The Molecular Configuration of Nucleic Acids
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ANNUAL .2003REPCOLD SPRING HARBOR LABORATORY .1; ANNUAL REPORT 2003 © 2004 by Cold Spring Harbor Laboratory Cold Spring Harbor Laboratory One Bungtown Road Cold Spring Harbor, New York 11724 Web Site: www.cshl.edu Managing Editors Jeff Picarello, Lisa Becker Production Editor Rena Steuer Copy Editor Dorothy Brown Development Manager Jan Argentine Project Coordinators Maria Falasca, Nora Rice Production Manager Denise Weiss Desktop Editor Susan Schaefer Nonscientific Photography Miriam Chua, Bill Geddes Cover Designer Denise Weiss Book Designer Emily Harste Front cover: McClintock Laboratory (right) and Carnegie Library (left) (photos by Miriam Chua) Back cover: Magnolia Kobus on grounds of Cold Spring Harbor Laboratory (photo by Bruce Stillman) Section title pages: Miriam Chua Contents Officers of the Corporation/Board of Trusteesiv-v Governancevi Committees vii Edwin Marks (1926-2003) viii PRESIDENT'S REPORT Highlights5 CHIEF OPERATING OFFICER'S REPORT 25 50TH ANNIVERSARY OF THE DOUBLE HELIX 29 RESEARCH 47 Cancer: Gene Expression 49 Cancer: Genetics 74 Cancer: Cell Biology 106 Bioinformatics and Genomics 134 Neuroscience152 Plant Development and Genetics 199 CSHL Fellows 212 Author Index 217 WATSON SCHOOL OF BIOLOGICAL SCIENCES 219 Dean's Report 221 Courses 238 Undergraduate Research Program245 Partners for the Future 248 Nature Study 249 COLD SPRING HARBOR LABORATORY MEETINGS AND COURSES 251 Academic Affairs253 Symposium on Quantitative Biology 255 Meetings 258 Postgraduate Courses295 Seminars 353 BANBURY CENTER 355 Director's Report357 Meetings 365 DOLAN DNA LEARNING CENTER 403 Director's Report 405 Workshops, Meetings, and Collaborations 418 COLD SPRING HARBOR LABORATORY PRESS 425 Publications 426 Executive Director's Report 427 FINANCE 431 History of the CSHL Endowment 433 Financial Statements 444 Financial Support448 Grants448 Institutional Advancement 457 Capital and Program Contributions 458 Watson School of Biological Sciences Capital Campaign 459 Annual Contributions 460 LABORATORY STAFF 474 III Officers of the Corporation William R. -
“The Double Helix Is Indeed a Remarkable Molecule. Modern Man
“The double helix is indeed a remarkable molecule. Modern man is perhaps 50,000 years old, civilization has existed for scarcely 10,000 years and the United States for only just over 200 years; but DNA and RNA have been around for at least several billion years. All that time the double helix has been there, and active, and yet we are the first creatures on Earth to become aware of its existence.” Francis Crick (1916–2004) History of DNA and modern approaches to sequencing Konrad Paszkiewicz January 2017 Contents • A short history of DNA • Review of first generation sequencing techniques • Short-read second generation sequencing technology – Illumina • Third generation single molecule sequencing – PacBio – Oxford Nanopore “DNA is a stupid molecule” Max Delbruck “Never under-estimate the power of … stupidity” Robert Heinlein “It was believed that DNA was a stupid substance, a tetranucleotide which couldn't do anything specific” Max Delbruck The first person to isolate DNA • Friedrich Miescher – Born with poor hearing – Father was a doctor and refused to allow Friedrich to become a priest • Graduated as a doctor in 1868 – Persuaded by his uncle not to become a practising doctor and instead pursue natural science – But he was reluctant… Friedrich Miescher Biology PhD angst in the 1800s “I already had cause to regret that I had so little experience with mathematics and physics… For this reason many facts still remained obscure to me.” His uncle counselled: “I believe you overestimate the importance of special training…” Friedrich Miescher -
21.8 Commentary GA
