Course Syllabus

Bio207_W2016_Syllabus_(v010615).pdf

Biology 207: Introductory Microbiology

 

Winter 2016 Syllabus

Lecture: Tuesdays and Thursdays from 4:00-5:30pm in 1210 Chemistry Building

Lab: 8 sections in 3151 USB (check your individual schedule). Labs start the week of 1/11.

 

Instructors:

Lectures:

Dr. Kim Seed (kdseed@umich.edu). Office hours (when Dr. Seed is lecturing: Units 2, 4): Mondays, 4:00-6:00pm in 2109A Nat. Sci. (go through door of lab, 2095 Nat. Sci. to reach the office) or by appointment

 

Dr. Gary Huffnagle (ghuff@umich.edu). Office hours (when Dr. Huffnagle is lecturing: Units 1, 3): Wednesdays, 3:00-5:00pm in 6220B MSRBIII (go through door of lab, 6240 MSRBIII, to reach the office) or by appointment

 

Labs:

Dr. Marc Ammerlaan (mcammer@umich.edu). Office Hours (all term) M10-12 in 4138C USB

 

Graduate Student Instructors:

Angy Perez Martinez (apperez@umich.edu). Office hours throughout the semester: Tuesdays, noon-2:00pm in the USB Science Learning Center 2nd floor (2165 USB).

 

Greyson King (greysonk@umich.edu). Office hours throughout the semester: Wednesdays, 10:00-11:30am in 3091 Kraus (Nat Sci) Bldg.

 

John Guittar (guittarj@umich.edu). Office hours throughout the semester: Fridays, 12:00-1:30pm in 2010B Kraus (Nat Sci) Bldg.

 

Kat Wiles (kwiles@umich.edu ). Office hours throughout the semester: Mondays, 11:00am-12:30pm in 2037 Kraus (Nat Sci) Bldg.

 

The GSIs will be attending all the lectures and will also be helping you with the labs. You will see them often. Thus, please consider your GSIs as primary sources for questions about the course material.

 

 

Course Structure:

The lectures for this course will be divided into four main sections, corresponding to each exam:

Unit 1: Microbial Growth & Metabolism (classes 1-7)

Unit 2: Microbial & Viral Genetics / Molecular Biology (classes 9-14)

Unit 3: Microbial Ecology & Symbiosis (classes 16-21)

Unit 4: Medical Microbiology & Epidemiology (classes 23-27)

Before each lecture, lecture slides, as well as required supplemental reading material, will be posted on the Biology 207 Canvas site. You may wish to print out lecture slides before coming to class in order to take notes.

 

The laboratory runs concurrently with the lectures and helps reinforce material in the lectures; however, the grading of the laboratory is separate from that of the lectures (see below). The laboratory syllabus will be distributed on the first day of your lab.

 

We will be using i>clickers during lecture to foster engagement with the material and to let us know when to clarify concepts that may not have been fully understood. i>clicker questions will account for a small portion of your grade (see below).

Course Materials and Websites:

1. Brock Biology of Microorganisms, 14th Edition.

 

1. The most affordable option is to purchase the eText. It may be purchased at this URL, with two options, for 180 day rental, or "non-expiring":

https://www.vitalsource.com/products/brock-biology-of-microorganisms-14-e-madigan-michael-t-v9780321957078

Please note that this option will NOT include a hard copy of the text. Options B & C below will give you both a paper copy and an eText.

 

1. The next most affordable option is to purchase the looseleaf (“a la carte”) text, through the university bookstores (ISBN 13: 9780321928351). Please note that this option will also give you access to the eText.

 

1. The last option is to purchase the printed, hard cover text, through the university bookstores (ISBN 9780321897398). Please note that this option will also give you access to the eText.

 

2. Benson’s Microbiological Applications: Laboratory Manual in General Microbiology, 13th edition (short version). This will be used in the laboratory component of the course.

 

4. Please access the main course website through Canvas. Through Canvas, you will be able to access revised versions of the syllabus, additional required reading material, extra "recreational" reading material, course announcements, lab information, grades, and more. We will likely be revising the required reading material during the course of the semester. We will try to announce when this occurs; however, it is the responsibility of the student to check for updated syllabus/reading material.

 

5. Please purchase an i>clicker if you do not already own one. You must register your i>clicker through the course Canvas site.

 

 

Assigned Reading:

The syllabus lists chapters in the book as part of the assigned reading for the course. During the lecture, the specific subsections of the chapter that will be covered during the exam will be highlighted. During the semester, we may revise the assigned reading material in the syllabus by either removing specific subsections from the assignment and/or posting an additional reading(s) to the Canvas website for the course. New reading material will be posted prior to the lecture for that material and students will be notified of the posting. Revised syllabi will be posted to the website and changes noted in lecture.

 

 

i>Clicker Questions:

There may occasionally be several i>clicker questions near the beginning of class about the reading material. These i>clicker questions are intended to encourage you to familiarize yourself with the material before lecture. Please note that you must be present in order to participate in these questions and receive points for them. Throughout each class, the instructors will pause periodically to ask i>clicker questions about the material. Although the number of i>clicker questions for each class will vary, altogether, they will account for 5% of the course grade (20 points total) over the semester. You will receive full credit for a correct answer and 80% for an incorrect answer. Additionally, we will drop points for your four “lowest days.” These may be days that you were unable to attend lecture; if you attend all lectures, it means that your lowest four i>clicker scores will be dropped. Because of this flexibility built into the system, there will be no makeup opportunities for i>clicker points. It will be in your best interest to come to lecture regularly and participate fully. If you do so, you should be able to achieve most or all points offered for i>clicker participation.

