Biology 2112: Introduction to Biology - Fall 2013 Policies and Syllabus
Instructors:
Lab Coordinator:
Dr. Richard Waring and Dr. Rhonda Nicholson
Dr. Daniel Spaeth
Office Hours:
For Rhonda Nicholson: (Biology, Rm 402B, 204-9547; email: rnichol@temple.edu): WF 10:0011:30 or by appointment.
For Dr. Richard Waring: (Biology, Rm 307, 204-8877; email: waring@temple.edu): WF 10:0011:30 or by appointment. Dr. Waring's web page can be found at http://unix.temple.edu/~waring/.
Please direct all questions about the lab to your lab instructor or see Dr. Dan Spaeth (Biology, Rm
248Q (inner hall across from the Biology Office), 204-6722; email: daniel.spaeth@temple.edu).
Further contact information for laboratory instructors will be provided on Blackboard (Bb).
Any student who has a need for accommodation based on the impact of a disability should contact
either instructor privately to discuss the specific situation as soon as possible. Contact Disability
Resources and Services at 215-204-1280. New rules at the DRS require advanced notice by several
days for exam accommodations. It is the responsibility of the student (with the lecture instructor’s
assistance) to adhere to the DRS schedule for registration and paperwork when requesting an exam
accommodation. All requests for accommodations must be communicated to lab coordinator as well.
IMPORTANT: It is necessary for this course that you obtain AccessNet and Temple email
accounts (Obtain these by going to http://www.temple.edu/cs. You can also visit the Computer
Services Help Desk, Rm 106, TECH Center, 12th St. & Montgomery Ave. Call 204-8000 for more
information). Without an AccessNet account you will not be able to access the Blackboard site for
this course. Access to this site will be explained to you at the start of the course. Exam scores are
posted through the Blackboard site. Blackboard will also be used to post all the announcements
pertinent to the course and the Lab.
Text
Excerpts from Campbell Biology by Reece, Jane B et al., 2011, Ninth Edition. Benjamin /
Cummings Publishing Co., Inc., California. Available in the Bookstore as 3 options (A) the textbook
with a Mastering Biology Access Code; (B) as a package which includes (1) Campbell Biology in
three-hole punched, unbound format (2) Mastering Biology Code); (3) Morgan/Carter Customized Lab
Manual. Item (3) is only required for the partner Introduction to Biology course, 1111. (C)
Mastering Biology Access Code (comes with e-version of the textbook which is accessible for 2
years); Mastering Biology provides access to web based support material including test exercises.
Course Design:
The first seven weeks of this course will be taught by Dr. Nicholson. The second seven weeks will
be taught by Dr. Waring. Dr. Nicholson will provide an introduction to the basic chemical and
biochemical principles underlying biology. Topics include energy, solubility, macromolecules,
enzymes, cells, the functions and properties of membranes, metabolism and photosynthesis. Dr.
Waring will concentrate on cell communication and division, viruses, genes, DNA replication,
transcription, and translation. He will also discuss basic genetic concepts and introduce topics
concerning gene expression.
You should read all the chapters listed. However certain subtopics (usually 1 to 2 page sections,
especially in chps. 11, 13, 17, 18 & 19) will not be covered in the exams: these will be pointed out to
you during lectures. Problems suggested in Dr. Nicholson’s study guides will be used in modified
form on exams. Dr. Nicholson’s study guides will be posted with the associated lectures on
Blackboard. You should complete each study guide within a few days of the associated lecture.
Solutions to quantitative study guide questions will be posted with the study guide on Blackboard.
During the second half of the semester, Dr. Waring will give two assignments relating to chapter
17 – these will count towards your lab grade. You will have one full week to do them and you should
hand them in to your lab instructor in your lab session the following week. Assignment Details are
available in lab.
You are advised, ideally to read ahead, preferably to review current material between lectures, and
minimally to keep up with the course. Previous students have stated that it is very difficult to catch up
on missed materials especially because current lectures (and a Biology major in general) build on
previous topics. There is too much material to cover in the week before an exam.
It is your responsibility to acquire copies of assignments or "electronic" handouts on the
Blackboard site. It is also your responsibility to acquire copies of lecture notes from someone in the
class if you cannot attend class.
We strongly discourage incompletes. However, if you must take an incomplete you need to have
taken the first four lecture exams, be passing the course, have attended all the labs and submitted most
of your lab assignments and reports. To receive an incomplete you need to fill out a form that is
available in the Biology Department Office and have it signed by Dr. Waring or Dr. Nicholson. It is
very important that you also inform Dr. Spaeth if you are taking an incomplete. Your incomplete must
be made up by the end of the following Fall semester; however if you failed to complete only the final
exam, you must take the make-up exam in the following Spring semester as described below with
grade calculations. Failure to make up an incomplete within the designated time limit will result in
your being given a zero for the work that you did not complete.
