Mar. 26, 2007 BSCI 267: Molecular Virology Spring 2007 TR 2:35-3:50 pm Location: MRB III, Mosig Conference Room, room 2210 Instructor: Professor Ellen Fanning 2325 Stevenson Center (3rd floor directly across from elevator) phone 3-5677, 3-5802; ellen.fanning@vanderbilt.edu Office hours: TBA Text: 1. Fundamentals of Molecular Virology, N.H. Acheson, Wiley, 2007, ISBN-13 978-0-471-35151-1, ISBN-10 0-471-35151-2 2. The Great Influenza, J.M. Barry, 2004, Penguin books (paperback) Supplementary text: Outbreak: Cases in Real-World Microbiology, R. P. Anderson, 2006. ASM Press, Washington, DC How the Immune System Works, 2nd edition, L. Sompayrac, Blackwell Publishing, 2003, ISBN 0-632-04702-X (paperback); an easy to understand overview of the basics. How Pathogenic Viruses Work, L. Sompayrac, Jones and Bartlett Publishers, 2002, ISBN 0-7637-2082-8 (paperback) Principles of Virology, S. J. Flint et al., ASM Press, 2004, ISBN 1-55581-259-7 Online materials and journal articles: http://www.ncbi.nlm.nih.gov:80/entrez/query.fcgi?db=PubMed http://www.athena.bioc.uvic.ca www.MicrobeLibrary.org 1 Mar. 26, 2007 www.microbelibrary.org/advsearch.asp >1100 viral genome sequences www.ncbi.nlm.nih.gov/PMGifs/Genomes/10239.html www.tulane.edu/~dmsander/garryfavweb.html www.ncbi.nlm.gov/ICTVdb/ http://life.anu.edu.au/viruses/welcome.html http://virology.wisc.edu/IMV/ http://nobelprize/org www.virology.net www.hhmi.org http://darwin.bio.uci.edu/~faculty/wagner/movieindex.html Format: The course will be a mixture of lectures, in-class discussion based on textbook and online materials, and oral presentations of research articles from primary literature. Each student will present several times during the semester. Grades: 60% in-class exams (3 exams, 20% each) 30% oral presentations 10% participation in discussion Topics: General introduction to viruses, their life cycles, effects on host cells, epidemiology Virus structure and assembly Viral strategies, cell biology, and evolution of: Plus-strand RNA and double-strand RNA viruses Polio/picorna, calici/astro/toga family, flavi viruses, SARS and corona, plant viruses, reovirus Minus-strand RNA viruses Rhabdo (rabies), paramyxo (measles), orthomyxo (flu), filo, borna families; bunya (hanta) and arena virus families 2 Mar. 26, 2007 Viruses that use reverse transcriptase Hepatitis B, HIV and other retroviruses DNA viruses Papilloma, herpes, Epstein-Barr, polyoma, adeno, parvo, vaccinia/smallpox Control of viral infection Host defenses Innate immune system, adaptive immune system Viral counter-defenses Vaccines Other infectious agents Subviral infectious agents Prions, hepatitis delta Selected infectious bacteria, fungi, protozoa Tentative Class Schedule Jan. 11 Course Intro, discussion [for next class, find viruses in the news/web and come to class prepared to share the info with all] Jan. 16 Viruses in public health: class discussion and CNN broadcast: “Where have all the parents gone?” Jan. 18 Viral genomes: classifying viruses (read p. 1-14 Strauss); polyomavirus intro Jan. 23 Small DNA viruses: Polyomaviruses. Lecture EF, discussion. Read p. 14-16, 259-270 Strauss; p. 98-113 Acheson (handout) Jan. 25 Team 1 presentation = papillomavirus intro (Anju, Rachel, Lauren) Read Acheson p. 114-122 Jan. 30 Team 2 presentation = microRNA overview (Julia, Beth, David) Team 3 = Sullivan et al. 2005. Nature 435, 682-686 (Karen, Kathryn, Brent) Feb. 1 More DNA viruses: Adenovirus (EF) 3 Mar. 26, 2007 Read Strauss p.270-276, 252-259; Acheson p. 123-133 and p. 89-97 (handout) Feb. 6 Adenovirus II, viral defense vs. interferon (EF), gene therapy handout, Abbate et al. handout Feb. 8 Hot off the press Journal Club presentation: Abbate et al., 2006. Mol. Cell 24, 877-889. Intro/background, Figs. 1-7, take-home/wrap-up. The Whole Class. Feb. 13 Parvovirus (Nathan); Viruses and ecology (Rachel), exam discussion and review Feb. 15 EXAM 1 (material to date) Feb. 20 DNA viruses: the big bruisers: Herpes viruses (EF) Read Acheson handout, Strauss pp. 234-252 Feb. 22 Herpes wrap-up (EF) Feb. 27 Guest lecturer on pseudorabies virus (herpes): Lynn Enquist, Princeton University; Read Enquist PLoS Pathogens (handout) Mini-presentations (round 2 teams 1-3) Mar. 1 Team 4 presentation on the immune system (Rachel, Karen, Beth, Anju) Handouts on interferon (Acheson Chap 31 Interferon; Katze et al., 2002 review) BREAK Mar. 13 Take-home lessons on the immune system (Rachel, Karen, Beth, Anju) Handout: questions in preparation for discussing The Great Influenza Mar. 15 Class discussion of The Great Influenza Mar. 20 Influenza (EF) Read Strauss p. 147-156 (out of date on molecular biology), Acheson handout = better (pp. 47-51, 349-352, 248-259) Mar. 22 More influenza (EF); Team 4. Rachel Kochert Kilpatrick et al. 2006, PNAS 103,19368-19373 and 4 Mar. 26, 2007 Kilpatrick et al. 2006, PLoS Biol. 4, e82, p606-610 Mar. 27 Team 1 Brent Dorr, Karen Saar, Nathan Merrill Nature 444, 378-382, 2006; Nature 440, 435-436, 2006 H5N1 receptors in human airways and HA mutations Team 2. Julia Byrd, Beth McKinnon, Anju Mammen Rescue of influenza B from 8 plasmids (methods to make vaccine strains) Team 3. Kathryn Stinson, David Nelson, Lauren Doppelheuer Aberrant immune response to 1918 influenza virus Nature 445, 319-323, 2007 Guest lecturer Terence Tumpey, CDC: (Tumpey et al., 2005) (if time permits) Characterization of 1918 pandemic influenza- why so deadly? Mar. 29 EXAM 2 (material to date) Apr. 3 Retroviruses (EF) (read Acheson Chapter 25 and 26 handout) Apr. 5 Retrovirus wrap-up (EF) and……. Guest lecture: Arnold J. Levine, Princeton Institute for Advanced Study Viral lessons on genomics HIV and influenza Apr. 10 Lynn Enquist, Princeton (live) 3 pm, 1220 MRBIII Apr. 12 Polio and picornaviruses (EF) Acheson chapter 16 Apr. 17 Flaviviruses (EF) (read Acheson chapter 17) Apr. 19 Coronaviruses: Mark Denison, Micro/Immun, VUMC (read Acheson chapter 19 handout) Apr. 24 LAST CLASS and “EXAM” = present PAPERS ON HCV May 2 nooo FINAL EXAM, 9 AM 5