Fall 2012
BIOLOGY 200: GENERAL MICROBIOLOGY
LECTURE (Fall 2012)
Instructor: Jim Champine
224A Rhodes Hall of Science
Office phone: 651-2171
Electronic mail:
Office Hours: TR Noon-2PM, F 9-11 AM
Lectures: Monday, Friday Noon-12:50 PM, 218 Magill
Prerequisite: BI 154 Genetics and Cell Biology
Textbook: Brock Biology of Microorganisms, 13th Edition
M. T. Madigan and J. M. Martinko
Goals of the Course
The goal of the lecture part of the course is to introduce the student to the wide variety of microorganisms. Areas of emphasis will be 1) the scope of microbiology, 2) the structure of microorganisms, 3) microbial metabolism, and 4) the genetics of bacteria and viruses.
Course Organization
There will be lectures Monday and Friday afternoons, with a two-hour lab session on Tuesdays. The lecture and lab are combined, and no one may take one part without the other.
Course Grading
There will be 4 lecture exams, each worth 100 points total. Everyone must take all the exams (or suffer the consequence in grading). There will also be 100 points for on-line competency exams. Up to 10 points extra credit will be awarded for participation in the lecture. Therefore there will be 500 possible points for the lecture (not counting extra credit). The lecture total will be combined with the lab point total (250 possible points) to yield the course total (750 possible points). Make up exams will only be arranged when there is a conflict with a sanctioned University-sponsored event or documented medical reasons. I reserve the right to lower the number of points required for any grade, but I will not raise them.
Number of Points / Grade>675 / A
600 / B
525 / C
450 / D
<450 / F
Student Conduct
Since students are paying hundreds of dollars to take this course, each person deserves an uninterrupted educational experience. Please make every effort to be on time. If you must come late or leave early please do so in an unobtrusive manner. Like in a movie theater, if someone is carrying on a conversation you have every right to ask him or her to be quiet. Please turn off your cell phone. If your cell phone interrupts class, please give everyone your number so they can return the favor. Please don’t text-message during class – it is very disrespectful. People who disrupt class will suffer for their participation points. If class is delayed, I’ll need to go over my allotted time. If it continues to be a problem you will be asked to leave.
If you are having trouble seeing the board, or hearing me I’ll be glad to try and correct the situation. In some cases there is little I can do. Your best bet is to sit towards the front of the room.
Office hours- Room 312 Rhodes Hall
Come to the office hours to use me as a tutor. I respond best to questions like “could you explain fermentation again?” or “what doesn’t make sense about DNA-super coiling is.....” One study tip is to identify your weakest area, and work on it first. Questions like “What is on the next test?” or “Why aren’t I getting an A?” are harder to answer, and less well received. If you cannot come to regular office hours, we can make an appointment. Look for me in Room 307 (my research lab), Room 314 (the micro prep room), or 220 RH. The teaching laboratory will be available anytime there is not another scheduled course in there.
Electronic Mail
Another way to ask questions in a fairly anonymous fashion is to send me e-mail. I tend to respond in the morning between 7 and 8 AM.
Phone Calls and Absences
I don’t return phone calls. Send me an e-mail with a specific question or request.
If you miss class the obvious thing to do is to come to the next office hours (or class – whichever comes first) and then make arrangements to make up the missed activity.
Webpage - http://cstl-csm.semo.edu/champine/teaching/bi200
The internet page associated with this course is continually under construction. Soon, hopefully, the following services will be available:
* Access to syllabi, and other course documents
* Access to competency checks and pre-lab assignments
* Links to study guides and other useful web sites
* Old exams
* A gradebook that allows you to check your current grade standing
To reach this web page, type the address above to the URL box of your browser, or follow the links from Biology Department Homepage, or use the portal. The webpage, and the OIS applications, are available even if the portal is down.
Important site- http://commtechlab.msu.edu/DLC-ME.html
My favorite internet site related to Microbiology is the Microbe Zoo presented by the Digital Learning Center for Microbial Ecology. This site may help you to visualize certain microbes. It also is good for letting you know how microbes are involved in everyday things.
