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
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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
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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
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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
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