commentary Who said ‘helix’? Right and wrong in the story of how the structure of DNA was discovered. in Paris, the double-helical structure of DNA Watson Fuller might not have been discovered in London The celebrated model of DNA, put forward rather than in Cambridge. In fairness to in this journal in 1953 by James Watson and Randall, it was his energy, enterprise and Francis Crick, is compellingly simple, both vision in establishing the King’s laboratory in its form and its functional implications that allowed the experimental work that stim- (see www.nature.com/nature/dna50). At a ulated the discovery to take place. stroke it resolved the puzzle inherent in the The proposed double-helical model for X-ray diffraction photograph (see right) DNA is commonly described as the most sig- shown by Maurice Wilkins at a scientific nificant discovery of the second half of the meeting in Naples in the spring of 1951. twentieth century. Inevitably, the contribu- R.COURTESY G. GOSLING & M. H. F. WILKINS This was the pattern that so excited Jim tions of the principal protagonists have been Watson, who, in The Double Helix1, wrote: subjected to minute scrutiny.Crick,Franklin, “Maurice’s X-ray diffraction pattern of DNA Watson and Wilkins have all endured hostile was to the point. It was flicked on the screen criticism and snide disparagement of their near the end of his talk. Maurice’s dry Eng- roles in the story. Franklin has loyal, influen- lish form did not permit enthusiasm as he tial and persistent champions,and in particu- stated that the picture showed much more lar has had her reputation boosted, mainly at detail than previous pictures and could, in Wilkins’expense. -
Commentthe College Newsletter Issue No 147 | May 2003
COMMENTTHE COLLEGE NEWSLETTER ISSUE NO 147 | MAY 2003 TOM WHIPPS DNA pioneers: The surviving members of the King’s team, who worked on the discovery of the structure of DNA 50 years ago, with James Watson, their Cambridge ‘rival’ at the time. From left Ray Gosling, Herbert Wilson, DNA at King’s: James Watson and Maurice Wilkins the continuing story Prize for his contribution – and their teams, but also to subse- A day of celebrations quent generations of scientists at King’s. ver 600 guests attended a cant scientific discovery of the Four Nobel Laureates – Mau- unique day of events celeb-rat- 20th century,’ in the words of rice Wilkins, James Watson, Sid- ing King’s role in the 50th Principal Professor Arthur Lucas, O ney Altman and Tim Hunt – anniversary of the discovery of the ‘and their research changed attended the event which was so double helix structure of DNA on the world’. oversubscribed that the proceed- 22 April. The day paid tribute not only to ings were relayed by video link to Scientists at King’s played a King’s DNA pioneers Rosalind the Chapel and lecture theatre 2C. fundamental role in this momen- Franklin and Maurice Wilkins – tous discovery – ‘the most signifi- who went onto win the Nobel continued on page 2 2 Funding news | 3 Peace Operations Review | 5 Widening participation | 8 25 years of Anglo-French law | 11 Margaret Atwood at King’s | 12 Susan Gibson wins Rosalind Franklin Award | 15 Focus: School of Law | 16 Research news | 18 Books | 19 KCLSU election results | 20 Arts News continued from page 1 myself alone, working below the level of the Thames and piping hydrogen into the camera. -
A Descoberta Da Dupla Hélice Do DNA: Contributo Para Possíveis Narrativas
Hugo Manuel Gonçalves Soares A descoberta da Dupla Hélice do DNA: Contributo para possíveis narrativas Dissertação para obtenção do grau de Mestre em Ensino de Biologia e da Geologia Orientador: António Manuel Dias de Sá Nunes dos Santos, Professor Catedrático da FaCuldade de Ciências e Tecnologia da Universidade Nova de Lisboa Júri: Presidente: Prof. Doutora Maria Paula Pires dos Santos Diogo Arguente: Prof. Doutora Isabel Maria da Silva Pereira Amaral Vogais: Prof. Doutor António Manuel Dias de Sá Nunes dos Santos Prof. Doutor Vitor Manuel Neves Duarte Teodoro Prof. Doutor João José de Carvalho Correia de Freitas Novembro, 2015 ii A Descoberta da Dupla Hélice do DNA: Contributo para Possíveis Narrativas © Hugo Soares, FCT/UNL, 2015 A Faculdade de Ciências e Tecnologia e a Universidade Nova de Lisboa têm o direito, perpétuo e sem limites geográficos, de arquivar e publicar esta dissertação através de exemplares impressos reproduzidos em papel ou de forma digital, ou por qualquer outro meio conhecido ou que venha a ser inventado, e de a divulgar através de repositórios científicos e de admitir a sua cópia e distribuição com objetivos educacionais ou de investigação, não comerciais, desde que seja dado crédito ao autor e ao editor. iii iv Dedicatória e Agradecimentos Esta dissertação é muito mais do que a conclusão de um mestrado, na realidade é o fim de um processo que se iniciou em 1999, com o meu ingresso na extinta Licenciatura em Ensino das Ciências da Natureza, e que, por razões pessoais e institucionais, só agora foi possível concluir. Além do fim desse processo, simboliza também um novo tipo de compromisso com a minha vida, que só agora será possível. -
