ADVANCED DRAFT OF A PUBLISHED PAPER. REFERENCES AND QUOTATIONS SHOULD ALWAYS BE MADE TO THE PUBLISHED VERION, WHICH CAN BE FOUND AT: García-Sancho M. -
See the Scientific Petition
May 20, 2016 Implement the Endangered Species Act Using the Best Available Science To: Secretary Sally Jewell and Secretary Penny Prtizker We, the under-signed scientists, recommend the U.S. government place species conservation policy on firmer scientific footing by following the procedure described below for using the best available science. A recent survey finds that substantial numbers of scientists at the U.S. Fish and Wildlife Service (FWS) and the National Oceanic and Atmospheric Administration believe that political influence at their agency is too high.i Further, recent species listing and delisting decisions appear misaligned with scientific understanding.ii,iii,iv,v,vi For example, in its nationwide delisting decision for gray wolves in 2013, the FWS internal review failed the best science test when reviewed by an independent peer-review panel.vii Just last year, a FWS decision not to list the wolverine ran counter to the opinions of agency and external scientists.viii We ask that the Departments of the Interior and Commerce make determinations under the Endangered Species Actix only after they make public the independent recommendations from the scientific community, based on the best available science. The best available science comes from independent scientists with relevant expertise who are able to evaluate and synthesize the available science, and adhere to standards of peer-review and full conflict-of-interest disclosure. We ask that agency scientific recommendations be developed with external review by independent scientific experts. There are several mechanisms by which this can happen; however, of greatest importance is that an independent, external, and transparent science-based process is applied consistently to both listing and delisting decisions. -
DNA: the Timeline and Evidence of Discovery
1/19/2017 DNA: The Timeline and Evidence of Discovery Interactive Click and Learn (Ann Brokaw Rocky River High School) Introduction For almost a century, many scientists paved the way to the ultimate discovery of DNA and its double helix structure. Without the work of these pioneering scientists, Watson and Crick may never have made their ground-breaking double helix model, published in 1953. The knowledge of how genetic material is stored and copied in this molecule gave rise to a new way of looking at and manipulating biological processes, called molecular biology. The breakthrough changed the face of biology and our lives forever. Watch The Double Helix short film (approximately 15 minutes) – hyperlinked here. 1 1/19/2017 1865 The Garden Pea 1865 The Garden Pea In 1865, Gregor Mendel established the foundation of genetics by unraveling the basic principles of heredity, though his work would not be recognized as “revolutionary” until after his death. By studying the common garden pea plant, Mendel demonstrated the inheritance of “discrete units” and introduced the idea that the inheritance of these units from generation to generation follows particular patterns. These patterns are now referred to as the “Laws of Mendelian Inheritance.” 2 1/19/2017 1869 The Isolation of “Nuclein” 1869 Isolated Nuclein Friedrich Miescher, a Swiss researcher, noticed an unknown precipitate in his work with white blood cells. Upon isolating the material, he noted that it resisted protein-digesting enzymes. Why is it important that the material was not digested by the enzymes? Further work led him to the discovery that the substance contained carbon, hydrogen, nitrogen and large amounts of phosphorus with no sulfur. -
Physics Today - February 2003
Physics Today - February 2003 Rosalind Franklin and the Double Helix Although she made essential contributions toward elucidating the structure of DNA, Rosalind Franklin is known to many only as seen through the distorting lens of James Watson's book, The Double Helix. by Lynne Osman Elkin - California State University, Hayward In 1962, James Watson, then at Harvard University, and Cambridge University's Francis Crick stood next to Maurice Wilkins from King's College, London, to receive the Nobel Prize in Physiology or Medicine for their "discoveries concerning the molecular structure of nucleic acids and its significance for information transfer in living material." Watson and Crick could not have proposed their celebrated structure for DNA as early in 1953 as they did without access to experimental results obtained by King's College scientist Rosalind Franklin. Franklin had died of cancer in 1958 at age 37, and so was ineligible to share the honor. Her conspicuous absence from the awards ceremony--the dramatic culmination of the struggle to determine the structure of DNA--probably contributed to the neglect, for several decades, of Franklin's role in the DNA story. She most likely never knew how significantly her data influenced Watson and Crick's proposal. Franklin was born 25 July 1920 to Muriel Waley Franklin and merchant banker Ellis Franklin, both members of educated and socially conscious Jewish families. They were a close immediate family, prone to lively discussion and vigorous debates at which the politically liberal, logical, and determined Rosalind excelled: She would even argue with her assertive, conservative father. Early in life, Rosalind manifested the creativity and drive characteristic of the Franklin women, and some of the Waley women, who were expected to focus their education, talents, and skills on political, educational, and charitable forms of community service. -
Los Premios Nobel De Química
