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BI 337 Biochemistry
Royals, Brenda


Mission Statement: Park University provides access to a quality higher education experience that prepares a diverse community of learners to think critically, communicate effectively, demonstrate a global perspective and engage in lifelong learning and service to others.

Vision Statement: Park University, a pioneering institution of higher learning since 1875, will provide leadership in quality, innovative education for a diversity of learners who will excel in their professional and personal service to the global community.

Course

BI 337 Biochemistry

Semester

FA 2011 HO

Faculty

Royals, Brenda R.

Title

Instructor of Biology

Degrees/Certificates

M.S. in Biochemistry and Molecular Biology, LSU Health Sciences Center

Office Location

113A, Science Hall

Office Hours

M 3-4:30; T 8-10:00 & 2-3:00; R 8-10:00 & 3-4:30

Daytime Phone

(816) 584-6592

E-Mail

brenda.royals@park.edu

Semester Dates

August 15, 2011 - December 9, 2011

Class Days

M-W-F

Class Time

11:00-11:50

Prerequisites

CH318 and CH318L and/or the equivalent

Credit Hours

1


Textbook:

 
Biochemistry: A Short Course by Tymoczko, Berg, & Stryer, 1st edition, 2010, WH Freeman & Co. New York, NY (ISBN-13: 978-0-7167-5840-2).

Supplemental handouts for each laboratory exercise will also be provided by the instructor via eCompanion or during class.
 
 

Textbooks can be purchased through the MBS bookstore

Textbooks can be purchased through the Parkville Bookstore

Additional Resources:

More advanced textbooks always contain more detailed information, and some of these are available in the library. Additional information, informational links, suggested readings, and supplemental lab exercises will be presented in class or online as they become available. All official class announcements and outlines will be posted on the E-Companion site (www.parkonline.org).  It is therefore crucial that each student learn how to navigate this important site.  Postings may be in the form of power point, word documents, or excel files.  Each student is responsible for printing notes and outlines that may be provided by the instructor.

McAfee Memorial Library - Online information, links, electronic databases and the Online catalog. Contact the library for further assistance via email or at 800-270-4347.
Career Counseling - The Career Development Center (CDC) provides services for all stages of career development.  The mission of the CDC is to provide the career planning tools to ensure a lifetime of career success.
Park Helpdesk - If you have forgotten your OPEN ID or Password, or need assistance with your PirateMail account, please email helpdesk@park.edu or call 800-927-3024
Resources for Current Students - A great place to look for all kinds of information http://www.park.edu/Current/.


Course Description:

BI337
(CH337) Biochemistry: Biochemical systems and the relation of chemical structure to biochemical function are discussed. Prerequisites: CH318 and CH318L 3:0:3

      
This is a co-requisite laboratory course to accompany the biochemistry lecture. This course is designed for both biology and chemistry majors.  
 

Educational Philosophy:

 
Learning is an active and interactive process.  Ideally, it would best be promoted by a cobitnation of questioning and feedback involving each student.  Thus, I like to teach in ways to try and reach all types of students with their diverse learning styles and do my best to provide a constructive learning environment.  I like to enourage students to set high learning expectations, thus classroom attendance and participation are necessary for achievement of this goal.   

Materials learned in the lecture portion of the course will be applied in the laboratory exercises. It is therefore crucial that students attend and participate in each laboratory session.  Hands-on laboratory work will expand and reinforce many of the major concepts from lecture so that you remember them in your future career settings.
      
 
I have an open door policy and I encourage students to come by my office any time they have questions or feel they need additional help. I am here to help you in any way that I can.
 
 
      

Learning Outcomes:
  Core Learning Outcomes

  1. Deduce how structure and function relate in biological molecules.
  2. Discuss the flow of mass, energy and information in a cell in terms of biochemical pathways.
  3. Discuss the flow of mass, energy and information in a cell in terms of biochemical pathways.
  4. Compare biochemical pathways in prokaryotic and eukaryotic systems


Core Assessment:

Create a review paper in the style of Annual Reviews in Biochemistry covering one biochemical or intercellular signaling pathway in a cell or cells. This paper should be at least 10 pages in length (using the attached Instructions to Authors) excluding figures and references. Information covered should include: 

1. Step-by-step illustration of the biochemical or intercellular signaling pathway (CLO 1, 2).

2. Discussion of the general flows of the pathway (flow of information, flow of mass, flow of energy) and the logic underlying the pathway (why does this arrangement work well?) (CLO 1,2, 3).

