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COURSE: Medical Microbiology
COURSE NUMBER: MICR-401-01
CREDIT HOURS: 9.0
All lectures will be presented on the dates and times as indicated in the course schedule.
Sophomore Lecture Hall 1106, West Basic Science Building
All laboratory exercises and small group discussions will be held in the multidiscipline labs located on the 3rd
floor, West Basic Science Building.
INSTRUCTORS: Office Phone Office Hours
Fernando Villalta, Professor and Chairperson 4101 327-6281 By appointment
Eloise J. Cunningham, Instructor 4108 327-6096 By appointment
Associate Course Coordinator
Minu Chaudhuri, Assistant Professor 4105 327-5919 By appointment
Frank M. Hatcher, Associate Professor 4115 327-6671 By appointment
Section Coordinator, Immunology and
Etheleen McGinnis Hill, Professor and 4131 and 327-6956 By appointment
Associate Dean for Curriculum Evaluation Office of 327-6413
Robert G. Holt, Professor 4134 327-6402 By appointment
Section Coordinator, General Microbiology
Maria de Fatima Lima, Professor M121 327-6533 By appointment
Dean, School of Graduate Studies
Raju Ramasamy, Professor 4126 327-6687 By appointment
Section Coordinator, Parasitic and Viral
to acquaint medical students with specific aspects of basic and clinically relevant information about infectious
to provide to the medical student a foundation for knowledge concerning the biology of infectious microbes
which are pathogenic for humans, the features of the diseases they cause, and the biology of the human host
response designed to protect us from overwhelming infection.
to assist the student in learning how to apply the concepts mastered during the first year of study as well as those
concepts taught in concurrent courses.
students are expected to correlate not only the information presented this course, but also to relate the concepts to
those already learned.
The performance of students will be evaluated by several different mechanisms.
Lecture Examinations - Each of the lecture examinations will cover information presented in the course
lectures, Clinical Correlation presentations, reading assignments and directed self-study assignments. The
first section of the course, Immunology, will consist of two examinations. A Quiz covering the basic
Immunology concepts (Lectures 1-14) will be given first for a total of 50 points. Examination #1, a
comprehensive examination covering the entire Immunology section (Lectures 1-23), is worth 125 points.
At the conclusion of the Immunology section students will be asked to complete an evaluation of that
section which will be worth 5 points. The second section of the course, General Microbiology, will be
covered in one examination worth a total of 160 points. Throughout this section you will be given take-
home exercises to be completed and submitted for a grade. The third section of the course, Pathogenic
Microbiology including Medical Mycology, will be covered in one examination worth a total of 180
points. The remaining section of the course covers Parasitic and Viral Infections. Material presented in
this section will be covered in one examination worth 180 points.
During each section of the course, lecture quizzes will be given during each 2-hour lecture block. Quizzes
may be given at any time during the 2-hour lecture period and may cover material presented that day or
material previously covered. Lecture quizzes are worth 20 points per section of the course for a total of 80
points. All questions on departmentally produced internal examinations will be consistent with
USMLE Step 1 format.
Examinations will be administered either as a paper exam or by computer. Students will be given sufficient
advance notice of the type of exam that will be administered. Only students who are officially registered
for the course will be allowed to sit for the lecture examinations. Time will NOT be extended for any
student who arrives after the exam has begun. If a paper exam is administered, time will NOT be extended
to allow students to transfer answers from the test booklet to the answer sheets. It is the policy of the
Department of Microbiology that all exam test booklets will be retained in the department and will not be
returned to the student. Any student who fails to take an exam at the regularly scheduled time will not be
permitted to take a make-up exam without a validated excuse from the Dean's Office of Academic and
Student Affairs and approval from the Microbiology departmental faculty. This excuse must be submitted
to the Microbiology Department no later than 2 weeks after the absence has occurred. If approval is given
for a make-up exam, the format of the make-up examination (essay-type questions, fill-in-the blank, etc.)
will be at the discretion of the faculty. Missed laboratory quizzes and unknowns will NOT be made up.
With a validated excused absence on file with the department, alternative-testing methods may be used. In
addition, missed lecture quizzes will NOT be made up. However, with a validated excuse submitted to the
department no later than two weeks after the absence has occurred, a missed quiz will not be included in
the calculation of the final grade.
If an exam is administered on the computer, the test scores may be picked up from Mrs. Cunningham,
Room 4108, as soon as they are made available. If a paper exam is administered, the exams will be hand
graded by the Microbiology faculty immediately after the administration of the exam. A key will always
be posted immediately following the grading of the exams. The faculty strongly suggests that students
check their graded answer sheet against the posted key for any errors. Hand-graded exams are also
computer graded. Any discrepancies found to exist between the hand-graded and computer-graded scores,
will result in the exam being re-graded to ascertain where the discrepancy occurred. Any errors found in
the grading of the exams will be corrected.
Laboratory - There are several means of assessing student progress and learning in the laboratory.