The prerequisites for this course are successful completion of Chem 1031(C or better) and
Chem1032 (C or better) or equivalent. You must also, either be enrolled in, or have passed Chem
2201, Organic Chemistry (C- or better). You should be able to use logarithms, exponentials and do
simple algebra (Note that Math 1041 and 1042 are required for the Biology and Biochemistry majors
(see undergraduate bulletin). You do not need Bio 1111 to take Bio 2112. These two courses can be
taken in any order. However, you must receive a C or better in both Bio 1111 and Bio 2112 before
you will be allowed to take Bio 2203 (Genetics) and Bio 3096 (Cell Structure and Function).
Last day to drop (tuition refund available): Monday, September 9th.
Last day to withdraw (no refund): Tuesday, October 22nd. Students who have previously
withdrawn from the same course may not withdraw. Those who have already withdrawn from several
other courses should check their eligibility to withdraw.
With regard to repeating courses, a W grade counts as one attempt at a course. The same course
may not be repeated more than once without permission of a CST and a departmental advisor. No
course may be repeated more than twice. See the undergraduate bulletin for further information.
Dates for Exams:
Exams given by Dr. Nicholson :
Exam I:
Friday September 20
Exam II:
Friday October 4
Exam III:
Friday, October 18
Exams given by Dr. Waring:
Exam VI:
Monday November 4
Final Exam given by Dr. Waring will be according to Temple’s exam schedule
Calculation of grade
Exam I
Exam II
Exam III
Exam IV
Final
Labs
13%
13%
13%
10%
26%
25%
All the grades will be posted on the blackboard site. Using your blackboard account you will be
able to access them as soon as they are entered into the system.
Exams are closed book. Giving or receiving information during an exam is a violation of the
Temple University Student Code and will result, at a minimum, in a Failing grade. No programmable
calculators will be permitted. Translators are not permitted. The use of cell phones will not be
permitted in exams (or during lectures).
In both Dr. Nicholson’s and Dr. Waring’s parts of the course, you will be examined primarily on
material covered in both the textbook and the lectures and on topics which were discussed in depth in
lectures but not in the textbook. Questions may include material you were specifically directed to read
in order to cover sections only summarized in the lecture. Dr. Nicholson will administer examinations
1-3. The format of examinations 1-3 will be multiple choice, short answer, and computation. Dr.
Waring will administer examination 4 (multiple choice) and the final examination. The final exam
will contain a variety of styles of questions including problems, short paragraph and multiple choice
questions.
Examinations will not be returned to you. Examination scores will be posted on Blackboard. You
are welcome to review your test during office hours or by appointment. All queries concerning the
grading of midterm exams must be presented no later than two weeks after scores are posted on
Blackboard. All queries concerning the grading of the final exam must be directed to Dr. Waring in
writing no later than two weeks after the start of the following spring semester. Dr. Nicholson is
the final arbiter for the first three midterms and Dr. Waring for the last midterm and final exam.
Tests must be taken during their scheduled time. If you are absent from an examination due to a
medical emergency, a letter explaining the circumstances, signed and dated by a physician (unrelated
to the student), must be submitted to Dr. Nicholson/ Dr. Waring as soon as it is reasonably possible. If
you miss an examination and the appropriate instructor is not notified within 72 hours, you will
receive a zero for that examination. A make-up examination will only be administered in the event that
proper documentation is provided to Dr. Nicholson/ Dr. Waring. If you miss exam 4 for an acceptable
reason, you will receive a weighted average of all the other exams. If you miss the final, you must
take a make-up exam by the end of the third week of the following semester. All make-ups are at the
discretion of the lecture instructor.
Academic Code of Conduct
Although you will conduct lab experiments with a group of people, and discuss your results with
them, the interpretation and conclusion with supporting argument should be your work, your thoughts,
in your own words. All individual assignments in lab are checked for plagiarism using the on- line
Safe Assign service available through Blackboard.
Review the Temple University Policy on Plagiarism and Academic Cheating:
http://www.temple.edu/bulletin/Responsibilities_rights/responsibilities/responsibilities.shtm
You are responsible for following this policy for all assignments, tests and exams; students who do not
will be penalized. The penalty will vary with the nature of the offense, and will involve, as necessary,
the lab coordinator and lecture instructors, the department, and the college.
Fall 2013, Biology 2112 Lab Syllabus
Overview of schedule of labs and lab manual chapters.
For details of lab exercises and assignments see lab syllabus
Lab
Date
Protocol
Lab Subject and Chapter
No labs week of 8/26 (first week of the Fall semester) No labs Labor Day Monday (9/2)
1
2
9/2
Y
Introduction, Safety & Measurement
(Intro to graphing and data presentation on the computer)
Note canceled Monday labs must be made up during the first week in another lab section.