3. Indication of key regulatory steps in the pathway and explanation of why this is a logical regulatory step (CLO 1, 2, 4).

4. Indication of how this pathway relates to the central metabolic pathway (glycolysis, TCA cycle, electron transport chain, oxidative phosphorylation) (CLO 2).

5. Discuss the commonalities and differences exhibited in this pathway in prokaryotes and eukaryotes (CLO 4).

6. What diseases or disease states are associated with defects in this pathway? If there is no literature, predict what would happen (indicate your rationale) (CLO 1, 2, 4).

7. Discuss how the disease states in 6 are differentially expressed in human populations (is there a difference in disease effect or prevalence based on age, sex, geographic location, environmental factors, ancestral origin, race…etc). What are the bases of these differences? If there appears to be no difference in disease effect or prevalence, discuss why.

8. Discuss methods used to combat the disease or approaches that are planned. How do/will these work?

 

 


Link to Class Rubric

Class Assessment:

  
In general, class assessment will occur by homework, quizzes, hour exams, final exam, and a term paper. 
The final exam will be 50% new material and 50% comprehensive.
The term paper is described above in the core assesment and will be discussed thoroughly in class.

Grading:

Class Assessment:

4 Exams (100 pts)                    400 points

Final Exam                               150 points

Homework/Quizzes                   75 points

Review Paper                           175 points

                                                 800 points

There will be 4 major lecture examinations worth 100 points each (400 total points). Exams will contain short answer, matching, multiple-choice, and a few discussion questions. Homework and announced quizzes will provide an additional 75 points of the final grade. The final exam will be worth 150 points.   And finally, the review paper will be worth 175 points for a total of 800 total points possible.  

     
 

Grading:

 
A traditional grading scale will be followed with: 90% or greater being an A, 80% or greater being a B, 70% or greater for a C, 60% or greater for a D, and less than 60% being an F.  Your cumulative percentage in the class is simply your accumulated points divided by the total points possible and then multiplied by 100%. 

Late Submission of Course Materials:

Late assignments WILL NOT be accepted after the stated deadline, except under the most severe of extenuating circumstances.  Any such emergency must have provided documentation which will then be judged by the instructor as to its acceptability. Late homework and assignments (including lab notebooks when called in for review or lab projects with a dated deadline) will be reduced in credit by 25% for each day that the work is late. Students missing class due to participation in athletic or other university-sponsored events must turn in all due assignments PRIOR to their expected absence (see below).
 
No makeup exams or quizzes will be given unless proper documentation of the reason for the absence is provided.  Only SERIOUS incidences will even be considered.  Make up exams will be given only at the instructors discretion. 

Classroom Rules of Conduct:

All students are expected to follow the common rules of acceptable and courteous behavior while in class, illustrating respect for each other and the instructor.  Any disruptive behavior will not be allowed.
 
Cell phones and pagers must be turned off or put on silent mode prior to entering the classroom.  Text messaging during class will result in immediate dismissal.

         

Course Topic/Dates/Assignments:

            

Tentative Schedule
(Subject to changes made by the instructor.) 
 

Date

Topic

Chapters Covered

Week of 8/15

Introduction, Bonds, Amino Acids

1, 2, 3

Week of 8/22

Carbohydrates, Lipids, Protein Structure

9, 10, 4

Week of 8/29

Enzymes – Action/ Regulation/ Mechanisms & Inhibitors

5, 6, 7

Week of 9/5

Labor Day Holiday, Enzymes – Mechanisms & Inhibitors, Allosteric Proteins

7, 8

Week of 9/12

EXAM I,  Membrane Structure & Function

11   (EI – 1-5, 9, 10)

Week of 9/19

Signal Transduction, Introduction to Metabolism

12, 14

Week of 9/26

Digestion, Glycolysis I

13, 15

Week of 10/3

Glycolysis II, EXAM II

15   (EII – 6-8, 11, 12)