Discovering the Secrets of Life: a Summary Report on the Archive For
Discovering the Secrets of Life A Summary Report on the Archive for the History of Molecular Biology By Jeremy M. Norman ©April 15, 2002 The story opens in 1936 when I left my hometown, Vienna, for Cambridge, England, to seek the Great Sage. He was an Irish Catholic converted to Communism, a mineralogist who had turned to X-ray crystallography: J. D. Bernal. I asked the Great Sage: “How can I solve the secret of life?” He replied: “The secret of life lies in the structure of proteins, and there is only one way of solving it and that is by X-ray crystallography.” Max Perutz, 1997, xvii. 2 Contents 1. Introduction 1.1 The Scope and Condition of this Archive 1.2. A Unique Achievement in the History of Private Collecting of Science 1.3 My Experience with Manuscripts in the History of Science 1.4 Limited Availability of Major Scientific Manuscripts: Newton, Einstein, and Darwin 1.5 Discovering How Natural Selection Operates at the Molecular Level 1.6 Collecting the Last Great Scientific Revolution before Email 1.7. Exploring New Fields of Science Collecting 1.8 My Current Working Outline for a Summary Book on the Archive 2.Foundations for a Revolution in Biology The Quest for the Secret of Life 3. Discovering ”The First Secret of Life” The Structure of DNA and its Means of Replication 4. Discovering the Structure of RNA and the Tobacco Mosaic Virus 5. Deciphering the Genetic Code, ”the Dictionary Relating the Nucleic Acid Language to the Protein Language” 6. The Rosalind Franklin Archive 7. -
In-Depth Film Guide
Short Film The Double Helix Educator Materials IN-DEPTH FILM GUIDE DESCRIPTION The film The Double Helix describes the trail of evidence James Watson and Francis Crick followed to discover the double-helical structure of DNA. Their model’s beautiful and simple structure immediately revealed how genetic information is stored and passed from one generation to the next. KEY CONCEPTS A. DNA is a polymer of nucleotide monomers, each consisting of a phosphate, a deoxyribose sugar, and one of four nitrogenous bases: adenine (A), thymine (T), guanine (G), or cytosine (C). B. The relative amounts of A, T, G, and C bases vary from one species to another; however, in the DNA of any cell from organisms within a single species, the amount of A is equal to the amount of T and the amount of G is equal to the amount of C. This finding can be explained by the fact that in the DNA double helix, A pairs with T and G with C. C. Even before the structure of DNA was solved, studies indicated that the genetic material must be able to store information; be faithfully replicated and be passed on from generation to generation; and allow for changes, and thus evolution, to occur. The structure of the double helix immediately showed that DNA had these properties. D. Scientists use different techniques to measure things that are too large or too small to see. The structure of DNA was determined by combining mathematical interpretations of x-ray crystallography data and chemical data. E. Scientists build models based on what they know from previous research to derive testable hypotheses. -
History and New Developments In