Los premios Nobel de Química MATERIAL RECOPILADO POR: DULCE MARÍA DE ANDRÉS CABRERIZO Los premios Nobel de Química El campo de la Química que más premios ha recibido es el de la Quí- mica Orgánica. Frederick Sanger es el único laurea- do que ganó el premio en dos oca- siones, en 1958 y 1980. Otros dos también ganaron premios Nobel en otros campos: Marie Curie (física en El Premio Nobel de Química es entregado anual- 1903, química en 1911) y Linus Carl mente por la Academia Sueca a científicos que so- bresalen por sus contribuciones en el campo de la Pauling (química en 1954, paz en Física. 1962). Seis mujeres han ganado el Es uno de los cinco premios Nobel establecidos en premio: Marie Curie, Irène Joliot- el testamento de Alfred Nobel, en 1895, y que son dados a todos aquellos individuos que realizan Curie (1935), Dorothy Crowfoot Ho- contribuciones notables en la Química, la Física, la dgkin (1964), Ada Yonath (2009) y Literatura, la Paz y la Fisiología o Medicina. Emmanuelle Charpentier y Jennifer Según el testamento de Nobel, este reconocimien- to es administrado directamente por la Fundación Doudna (2020) Nobel y concedido por un comité conformado por Ha habido ocho años en los que no cinco miembros que son elegidos por la Real Aca- demia Sueca de las Ciencias. se entregó el premio Nobel de Quí- El primer Premio Nobel de Química fue otorgado mica, en algunas ocasiones por de- en 1901 al holandés Jacobus Henricus van't Hoff. clararse desierto y en otras por la Cada destinatario recibe una medalla, un diploma y situación de guerra mundial y el exi- un premio económico que ha variado a lo largo de los años. -
PDF File, 2.06 MB
Introduction Have you ever seen those little About the International Year of Crystallography pictures of a molecule of your The United Nations declares 2014 as the official International Year of prescribed medication? …or a drawing Crystallography. It commemorates not only the centennial of X-ray of DNA showing two strands winding Amoxicillin diffraction, which allowed the detailed study of crystalline material, but also the 400th anniversary of Kepler’s observation in 1611 of the What do around each other? symmetrical form of ice crystals, which began the wider study of the role Molecules are too small to be seen by of symmetry in matter. New Drug Design, normal microscopy. Learn more at http://iycr2014.org X-ray crystallography is one of the DNA Studies few techniques that can visualize them About IUCr The International Union of Crystallography is a not-for- and was used to determine the first Schematic picture profit, scientific organization that aims to: and molecular structures ever known. of DNA • promote international cooperation in crystallography • contribute to all aspects of crystallography X-rays X-rays & X-ray Crystallography • promote international publication of crystallographic research have in common? How They Work • facilitate standardization of methods, units, nomenclatures and symbols • form a focus for the relations of crystallography to other sciences • X-ray beams are shot through • We calculate how the diffracted a crystal composed of the X-rays would look, if they The IUCr fulfils these objectives by publishing -
Meet the Scientist Linus Pauling (1901-1994)
Meet the Scientist Linus Pauling (1901-1994) Do you know that different cells have certain unique proteins that have unique jobs? Muscles have proteins that contract, enabling the muscle cell to contract. Pancreas cells make the protein insulin, which regulates blood sugar levels. There are unique cells in the part of the brain called the hypothalamus that make small unique proteins that trigger the release of pituitary hormones. There are proteins in nerve cells that work to create new axon terminals and synapses that store your memories? How many other examples can you think of cells with specific proteins? A British journal included only Linus Pauling and Einstein from the 20th Century in their list of the greatest scientists in the history of the world. As you will see, Linus made major discoveries about chemical bonding and the structure of proteins―pretty heady stuff for a high-school dropout. He didn’t drop out because school was too hard. For him, it was too easy. Some scientists are born with a silver spoon in their mouth. But not Linus Pauling. From age 4 to 9, Linus lived in a small Oregon town, which was like an outpost in the Old West. The town had one street, lined by stores with false fronts on many of the buildings, as you see on cowboy movie sets today. Real cowboys lounged in front of the general store, and real Indians camped on the edge of town. His father, Herman, was a self-taught pharmacist and "medicine man." He ran a drug store in town. -
Contributions of Civilizations to International Prizes
CONTRIBUTIONS OF CIVILIZATIONS TO INTERNATIONAL PRIZES Split of Nobel prizes and Fields medals by civilization : PHYSICS .......................................................................................................................................................................... 1 CHEMISTRY .................................................................................................................................................................... 2 PHYSIOLOGY / MEDECINE .............................................................................................................................................. 3 LITERATURE ................................................................................................................................................................... 4 ECONOMY ...................................................................................................................................................................... 5 MATHEMATICS (Fields) .................................................................................................................................................. 5 PHYSICS Occidental / Judeo-christian (198) Alekseï Abrikossov / Zhores Alferov / Hannes Alfvén / Eric Allin Cornell / Luis Walter Alvarez / Carl David Anderson / Philip Warren Anderson / EdWard Victor Appleton / ArthUr Ashkin / John Bardeen / Barry C. Barish / Nikolay Basov / Henri BecqUerel / Johannes Georg Bednorz / Hans Bethe / Gerd Binnig / Patrick Blackett / Felix Bloch / Nicolaas Bloembergen -