Week of 10/10

FALL BREAK – NO CLASSES

-

Week of 10/17

Gluconeogenesis, Preparation for the Citric Acid Cycle

16, 17

Week of 10/24

Citric Acid Cycle II, Electron Transport Chain

18, 19

Week of 10/31

EXAM III, Oxidative Phosphorylation

20    (EIII – 13-18)

Week of 11/7

Glycogen Degradation/Synthesis, Glucose homeostasis & Disease

23, 24
Supplemental

Week of 11/14

Lipid/Fatty Acid Degradation, Lipid/Fatty Acid Synthesis

26, 27

Week of 11/21

EXAM IV,  Lipid Storage

28 
(EIV – 19,20,23,24,26)

Week of 11/28

Lipid Storage, Molecular Biology Overview

28, TBA

ALL TERM PAPERS DUE BY 12/02/10 at the end of class

Week of 12/5

FINAL EXAMS - TBA

Academic Honesty:
Academic integrity is the foundation of the academic community. Because each student has the primary responsibility for being academically honest, students are advised to read and understand all sections of this policy relating to standards of conduct and academic life. Park University students and faculty members are encouraged to take advantage of the University resources available for learning about academic honesty (www.park.edu/current or http://www.park.edu/faculty/).from Park University 2011-2012 Undergraduate Catalog Page 93
       Please do not share or copy answers for any assignment, including lab write-ups, exam answers, and lab projects. Students should never copy verbatim from books, manuals, or internet sources (see below). Do not  copy from someone else's exam paper or whisper answers to each other during exams. (Both students will receive a 0 for that exam.)

Plagiarism:
Plagiarism involves the use of quotations without quotation marks, the use of quotations without indication of the source, the use of another's idea without acknowledging the source, the submission of a paper, laboratory report, project, or class assignment (any portion of such) prepared by another person, or incorrect paraphrasing. from Park University 2011-2012 Undergraduate Catalog Page 93
PLEASE be careful not to plagiarize; we have several programs that will easily detect such behavior within the patterns of your written work.

Attendance Policy:
Instructors are required to maintain attendance records and to report absences via the online attendance reporting system.

  1. The instructor may excuse absences for valid reasons, but missed work must be made up within the semester/term of enrollment.
  2. Work missed through unexcused absences must also be made up within the semester/term of enrollment, but unexcused absences may carry further penalties.
  3. In the event of two consecutive weeks of unexcused absences in a semester/term of enrollment, the student will be administratively withdrawn, resulting in a grade of "F".
  4. A "Contract for Incomplete" will not be issued to a student who has unexcused or excessive absences recorded for a course.
  5. Students receiving Military Tuition Assistance or Veterans Administration educational benefits must not exceed three unexcused absences in the semester/term of enrollment. Excessive absences will be reported to the appropriate agency and may result in a monetary penalty to the student.
  6. Report of a "F" grade (attendance or academic) resulting from excessive absence for those students who are receiving financial assistance from agencies not mentioned in item 5 above will be reported to the appropriate agency.

Park University 2011-2012 Undergraduate Catalog Page 96
It is MANDATORY that you attend all class meetings and all scheduled laboratories. Part of a university education is preparation for professional conduct in your future life. Attendance at work or graduate/professional school is mandatory -- if you wish to remain employed or enrolled.
     In addition, education is a cooperative effort, and you are as responsible for furthering the education of your fellow classmates and the instructor as the instructor is for educating you. Get in the habit of being here on time, for this is a behavior you will need to cultivate if you wish to succeed.

   Be advised that a student is always responsible for any class material, whether they are present during a particular class session -- or not. It is the responsibility of the student to obtain notes and any notice of assignments due or announcements made on their own.

    There are NO EXCUSED ABSENCES in this course for any reason (medical, personal, job-related, mechanical failure, death in the family, death of a beloved pet, death of ambition, and so forth). However, since personal emergencies may nonetheless occur during the semester, your first four (4) absences (lecture and/or lab) are free and will draw you no penalty.
    HOWEVER, with each additional absence past the first four, 5% will be deducted from the student's final overall grade for the course. Furthermore, eight (8) absences in a twice-a-week semester class is an excessive number, and you will automatically be given an F after you miss eight (8) lecture or lab sessions (for ANY reason).

   TARDINESS or LEAVING:  Quizzes are typically given within the first 10 minutes or the last 10 minutes of class. If you miss them, these can never be made up. Some quizzes are “bonus” – meaning that you can actually gain extra points by knowing something; other quizzes are evaluative – meaning that you will lose points if you don't know all the answers.