Lab Reports and Clinical Problems: Throughout the presentation of the laboratory section of the course
you will have material that will be turned in for grading. This will include: 1) clinical case reports, 2)
charts, graphs, etc. to interpret, 3) lab test results to analyze for diagnosis of disease, 4) POPS posttests.
Several online self-directed study assignments related to lecture content are to be completed and turned in
for a grade. Announcements concerning the due dates of these assignments will be posted in the
Department of Microbiology and also can be found on the Medical Microbiology web site. Detailed
information will be presented to you as the course progresses. This portion of the laboratory section is
worth a total of 140 points.
POPS - Tetanus Immunity 10 points
POPS - Jaundiced Baby 10 points
FACS (2 parts at 5 points each) 10 points
ELISA 5 points
Tolerance and Autoimmune Disease: A Case of Myasthenia Gravis - Extra Credit (10 Points)
(online self-directed study assignment)
SGD - Clinical Case/Day Care Center 20 points
SGD - Vancomycin-resistant S. aureus 15 points
(online self-directed study assignment)
Pathogenic Lab Component: Post tests: Gm+ cocci 10 points
Neisseria 5 points
Enterics 10 points
Grp answer sheets: (5 pts each day) 15 points
Pathogenic Clinical Case (online self-directed study assignment) 10 points
POPS - Painful Rash 10 points
SGD - Mycotic Infections 10 points
Unknowns: During the course each student will be responsible for analyzing and testing "unknown"
microorganisms for identification. This section of the laboratory is worth a total of 50 points.
Any laboratory reports, unknowns, etc. that are not turned in at the designated times will be subject to a
late penalty of 20% of assigned points.
Course Comprehensive Examination - The department will administer a comprehensive final examination that
will cover all of the concepts presented in the course. This exam will be designed by the faculty of the department
and will consist of 100 questions worth 100 points. This examination will be administered either as a paper exam
or by computer. The questions on this examination will be consistent with USMLE Step 1 format.
NBME Microbiology and Immunology Subject Area Board Examination - This exam will be of the design and
duration as specified by the National Board of Medical Examiners. The exam will count 200 points toward the
final determination of a student's grade. Scores will be calculated on the basis of subject test scores. A passing
score on the NBME subject area examination is necessary but not sufficient for passing the Medical Microbiology
Lecture component……………………………………………... 800 points
Basic Immunology Quiz 50 points
Examination #1 125 points
Section Evaluation 5 points
Lecture Quizzes 20 points
Examination #2 160 points
Problem Set 10 points
Lecture Quizzes 20 points
Examination #3 180 points
Lecture Quizzes 20 points
Examination #4 180 points
Lecture Quizzes 20 points
Laboratory Component………………………………………… 200 points
Lab Reports/Clinical Problems 140 points
Unknowns 50 points
Course/Faculty Evaluation 10 points
NBME Subject Area Examination
Total Points Possible 1300 points
Grade Assignments: In order for any student to pass the course he/she must have earned a minimum of 839 points
and achieve a standard score of at least 60 on the NBME subject examination. Students who receive at least 839
points but achieve a standard score of less than 60 on the NBME subject examination will receive an incomplete (I)
grade and will be given a second opportunity to take the examination. If a standard score of at least 60 is not
achieved on the second administration, a final grade of F will be assigned and the student must take the course
when next offered. If the student passes the exam, he/she will receive a final grade based on the total points
described below. Letter grades of A, B+, B, C+, C, or F will be assigned as follows:
A 1099 → 1300 points
B + 1034 → 1098 points
B 969 → 1033 points
C + 904 → 968 points
C 839 → 903 points
F 0 → 838 points
Kuby Immunology – 5th Ed. Richard A. Goldsby, Thomas J. Kindt and Barbara A., Osborne, W.H.
Freeman and Company, Copyright 2003. Web-site: http://www.whfreeman.com/immunology5e
Medical Microbiology - 4th Ed. Patrick R. Murray, Ken S. Rosenthal, George S. Kobayashi, Michael A.
Pfaller. C.V. Mosby Company. Copyright 2002
ADDITIONAL RESOURCE TEXTS:
Immunology: A Short Course - 5th Ed. Eli Benjamini, Richard Coico and Geoffrey Sunshine. Wiley-
Liss, Inc. Copyright 2003
Immunobiology: The Immune System in Health and Disease - 6th Ed. (Every copy of textbook comes
with CD-ROM containing animations based on illustrations in the book.) Charles A. Janeway, Jr., Paul
Travers, Mark Walport and Mark Shlomchik. Garland Publishing, Inc. Copyright 2005
Immunology for Medical Students - 1st Ed. Roderick Nairn and Matthew Helbert. C.V. Mosby
Company. Copyright 2002
Mechanisms of Microbial Disease - 3rd Ed. Editors: Moselio Schaechter, N. Cary Engleberg, Barry I.