From the President New Program to Boost Membership
July August 2011 · Volume 20, Number 4 New Program to From the President Boost Membership igma Xi’s new Member-Get-A-Member Dear Colleagues and Companions in Zealous Research program gives all active Sigma Xi It is indeed an honor for me to have been elected president of our Smembers a chance to earn a free year international honor society for scientists and engineers. Sigma Xi of membership by was created 125 years ago with high ideals, a worthy mission and recommending five an inspiring vision that remain critical to science and engineering in the 21st Century. new members during As incoming president, I will seek to further the mission of Sigma Xi. a one-year period. Public confidence in the fundamental truths derived from application of science is Active Sigma Xi members should perhaps more critical now than at any time in the history of our honor society. From recommend their qualified friends, students, openness in research to accuracy in conducting and reporting research to integrity in colleagues and fellow scientists and engineers the peer review process and authorship, we have an obligation to our members and the to the honor of Sigma Xi membership. Any public to focus on these issues. active Sigma Xi member who recommends I applaud my friend and colleague, our immediate past-president, Joe Whitaker. Dr. five new members who are then approved Whitaker deserves our gratitude for providing outstanding leadership and initiating for membership between now and June 30, a new hope for the evolution of our esteemed honor society. My intention will be to 2012 will receive one free year of Sigma Xi build upon the spark Joe ignited during his tenure, and implement an enabling strategy membership. -
Manmohan Tells Scientists to Think Big and out of the Box India Will Soon Have Navaratna Universities, Says Sibal a Spectrum Reporter
Special Edition January 3-7, 2011 The campus newspaper of SRM University Private Circulation only January 4, 2011 Volume IV Number II Manmohan tells scientists to think big and out of the box India will soon have Navaratna universities, says Sibal A Spectrum Reporter Maintaining the ideas of science and scientific research must always be linked to the betterment of the people of India, the Prime Minister of India, Dr. Manmohan Singh, called on the community to think ahead of the times. “The time has come for Indian Science Congress Indian science to once at SRM University. again think big; think The Prime Minister out of the box; and think argued that scientists ahead of the times. The should develop a code of time has come for India conduct on the application to produce the Ramans of their discovery. and Ramanujans of the 21st Century,” Dr. Singh “The question is whether said while delivering the scientists should step The Prime Minister releasing the Plenary Proceedings of the 98th ISC Inaugural Address of the 98th beyond their discipline and at least guide the modern nor liberal. It “This year, as we usher can never hope to extend social discourse on the use is true that products of in the New Year, we also the height of the pyramid of scientific knowledge. science have been put to usher in the ‘Decade of of excellence,” the Prime 2012-13 to be ‘Year Should they develop a code illiberal uses. I sincerely Innovation’. There is no Minister added. of conduct that defines believe we must guard better way to do that than Dr. -
Francis Crick and the Structure of Helical Biomolecules
1 A-DNA and B-DNA: Comparing their Historical X-Ray Fibre Diffraction Images. Amand A. Lucas Facultés Universitaires Notre-Dame de la Paix, 61 rue de Bruxelles, B5000 Namur, Belgium e-mail : [email protected] Abstract. A-DNA and B-DNA are two quite distinct molecular conformations which double stranded DNA drawn into a fibre can assume, depending on the water content of the fibre. The corresponding historic X-ray fibre diffraction diagrams, measured respectively by Wilkins and Gosling and by Franklin and Gosling in the early 1950’s, played an equally crucial role in the discovery of the double helical structure of the molecule by Watson and Crick in 1953. The purpose of the present paper is to provide a didactic and comparative explanation of the structural content of the two diagrams treated on the same footing. This will be accomplished by two methods. The first, intended for science students and professionals, relies on a basic introduction to helical diffraction theory. The second, accessible to a much wider readership, will make use of the optical transform method by which both A and B X-ray images can be simulated optically. The simulations are conducted with a simple laser pointer and a dozen optical diffraction gratings, all held on a single diffraction slide. The gratings have been specially designed to pinpoint just which of the structural element of the molecule is responsible for each of the revealing features of the fibre diffraction images. Keywords audience :general public, continuing education Domain : chemical education research, history, public understanding Pedagogy : hands-on learning, manipulative Topic : biophysical chemistry, conformational analysis, X-ray crystallography 1 2 A-DNA and B-DNA: Comparing their Historical X-Ray Fibre Diffraction Images.