“The double helix is indeed a remarkable molecule. Modern man is perhaps 50,000 years old, civilization has existed for scarcely 10,000 years and the United States for only just over 200 years; but DNA and RNA have been around for at least several billion years. All that time the double helix has been there, and active, and yet we are the first creatures on Earth to become aware of its existence.” Francis Crick (1916–2004) History of DNA and modern approaches to sequencing Konrad Paszkiewicz January 2016 Contents • A short history of DNA • Review of first generation sequencing techniques • Short-read second generation sequencing technology – Illumina – Life Tech Ion Torrent • Third generation single molecule sequencing – PacBio – Oxford Nanopore A short history of DNA “The double helix is indeed a remarkable molecule. Modern man is perhaps 50,000 years old, civilization has existed for scarcely 10,000 years and the United States for only just over 200 years; but DNA and RNA have been around for at least several billion years. All that time the double helix has been there, and active, and yet we are the first creatures on Earth to become aware of its existence.” Francis Crick (1916–2004) The first person to isolate DNA • Friedrich Miescher – Born with poor hearing – Father was a doctor and refused to allow Freidrich to become a priest • Graduated as a doctor in 1868 – Persuaded by his uncle not to become a practising doctor and instead pursue natural science – But he was reluctant… Friedrich Miescher Biology PhD angst in the 1800s “I already -
The Double Helix Film Activity Educator Materials
The Double Helix Film Activity Educator Materials OVERVIEW This activity explores the concepts and research presented in the short film The Double Helix, which tells the story of the discovery of the molecular structure of DNA. Scientists collected and interpreted key evidence to determine that DNA molecules take the shape of a twisted ladder, a double helix. The film presents the challenges, false starts, and eventual success of their chase, culminating in the classic 1953 publication in Nature on the structure of DNA. Additional information related to pedagogy and implementation can be found on this resource’s webpage, including suggested audience, estimated time, and curriculum connections. KEY CONCEPTS • DNA is a polymer of nucleotide monomers, each consisting of a phosphate, a deoxyribose sugar, and one of four nitrogenous bases: adenine (A), thymine (T), guanine (G), or cytosine (C). A pairs with T and G with C. • DNA’s structure allows it to store information, be consistently replicated between generations, and facilitate certain changes (and thus evolution). • Scientists can use various techniques, such as x-ray crystallography and chemical analyses, to measure things that are too large or too small to see. • Scientists can use models to generate and test hypotheses. They often revise their models based on additional data. • The process of scientific discovery involves brainstorming and evaluating ideas, making mistakes, rethinking ideas based on evidence, and communicating with others. STUDENT LEARNING TARGETS • Explain how evidence collected by the scientific community allowed Watson and Crick to build a model of DNA. • Describe some of the key structural features of DNA and their relationship to DNA’s function. -
Itii1i 7*1Edkai Qurhiat. the JOURNAL of the BRITISH MEDICAL ASSOCIATION
DEC. -G~, T9141 TnE'r,MTTT!4?f DEC. :6. 19141 I-r TUE~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~JOUICNAt THE I itii1i 7*1edkaI QurhIat. THE JOURNAL OF THE BRITISH MEDICAL ASSOCIATION. EDITED DY DAWSON WILLIAMS, M.D., D.SC.(HoN.), ASSISTED BY CHARLES LOUIS TAY,LOR. VA-(-)2 iE IJ, 1914. JULYDErCE:rIBERTO B. I -T- PRINTED AND PUBLISHED AT THE OFFICE OF THE BRITISH MEDICAL ASSOCIATION, 429, STRAND, W.C. i -. [ Tim nRITISH DEC. X6, 19114 I MEDICAL JOU5iA.L 3 INDEX TO VOLUME II FOR 1914. READE1RS in search of a particular subject will find it useful to bear in mind that the references are In several oases distributed under two or more separate but nearly synonymous headings-such, for instance, as Brain and Cerebral; Heart and Cardiac; Liver and Hepatic; Renal and Kidney; Cancer and Epithelioma, Malignant Disease, New Growth, Sarcoma, etc.; Child and Infant; Bronchocele, Goitre, and Thyroid; Diabetes, Glycosuria and Sugar; Light, Roentgen, Radium, X Rays; Status Lymphaticus and Thymus; Eye, Ophthalmia and Vision; Bioyole and Cycle; Motor and Automobile; Association, Institution, and