Another site - http://www.microbelibrary.org/
The Microbe Library maintained by the American Society for Microbiology is a good resource for images. It takes a little navigating to get to the images, and you have to agree not to sell them or take credit for them, etc.
Description of Assignments
Exams – The lecture exams will be the most difficult of all points to obtain. They require a great deal of factual knowledge and some amount of insight into the way microorganisms operate. That is, some application of the material. Lecture packages will include key review questions, and give you some idea of what is expected. Examples of old tests are on-line, but going over these the night before the exam as your primary review will not likely result in a satisfactory grade. Coverage varies from semester to semester, so you will have to use your judgment as to which topic will be included. Also, the answers are not included on the old tests. The purpose of the old tests is to give you an idea as to the style of questions and length of the exam, not to provide you with a comprehensive set “right answers”.
Competency checks – These assignments assess your preparation for the course. You will have multiple opportunities to pass each; the highest grade will be recorded. Read and re-read the material from Brock. If you take a test a second or third time, then read the questions very closely, since it may change subtly. Do not rely on memorizing feedback. Students who have tried this have been very frustrated.
Student Learning Outcomes
1. Students will demonstrate mastery of aseptic technique through isolation of bacteria from a mixed unknown.
2. Students will be able to recognize the difference between the nucleic acid arrangements in eukaryotes versus prokaryotes.
3. Students will show understanding of the diversity of cellular organisms by placing them on a phylogenetic tree.
From the Bulletin
Attendance
Students are expected to attend all classes and to complete all assignments for courses in which they are enrolled. An absence does not relieve the student of the responsibility to complete all assignments. If an absence is associated with a university-sanctioned activity, the instructor will provide an opportunity for assignment make-up. However, it is the instructor’s decision to provide, or not to provide, make-up work related to absences for any other reason.
A student not present for class during the entire initial week of a scheduled course may be removed from the course roster unless the student notifies the instructor by the end of the first week of an intention to attend the class. Questions regarding the removal process should be directed to the Registrar.
Academic Honesty
Academic honesty is one of the most important qualities influencing the character and vitality of an educational institution. Academic misconduct or dishonesty is inconsistent with membership in an academic community and cannot be accepted. Violations of academic honesty represent a serious breach of discipline and may be considered grounds for disciplinary action, including dismissal from the University. Academic dishonesty is defined to include those acts which would deceive, cheat, or defraud so as to promote or enhance one’s scholastic record. Knowingly or actively assisting any person in the commission of an above-mentioned act is also academic dishonesty. Students are responsible for upholding the principles of academic honesty in accordance with the “University Statement of Student Rights” found in the STUDENT HANDBOOK. The University requires that all assignments submitted to faculty members by students be the work of the individual student submitting the work. An exception would be group projects assigned by the instructor. In this situation, the work must be that of the group. Academic dishonesty includes:
Plagiarism. In speaking or writing, plagiarism is the act of passing someone else’s work off as one’s own. In addition, plagiarism is defined as using the essential style and manner of expression of a source as if it were one’s own. If there is any doubt, the student should consult his/her instructor or any manual of term paper or report writing. Violations of academic honesty include:
1. Presenting the exact words of a source without quotation marks;
2. Using another student’s computer source code or algorithm or copying a laboratory report; or
3. Presenting information, judgments, ideas, or facts summarized from a source without giving credit.
Cheating. Cheating includes using or relying on the work of someone else in an inappropriate manner.
It includes, but is not limited to, those activities where a student:
1. Obtains or attempts to obtain unauthorized knowledge of an examination’s contents prior to the time of that examination.
2. Copies another student’s work or intentionally allows others to copy assignments, examinations,
source codes or designs;
3. Works in a group when she/he has been told to work individually;
4. Uses unauthorized reference material during an examination; or
5. Have someone else take an examination or takes the examination for another
Civility
Every student at Southeast is obligated at all times to assume responsibility for his/her actions, to respect constituted authority, to be truthful, and to respect the rights of others, as to respect private and public property. In their academic activities, students are expected to maintain high standards of honesty and integrity and abide by the University’s Policy on Academic Honesty. Alleged violations of the Code of Student Conduct are adjudicated in accordance with the established procedures of the judicial system.
