COURSE:                                            Medical Microbiology
COURSE NUMBER:                                    ...

The performance of students will be evaluated by several different mechanisms.

       Lecture Exami...
Laboratory - There are several means of assessing student progress and learning in the laboratory.

        Lab Reports an...
Lecture component……………………………………………...                                  800 points

    Basic Immunology Quiz              ...

        Immunology: A Short Course - 5th Ed. Eli Benjamini, Richard Coico and Geoffrey Sunshin...

The Patient-Oriented Problem-Solving (POPS) System is included as part of...
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Junior Psychiatry Clerkship Orientation


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Junior Psychiatry Clerkship Orientation

  1. 1. 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 Course Coordinator 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 Pathogenic Microbiology Etheleen McGinnis Hill, Professor and 4131 and 327-6956 By appointment Associate Dean for Curriculum Evaluation Office of 327-6413 Student/Academic Affairs 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 Infections COURSE OBJECTIVES: to acquaint medical students with specific aspects of basic and clinically relevant information about infectious disease processes. 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.
  2. 2. COURSE REQUIREMENTS: 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.
  3. 3. 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 course.
  4. 4. 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 100 points Comprehensive Examination 200 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 RECOMMENDED TEXTBOOKS: Kuby Immunology – 5th Ed. Richard A. Goldsby, Thomas J. Kindt and Barbara A., Osborne, W.H. Freeman and Company, Copyright 2003. Web-site: Medical Microbiology - 4th Ed. Patrick R. Murray, Ken S. Rosenthal, George S. Kobayashi, Michael A. Pfaller. C.V. Mosby Company. Copyright 2002
  5. 5. 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 2001 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 ( or 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 ( Any questions, concerns, or difficulties in accessing the web site may be directed to Dr. Hatcher.
  6. 6. 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. POLICIES: 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 and appointments.