Society; Paris, France; Berlin, Prussia, Germany; Vienna, Austria, etc. Subjects dealt with under the various main headings in the JOURNAL have been set out in alphabetical order under their respective headings-for example, "Correspondence," "Leading Articles," "Literary Notes," "'Memorandla," "Reviews," etc.; while under "Original Articles," will be found a list of those who have contributed papers on scientific and clinical subjects, with the titles of their contributions. A. Acitrin, clhemical constitution of, 924 ALrExANDE1t, S. R., re-3lected Mayor of Acne treated by vaccines (Thomas Houston), Faversbamii, 864 ATIDERIIrALDEN-, Professor. -
Maurice Hugh Frederick Wilkins
Maurice Hugh Frederick Wilkins Maurice Wilkins, who shared the 1962 Nobel Prize for Physiology or Medicine with Francis Crick and James Watson, died in London on 5th October, 2004. He was a major player in one of the greatest scientific discoveries of the 20th Century, the discovery of the structure of DNA. Wilkins was born in Pongoroa New Zealand on 15th December 1916, where his parents had moved from Dublin. His father was a doctor who became New Zealand Director of School Hygiene. The family moved to England when Maurice was six years old and he was educated at King Edward’s School, Birmingham. As a child he was interested in science and, in a workshop built by his father, he developed technical and experimental skills, particularly in telescope construction. He studied Natural Sciences at St John’s College, Cambridge, which had many distinguished members of staff. He said that he was especially fortunate in his first year to receive one hour a week of the undivided attention of his supervisor, Marcus Oliphant, who was then Ernest Rutherford’s deputy. In his second year his supervisor was John Cockroft. At Cambridge Wilkins became fascinated with J D Bernal’s X-ray diffraction studies, so much so that he gave a talk on Seeing Structures, based on Bernal’s work, to the Natural Science Club. He also became influenced by the Cambridge Scientists Anti-War Group and became involved in their activities. After graduating in 1938 Wilkins became research assistant to J T (later Sir John) Randall in the Physics Department, Birmingham University, where Oliphant was Head of Department. -
The Eternal Moleeule
82 50 YEARS OF DNA The eternal moleeule As aprelude to the many celebrations around the world saluting the 50th anniversary of the discovery of the DNA double helix, Nature presents a collection of overviews that celebrate the historical, scientific and cultural impacts of arevelatory molecular structure. ew molecules captivate like DNA. It enthrals minuscule cells of the body, and how an additional Fscientists, inspires artists, and challenges layer of information is encrypted within the proteins society. It is, in every sense, a modern icon. A intimately associated with DNA (page 134). It is per defining moment for DNA research was the haps salutary also to recognize what is still to be learnt discovery of its structure half a century ago. On about the physiological states in which DNA exists, as 25 April 1953, in an article in Nature, James Watson discussed by Philip Ball (page 107). and Francis Crick described the entwined embrace of As reviewed by Leroy Hood and David Galas (page two strands of deoxyribonucleic acid. In doing so, 130), DNA science generated the tools that spawned they provided the foundation for understanding the biotechnologyrevolution. Itenabled the cloning of molecular damage and repair, replication and individual genes, the sequencing of whole genomes inheritance of genetic material, and the diversity and and, with the application of computer science, evolution of species. transformed the nature and interactions of molecules The broad influence of the double helix is reflected into an information science. Carlos Bustamante and in this collection of articles. Experts from a diverse co-authors consider how we are stililearning much range of disciplines discuss the impact of the discovery about the distinct structural and physical properties of on biology, culture, and applications ranging from the molecule (page 109).