Biochemistry II
Chemistry 332
(CRN 588)
Class, Test Schedule |
(Room: PSci 229 - M,W,F 9-9:50 AM) |
Spring, 2011 |
Instructor: Dr. Terry L. Helser |
Office: PS 227 |
Phone: 607-436-3518 |
E-mail To: HELSERTL@oneonta.edu.
Text: Biochemistry, 4th Ed., 2009, Trudy & James
R. McKee (Oxford University Press)
Catalog Description: This course is the second
part in a two semester biochemistry sequence. It focuses on anabolism and the
macromolecular basis of heredity, and thus of life itself. You will study
the structure of proteins and especially nucleic acids, but the major emphasis
is on information flow and its regulation from DNA to RNA to protein and beyond. We
will cover microbial genetics, DNA, RNA, and protein synthesis, recombinant DNA,
chromatin structure, gene arrangement, the immune system, and more. The course
will provide you with the background needed to understand, and participate in,
the exciting developments in genetic technology. Whenever possible
topics of current research interest are discussed. (LA) Prerequisite: Introductory
Biochemsistry, CHEM
330.
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schedule , the lab grading information, and the general
informationon
lab operation. Study guides are linked to the reading assignments.
Month & Days |
Study Topic |
Reading Assignment |
|
I. Anabolism |
Ch. 2, 4 |
January 19, 21 |
Introduction, Co-op Class Review
|
Ch. 12 |
24, 26, 28 |
Photosynthesis, Calvin (Dark) Cycle |
Ch. 13 |
31, 2, 4 |
Amino Acid Biosynthesis |
Ch. 14 |
|
Amino Acid Degradation |
Ch. 13, p. 392ff |
14, 16, 18 |
Nucleotide Biosynthesis |
|
16 |
Exam I (Wednesday, PSci room 229, 9 AM) |
Ch. 15 |
February 21-25 |
Spring Break - No Classes
|
|
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Month & Days |
II. Gene Expression
|
Reading Assignment |
February 28, 2, 4 |
Integration of Metabolism |
Ch. 16 |
March 7, 9, 11 |
DNA Replication |
|
14, 16, 18 |
Mutations |
Ch. 17 |
21, 23, 25 |
Transcription (RNA Synthesis, Splicing) |
Ch. 18 |
28, 30 |
Translation (Protein Synthesis) |
Ch. 18 |
April 1 |
Exam II (Friday, PSci room 229, 9 AM) |
|
4, 6, 8 |
Control of Gene Expression |
Ch. 17, p. 515 |
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Month & Days |
III. Genetic Regulation
|
Reading Assignment |
April 13, 15 |
Control of Gene Expression |
Ch. 17, p. 515 |
April 18-25 |
Spring Break - No Classes |
|
27, 29 |
Carcinogenesis
|
T.B.A. |
May 2, 4, 6 |
Student Presentations
|
|
9, 11 |
Review |
|
May 16 |
Final Exam (Wednesday, PSci room 229,
|
8-10:30 AM) |
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Grading
Hourly Exams |
2 x 100 pts. = 200 pts. |
Scale: 90-100% A |
Final Exam |
200 pts. |
80-89% B |
Lab Research Paper |
100 pts. |
70-79% C |
Laboratory Evaluations |
200 pts. |
60-69% D |
|
Total: 700 pts. |
0-59% E |
You may earn up to 35 points for extra credit problem sets given throughout
the semester. Tests have 10% more points than listed so I can challenge
the best.
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Laboratory Schedule (Room:
PSci 205 - Monday 2-6 pm) Spring 2011
Required Materials: Graph Ruled Lab Notebook, Safety Goggles
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part of the lab schedule, lab grading procedures or general
information
on lab time management from here.
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Month & Days |
Laboratory Topic |
Evaluation (Due Date) |
March 7 |
Snow Day, lab canceled
|
2-Proposal (3/4) |
14
|
#2 Photosynthesis Report #2 & #3 DNA Analysis
|
2-Oral Rpt., Final 3/25
|
21 |
Report #2 & #3 DNA Analysis |
3-Proposal (3/25) |
28
|
- #3 DNA Analysis
|
3-Proposal (4/1) |
April 4
|
#3 DNA Analysis
|
3-Oral Rtp., |
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Month & Days |
Laboratory Topic |
Evaluation (Due Date) |
April 11 |
#3 DNA P&F Reports & #4 Gene Regulation |
4-Final Rpt. (4/15) |
April 18 & 25
|
Break - No Lab
|
4-Proposal (4/29) |
May 2 |
#4 DNA Analysis |
4-Proposal (5/6) |
9 |
#4 DNA Analysis
|
|
11
|
(Check Out) Review |
4-Oral Rpt., Final 5/14 |
May 16
|
Final Exam (Wednesday, PSci room 228,
|
8-10:30 AM) |
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Grading Policies:
Your point total will be divided by the total possible for a % of 200 points.