 

 

Exams (lectures):

The exams will be a combination of multiple-choice and/or short-answer questions. The material covered on the exams will be primarily drawn from the material discussed in class; however, questions can be drawn from both lecture material (on slides) and material from the readings (even if it was not covered in class). Of note: there will be sections of the assigned reading material that are highlighted in lecture but not covered. You will be responsible for that material on the test.

 

ALL exams will be held during regular class time. Exams will NOT be comprehensive in nature. Because exams are held during class time, we do not schedule alternate exams. If you must request a makeup exam due to an excused absence, you must inform your instructors at least two weeks prior to the exam in order to make arrangements. If you miss an exam due to an unexpected emergency or illness, you should contact your instructors by 5:00pm on the day after the exam. If you do not meet this deadline for notifying your instructors, you will not be able to make up the exam.

 

 

Grading:

There will be 400 possible points for lecture and lab combined. The breakdown is as follows:

• EXAMS:

70% of total grade (280 points total; Exams 1 & 2 are 75 points each; Exams 3 & 4 are 65 points each). There is no comprehensive final for this course, and no exam grades will be dropped.

• LAB:

25% of total grade (100 points total)

• CLICKER POINTS:

5% of total grade (20 points total)

 

Grading Scale:

 

• A+ 388-400 points
• A 372-387 points
• A- 360-371 points
• B+ 347-359 points
• B 333-346 points
• B- 320-332 points
• C+ 307-319 points
• C 293-306 points
• C- 280-292 points
• D+ 267-279 points
• D 253-266 points
• D- 240-252 points
• E <240 points

 

 

 

Students with Disabilities:

If you would like to request special accommodation(s) for one or more disabilities, please contact one of the course instructors as soon as possible. Specifically, if you require special exam accommodations, please inform a course instructor at least two weeks prior to the first exam. If you have not already registered with the Office of Services for Students with Disabilities (G-664 Haven Hall; 763-3000), we encourage you to do so in order to obtain disability verification and determine appropriate accommodations. We will do everything possible to make arrangements for you, and your information will be kept strictly confidential.

 

Academic Misconduct

The University of Michigan provides resources for students to learn more about the consequences of academic misconduct. To read about examples of academic misconduct, please visit this site: http://www.lsa.umich.edu/academicintegrity/examples.html. Academic misconduct in Biology 207 includes (but is not limited to): cheating on exams, submitting someone else’s work as your own on homework assignments, allowing someone else to submit your work as his or her own, answering i>clicker questions on a device that is not your own, or having someone else answer i>clicker questions for you when you are not present in class. Infractions will be evaluated on a case-by-case basis, although we hope not to encounter any problems throughout the term. Please note that academic misconduct may result in failing part or all of the course.

 

Lecture Schedule:

 

Class	Date	Lecturer	Unit	Brock 14th ed. Assigned Reading
1	1/7/15	GH & KS	Introduction & Overview	1
2	1/12/15	GH	Microbial Cell Structure & Function	2
3	1/14/15	GH	Microbial Growth & Growth Control	5
4	1/19/15	GH	Basics of Microbial Metabolism	3, 13
5	1/21/15	GH	Metabolic Diversity of Microbes	13
6	1/26/15	GH	Bacterial Function	14
7	1/28/15	GH	Nutrient Cycles	20
8	2/2/15	Exam 1	Unit 1: Microbial Growth & Metabolism (classes 1-7)
9	2/4/15	KS	Information Flow	4
10	2/9/15	KS	Genetics of Bacteria and Archaea	10
11	2/11/15	KS	Genetics of Viruses	8,9
12	2/16/15	KS	Metabolic Regulation 1	7
13	2/18/15	KS	Metabolic Regulation 2	7
14	2/23/15	KS	Genetic Engineering and Biotechnology	11
15	2/25/15	Exam 2	Unit 2: Microbial & Viral Genetics / Molecular Biology (classes 9-14)
	3/1/15	Winter Break
	3/3/15	Winter Break
16	3/8/15	GH	Microbial Genomics & Ecology	6, 18
17	3/10/15	GH	Microbial Evolution & Systematics	12
18	3/15/15	GH	Microbial Ecosystems	19
19	3/17/15	GH	Bioremediation, Wastewater Treatment & Industrial Applications	21
20	3/22/15	GH	Microbial Symbiosis & Host Microbiome	22; 23.1-23.5
21	3/24/15	Exam 3	Unit 3: Microbial Ecology & Symbiosis (classes 16-20)
22	3/29/15	KS	Immunology	23.6-23.12; 24
23	3/31/15	KS	Immunology (continued)	25, 26
24	4/5/15	KS	Diagnostics, Drugs, and Epidemiology	27, 28
25	4/7/15	KS	Person-to-person, Vectorborne, & Soilborne Bacterial and Viral Diseases	29, 30, 31, 32
26	4/12/15	KS	Water & Foodborne Illness/Eukaryotic Pathogens	29, 30, 31, 32
27	4/14/15	Exam 4	Unit 4: Medical Microbiology & Epidemiology (classes 22-26)