     EXCEPTION FOR SCHOOL ACTIVITIES:  Athletes who miss class for an athletic event or contest or students who miss class due to  other school sponsored events will not be penalized IF AND ONLY IF the instructor is GIVEN WRITTEN NOTICE ONE WEEK IN ADVANCE -- and -- BOTH WORK ASSIGNMENTS AND EXAMS ARE TAKEN BEFORE ACTUAL ABSENCE!

Disability Guidelines:
Park University is committed to meeting the needs of all students that meet the criteria for special assistance. These guidelines are designed to supply directions to students concerning the information necessary to accomplish this goal. It is Park University's policy to comply fully with federal and state law, including Section 504 of the Rehabilitation Act of 1973 and the Americans with Disabilities Act of 1990, regarding students with disabilities. In the case of any inconsistency between these guidelines and federal and/or state law, the provisions of the law will apply. Additional information concerning Park University's policies and procedures related to disability can be found on the Park University web page: http://www.park.edu/disability .
Although you have the right to keep all conditions private, my desire is to help anyone who has any sort of trouble taking the class. If you come and talk with me about known problems, we can make certain that you are getting the help you deserve.



Rubric

CompetencyExceeds Expectation (3)Meets Expectation (2)Does Not Meet Expectation (1)No Evidence (0)
Synthesis                                                                                                                                                                                                                                                  
Outcomes
1,2,3                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
Uses 7 or more sources Uses 4 to 6 sources Uses 3 to 5 sources Uses fewer than 3 sources 
Analysis                                                                                                                                                                                                                                                   
Outcomes
1,2,3,4                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
Identifies and analyzes 7 or more of the items in the assignment Identifies and analyzes 4 to 6 of the items in the assignment Identifies and analyzes 3 to 5 of the items in the assignment Identifies and analyzes fewer than 3 of the items in the assignment 
Evaluation                                                                                                                                                                                                                                                 
Outcomes
1,2,3,4                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
Assesses the outcomes of 7 or more of the assignment items Assesses the outcomes of 4 to 6 of the assignment items Assesses the outcomes of 3 to 5 of the assignment items Assesses the outcomes of  fewer than 3 of the assignment items 
Terminology                                                                                                                                                                                                                                                
Outcomes
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
No factual errors 1 to 2 factual errors 3 to 4 factual errors 5 or more factual errors 
Concepts                                                                                                                                                                                                                                                   
Outcomes
1,2,3,4                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
Demonstrates mastery of 7 or more of the assignment items Demonstrates mastery of 4 to 6 of the assignment items Demonstrates mastery of 3 to 5 of the assignment items Demonstrates mastery of fewer than 3 of the assignment items 
Application                                                                                                                                                                                                                                                
Outcomes
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
Effectively incorporates 7 or more sources to support thesis Effectively incorporates 4 to 6 sources to support thesis Effectively incorporates 3 to 5 sources to support thesis Effectively incorporates fewer than 3 sources to support thesis 
Whole Artifact                                                                                                                                                                                                                                             
Outcomes
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
No errors in writing conventions 1 to 3 errors in writing conventions 4 to 6 errors in writing conventions 7 or more errors in writing conventions 
Component                                                                                                                                                                                                                                                  
Outcomes
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
Contains no errors in the following paper format items: -Annual Review of Biochemistry format –Length -Page numbers -Works cited -Internal documentation





 
Contains only 1 error in the following paper format items: -Annual Review of Biochemistry format –Length -Page numbers -Works cited -Internal documentation





 
Contains 2 to 3 errors in the following paper format items: -Annual Review of Biochemistry format –Length -Page numbers -Works cited -Internal documentation Contains 4 or more errors in the following paper format items: -Annual Review of Biochemistry format –Length -Page numbers -Works cited -Internal documentation 
Relationship                                                                                                                                                                                                                                               
Outcomes
1,2,4                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
Exhibits an awareness and concern for contemporary items Exhibits an awareness or concern for contemporary items Exhibits some awareness and concern for contemporary items Exhibits no awareness or concern for contemporary items 

Copyright:

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Last Updated:8/11/2011 1:18:09 PM