9/9
Y
Dilutions & Spectrophotometer Techniques
Last day to drop class Monday September 9th
3
9/16
Y
pH and Buffers
4
9/23
Y
Organic Molecules (Enzyme Protocol write-up)
5
9/30
N
Computer lab part 1 with RasMol (part 2 done outside of lab)
6
10/7
Y
Enzyme Action
7
10/14
Y
Photosynthesis
8
10/21
Y
Cells (microscope and measurement)
Tuesday October 22nd is last day to withdraw
9
10/28
Y
DNA (I) Purification
10
11/4
Y
DNA (II) Analysis
11
11/11
Y
DNA (III) – Mitosis, Meiosis & Mendel
12
11/18
No labs 11/25
Final Lab Exam / Administration
THANKSGIVING WEEK
NOTE: Students in labs that meet Monday (9/2) are required to attend a lab later in the week.
The letter Y in the Protocol column indicates that that a written protocol is required.
INTRODUCTION TO BIOLOGY 2112 FALL 2013
MWF 9:00 – 9:50 Anderson 17
Instructors: Richard Waring & Rhonda Nicholson
Lab Coordinator: Daniel Spaeth
Class
Lecture
1
2
3
1
2
3
4
4
5
5
6
6
7
7
8
8
9
9
10
11
12
10
13
14
15
11
12
13
16
14
17
18
19
15
16
20
17
21
18
22
23
19
Date
Topic
First Part by Dr. Nicholson
Aug. 26
W 28
F 30
6 M Sep. 2
W4
Introduction , Chemical Bonds
Properties of Water I
Properties of Water II
Labor day - No Class
Carbon Chemistry
(Functional Groups)
F 6 Macromolecules I
(Carbohydrates and Lipids)
M Sep. 9 Macromolecules II (Proteins)
W 11 Macromolecules III
(Nucleic Acids)
F 13 Thermodynamics I
(Laws of Thermodynamics)
M Sep. 16 Thermodynamics II
(Energy and Enzymes)
W 18 Neida Perez Guest Lecture
F 20 Exam I (Lectures 1-9)
M Sep. 23 Enzyme Kinetics I
W 25 Enzyme Kinetics II
F 27 pH and Buffers
M 30 Cells I (Endomembrane System)
Oct. W 2 Cells II (Cytoskeleton and
Extracellular Matrix)
F 4 Exam II (Lectures 10-14)
M Oct. 7 Membranes
W 9 Cellular Respiration I
Glycolysis and the Citric Acid
Cycle)
F 11 Cellular Respiration II
(Oxidative phosphorylation)
M Oct. 14 Photosynthesis I
W 16 Photosynthesis II
F 18 Exam III (Lectures 15-19)
Chapter Lab Schedule
2
3
3
No labs
No labs
No labs
4
Lab 1: Safety &
Measurement
Lab 1
5
5
5*
Lab 2: Spectrophotometer
Lab 2
8*
Lab 2
8*
Lab 3: pH & buffers
6
Lab 3
Lab 3
Lab 4: Organic
molecules
Lab 4
Lab 4
Lab 5: Computer labs
Macromolecules
Lab 5
7
9
Lab 5
Lab 6: Enzyme action
Lab 6
9
Lab 6
10
Lab 7: Photosynthesis
10
Lab 7
Lab 7
*
*
*
6
Second Part by Dr. Waring
Cell communication (pp 206217; 219-220; 223-225)
Cell cycle & cell division (pp
228-237; 242-243)
DNA replication (pp 305-312)
DNA replication (misc. pp 312318; 320-322)
24
20
M Oct. 21
25
21
W 23
26
27
22
23
F 25
M 28
28
29
30
24
25
31
26
32
33
27
28
F 8 Gene organization; Mutations
M Nov. 11 Sexual life cycle; Meiosis
17
13
34
35
36
29
30
31
W 13 Meiosis
F 15 Mendelian genetics
M Nov. 18 Mendelian genetics
13
14
14
37
32
15
38
39
40
33
34
35
W 20 Chromosomes; Sex linkage
(286-91; 297-300)
F 22 Viruses
M Nov. 25 Viruses
W 27 Prokaryote gene expression (pp
351-355)
F Nov. 29 Thanksgiving Break-No class
M Dec. 2 Eukaryotic gene expression (pp
356-59; 360-69 misc.)
W 4 Cancer (pp 373-377) & Review
F 6 Study Day – Tentative Review
Session
W Dec. 11 Final Exam 8.00 – 10.00am
(Chp. 17, 13, 14, 15, 18, 19)
Lab 10
Lab 11: Mitosis &
Meiosis
Lab 11
Lab 11
Lab 12:
Final Review
Lab 12
19
19
18
Lab 12
No Labs
No Labs
18
No Labs
No Labs
18
No Labs
41
36
42
37
W Oct. 30 Genes
F Nov. 1 Transcription
M Nov. 4 Exam IV (Chp. 11, 12 & 16)
W 6 Protein synthesis
11
12
16
16
17
17
17
* Supplementary notes for lectures 7 -12 will be provided on Blackboard.
Lab 8:
Cells
Lab 8
Lab 8
Lab 9:
DNA Part I
Extraction
Lab 9
Lab 9
Lab 10:
DNA Part II Analysis
Lab 10