Disabilities
Southeast Missouri State University and Disability Support Services remain committed to making every reasonable educational accommodation for students with disabilities. Many services and accommodations which aid a student’s educational experience are available for students with various types of disabilities. It is the student’s responsibility to contact Disability Support Services to become registered as a student with a disability in order to have accommodations implemented. Accommodations are implemented on a case by case basis. For more information visit the following site: www.semo.edu/lapdss or contact Disability Support Services at 573-651-2273
GENERAL MICROBIOLOGY (BI 200)
LECTURE CALENDAR and TOPIC OUTLINE Fall 2012
Day / Topic / Brock sec.# / Brock pp.8/20 M / 1 / Part I: Eukaryotic Microorganisms / 2.1. 2.5, 2.7, 2.12, Ch. 20 as detailed / 25-26, 31-33, 34-36, 43-44
8/24 F / 2 / Prokaryotes and Viruses / 2.9-2.11, 3.1-3.2 / 38-43, 48-51
8/27 M / 3 / Impact on Human Affairs / 1.5 / 7-10
8/31 F / 4 / Introduction to Microbiology / 1.1-4, 2.8 / 1-7, 36-38
9/3 / Labor Day Holiday – no class
9/7 F / 5 / History of Microbiology / 1.6-1.10 / 10-22
9/10 M / 6 / Basics of Biological Chemistry / (reading assignment from previous edition)
9/14F / 7 / Part II: Membranes and Transport / 3.3-3.5 / 51-58
9/17 M / 8 / Cell Walls / 3.6-3.8 / 58-64
9/21 F / 9 / Exam #1
DNA in Prokaryotes and Eukaryotes (Nucleic Acids) / 2.6 / 33-34
9/24 M / 10 / Motility / 3.13-15, 20.5 / 73-82, 590-591
9/28 F / 11 / Prokaryotic Cell Features / 3.9-3.12 / 64-73
10/1 M / 12 / Eukaryotic Cell Features / 20.1-20.5, 16.4 / 585-591, 452-454
10/5 F / 13 / Overview of Metabolism / 4.4 / 92-93
10/8 M / 14 / Fermentation and Glycolysis / 4.8, 14.1-14.2, [15.7-15.9]* / 98-101, 373-377, [423-428]*
10/12 F / Fall Break – no class
10/15 M / 15 / Aerobic Respiration / 4.9-4.11 / 101-106
10/19 F / 16 / Exam #2
10/22 M / 17 / Catabolic Diversity / 4.8, 4.12 / 98, 100, 106-108
10/26 F / 18 / Anaerobic Respiration / 14.6-14.10, 14.12 / 383-394, 395-397 as detailed
10/29 M / 19 / Lithotrophy / 13.6-13.10 / 353-359
11/2 F / 20 / Part IV: Macromolecules I / 6.1-6.3, 6.10, 6.12, 7.5 / 151-156, 165-167, 170-174, 197-198
11/5 M / 21 / Macromolecules II / 6.4-6.5 / 156-159
11/9 F / 22 / Exam #3
11/12 M / 23 / Variation in Microorganisms / 10.1 / 264-266, 273 fig. 10.9
11/16 F / 24 / Recombination, Transformation / 10.6-10.7 / 273-277
11/19 M / 25 / Plasmids / 6.6-6.7 / 159-162
11/23 F / Thanksgiving Holiday – no class
11/26 M / 26 / Conjugation / 10.9 / 279-280
11/30 F / 27 / Viruses / 9.1-9.4 / 237-243
123 M / 28 / Animal Viruses / 9.11-9.15, 32.6, 33.8 / 254-259, 922-925, 958-961
12/7 F / 29 / Bacteriophage / 9.5, 9.8-9.10 / 243-245, 247-254
12/10 M / (Noon) Exam #4
(Section and page numbers in parenthesis represents material covered in other courses like BI154 and CH185. They will not be covered explicitly in class)
* Sections on alcohol are for your personal edification