Eisenstein and Gerald Medoff. Williams & Wilkins. Copyright 1998
Cases in Medical Microbiology and Infectious Diseases - 3rd Ed. Peter H. Gilligan, M. Lynn Smiley and
Daniel S. Shapiro. ASM Press, Copyright 2003
Medical Microbiology and Immunology - 8th Ed. Examination and Board Review. Warren E. Levinson
and Ernest Jawetz. The McGraw-Hill Companies, Inc. Copyright 2004
Immunology - 6th Ed. Ivan Roitt, Jonathan Brostoff, and David Male. C.V. Mosby Company. Copyright
COMPUTER - ASSISTED INSTRUCTION:
Roitt - Immunology Interactive 2.0 CD ROM
Roitt - Immunology Interactive 1.0 CD ROM
Gram Stain-Tutor: An interactive program that teaches the interpretation of direct Gram stains
Direct Smear Atlas: A CD-ROM of gram stained smear preparations of clinical specimens
MICRO II: Cases in Medical Microbiology
MicroVision: A microbiology laboratory on CD-ROM
Parasite-Tutor: An interactive tutorial that teaches the morphological identification of parasites
HyperClinic: Interactive Case Studies in Microbiology
Immunobiology Bookshelf, 2nd Ed. Contains - Janeway & Travers textbook & figures and Rosen’s Cases
Studies in Immunology, textbook and figures
INTRANET WEB SITE:
You are encouraged to visit the Department of Microbiology Medical Microbiology web site
(http://mcdonaldc.mc.vanderbilt.edu/microbi00_v1 or http://www.mmc.edu/microbiology/hatcher/). This website
is password protected and you will be given the user name and password in the Introduction to Medical
Microbiology lecture on Tuesday, July 27, 2004. The home page for the Medical Microbiology course includes
links to sample question banks that are lecture specific. Lecture notes and departmentally-produced exams from
previous years are also available on the web site as well as links to sites related to Medical Microbiology. During
the presentation of the 2004 course, directed self-study assignments can be found on the web site. These
assignments are to be completed and submitted for a grade. You will receive more specific details concerning these
assignments as the course progresses. The email addresses of the faculty are listed in the front of the course
syllabus and you may direct your questions, comments and concerns to individual faculty members. The
departmental web master is Dr. Frank M. Hatcher, Office 4115, X6671 (firstname.lastname@example.org). Any questions,
concerns, or difficulties in accessing the web site may be directed to Dr. Hatcher.
PATIENT-ORIENTED PROBLEM SOLVING (POPS) SYSTEM:
The Patient-Oriented Problem-Solving (POPS) System is included as part of the laboratory section of the course.
Topics covered include Tetanus Immunity, Blood Typing and Transfusion Immunology, Transfer of Antibiotic
Resistance, and Virology. These POPS clinical simulations are designed to help students apply basic science
knowledge, develop skills in the location of relevant information, and increase communication skills in the solution
of clinical problems in a group situation.
The attendance policy of the Department of Microbiology follows the guidelines in the School of
Medicine Handbook of Academic Policies and Procedures. Students are expected to attend all classes.
Excused absences must be obtained from the Office for Student Affairs and sent to the Department. The
Department of Microbiology considers unexcused absences in excess of twenty percent (20%) of the total
lecture and laboratory hours to be unacceptable.
Ethical conduct: Physicians, research scientists and others in the health professions must be of the highest
integrity. Students are expected to conduct themselves in a professional and responsible manner. The
department will not condone cheating in any form. Evidence of such conduct may result in forfeiture of the
right to continue in the course. The department will promptly report any cheating to the Dean of the School
of Medicine with a strong recommendation of dismissal from medical school.
Withdrawal: A student may be permitted to withdraw from the Medical Microbiology course following
the guidelines described in the Student Academic Policies and Procedures Manual on file in the Office of
Student and Academic Affairs. A student may withdraw without penalty before 60% of the course is
complete with a "WV" (Withdrawal/Voluntarily). In the Medical Microbiology course this date occurs on
the Friday following the administration of Examination #3. The student must obtain the approval of the
Chairperson of the Department of Microbiology and the Vice Dean for Student/Academic Affairs and file
the approved form in the Office of Admissions and Records.
Course and faculty evaluation: At the conclusion of the Medical Microbiology course, students will be
given an opportunity to evaluate the Department of Microbiology, the faculty and all aspects of the Medical
Microbiology course. The evaluation forms will be passed out one week prior to the administration of the
NBME subject area examination and should be returned by the last day of the fall semester. This
evaluation is worth at total of 10 points and is counted as a part of the laboratory component of the course.
The information you provide in this evaluation helps the faculty to determine student perceptions of the
department's strengths and weaknesses and provides new ideas, which will help us to develop better and
more effective methods of instruction. All of the responses and comments you make are confidential.
Faculty tutors: The faculty of the Department of Microbiology wishes to encourage you to seek any
reasonable assistance you feel is necessary to ensure your success in the Medical Microbiology course.
After the Basic Immunology Quiz, students who do not perform at a satisfactory level (to be determined by
the departmental faculty) will be assigned a faculty tutor. The Microbiology faculty is always willing to
assist you in your academic endeavors. Faculty and tutors should be contacted individually for office hours