The final report for which you were primary author is worth a maximum of
100 points of your total grade.
Final reports must be typed, spaced >1.5 lines, and signed by all
group members. They must contain an objective, introduction, procedure
(flow diagram), safety notes, results (an essay w/ tables, plots), and
discussion/conclusion sections. The weekly proposals, with objective, equipment
and reagents needed, procedure (flow diagram) and safety notes, which proves
you are prepared to do each experiment safely, must be accepted
by your instructor before you will be allowed to do the lab ( submit
on email no later than the Wednesday before the lab). One point
/day will be subtracted for reports submitted after due dates.
Oral reports are awarded 100 points,
of which 80% is for the group's presentation and 20% for the individual's
stage presence, poise and participation. Generally, the score is an average
of the peer evaluations from other teams and the instructor's. Copies of
the printed grading form are available in the laboratory.
Lab notebooks may be collected at the instructor's whim.
Please note: You are to use your notebook to prepare for each
lab with suitable notes on procedures, flow charts, tables for data,
etc.; to make notes and take data during the lab; and to do calculations
and write your results and conclusions after the lab. Each of
these parts will be evaluated.
Attendance:
You must be credited as the major author of at least 1 lab report and score
60% on lab evaluations to pass the course. If you miss more than 1/3 of
the labs, you will earn an E for the course, no matter what your
test scores total. Plagiarism (see your Handbook ) will not
be tolerated. College and departmental policies apply to this course.
Safety:
Approved clothing and safety goggles must be worn when any
experimental work is occurring. Doing unauthorized experiments or procedures
is prohibited. If in doubt, ask the instructor. All accidents involving
personal injury, however minor, must be reported immediately to the instructor.
The instructor has the right to expel anyone from the laboratory without
credit for unsafe or offensive behavior or dress.
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Biochemistry II, Chemistry
332-01 Lab Information
1st Week, Monday lab:
-
Oral (group) report from prior project in 1st hour.
-
Receive and study the next project. Groups work on the procedures
and techniques they will need, including doing trials with known materials.
-
Last 1/2 hour, teams do oral brainstorming on how they will attack
the problem. Turn in requests for materials, equipment needed.
-
On Thursday, submit the group's proposal for the problem
(objective (why), materials and equipment needed, procedure, flow
chart (how), safety and how to handle data) by e-mail. Must
be accepted by management before you can do the lab! - 1 point/day off
project total for late or inadequate proposals.
-
On Friday, turn in typed, final report on any prior project.
Clearly state the primary author.
2nd Week:
-
On Monday: Do the experimental work in the laboratory. Turn in notebooks
at end of lab, if requested.
-
Provide group with progress reports about the project at end of
lab, if requested.
-
On Thursday, submit the group's proposal for the next week's
lab (objective (why), progress made last week (data, graphs, conclusions), and procedure, flow chart (how), safety and how to handle data), if needed, by e-mail. Must be accepted by management before
you can do the lab! - 1 point/day off project total for late or inadequate
proposals.
Week after experiments are done:
-
On Monday, give oral report on results
(peer groups and instructor evaluations averaged = 100 points. Both individual
and group contributions evaluated). Use feedback from forms and other team
reports to produce a final, group report.
-
On the following Friday, turn in typed, final report on project
(each member of the group signs it to indicate they have read it and accept
responsibility and credit for the work = 100 points). Clearly state the
primary author of the report. Spelling and grammar will be evaluated along
with content.
Grading:
Oral (group) report = 100 points
Group's proposal; Emailed by Mon. = 10 points
Final reports = 100 points
Notebook, Quiz = 10 points each
- 1 point/day late off project total = % of 200 points
total
Final reports earn up to 100 points for the primary
author out of the 300 point total for the lab part of the course. S/he
must
be clearly identified on the first page, and each member must be
the primary author on at least one final report. A separate grade may
be given for the primary author's work.
If you must miss a class, lab or group meeting, you must inform your
group and instructor. Your group should decide how you can repay your responsibilities
to the group. Options might be to do extra library research, proposal or
report writing, computer searches or whatever the group decides is adequate
repayment for the loss of your participation. If the group decides your
excuse was not valid, they may consider a loss of credit as appropriate
punishment, and should so inform you and the instructor.
Team members who fail to participate adequately with their team may
be fired, and justification must be provided to them and the instructor.
The member must then find a new team to hire him/her or do the projects
on their own, including all reports and proposals.
Penalties, generally -1 point a day for group reports which are late,
will be assessed against the primary author of that report, not the rest
of the group members, if requested by the group in writing or by email.
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If you have questions or comments, write the:
Author of this page: Terry Helser - helsertl@oneonta.edu
Web Coordinator: Philip S. Bidwell - bidwelps@oneonta.edu
Or return to the SUNY @ Oneonta Home
Page to see where we live and work.
Last Modified on 3/9/2011
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