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BIOLOGY 1A: COURSE SYLLABUS

Fall 2009

Faculty: Dr. Malkin and Dr. Fischer are from the Department of Plant and Microbial Biology.
Dr. Forte is from the Department of Molecular and Cell Biology. The faculty will hold office
hours (while they are lecturing) as follows:
Held in 2084 VLSB
BY APPOINTMENT
Richard Malkin MTWF 9-10
2-5959, 421C Koshland, dickm@nature.berkeley.edu.
John Forte
MWF 9-10
2-1544, 241 LSA, jforte@berkeley.edu
http://biology.berkeley.edu/bio1a

Robert Fischer

MWF 9-10

2-1314, 231A Koshland, rfischer@ berkeley.edu.


http://epmb.berkeley.edu:8080/facPage/dispFP.php?I=8.

Course Coordinator: Mike Meighan. 2-4110, 2088 VLSB, mailbox in 2084 VLSB (and another
one in the hall outside 2088 VLSB), e-mail is {mmeighan@berkeley.edu}. Scheduled Office
hours are M 11-12, W 10-11, 2-3, and by appointment. I am available for advice on study habits,
techniques, course content, and on matters of scheduling, laboratory operations, exams, etc..
Typically any administrative or grading issues should be addressed to the course coordinator.
Graduate Student Instructors: The GSIs will instruct the discussion sections. A GSI will be
available in the GSI office; 2084 VLSB, between 10-2, M-F. Messages may be left in your GSI's
mailbox in 2084 VLSB.
Please turn off cell phones prior to the start of lecture.
TIME TABLE

The drop deadline is September 4th. The deadline to change grading option is
September 25th. A $5 fee applies to add classes after September 11th.
1. Lectures begin August 26th and end on December 9th. Lectures are held in 1 Pimentel from 89 AM. Lectures may be available on the web (http://webcast.berkeley.edu/courses/). They
are also simulcast in 10 Evans. Occasionally, handouts will be given and they will be
available at the entrance, and at the front of the room. Lecture handouts are available for
purchase at Replica Copy, 2140 Oxford. No note taking service is authorized.
2. Email address: We will routinely email the students about once a week. We will use the
email address you have listed in the CalNet Directory. If it isnt the one you check, then you
need to change it in the CalNet directory. If you have not received any emails yet, there is a
problem with your listed email address. bSpace will be used frequently, check it!
3. ADDING: You must already be waitlisted in section 100 of Bio 1A (and typically also Bio
1AL) and you must have filled out an Enroll from Waitlist Request Form. To add Bio
1A, you must be enrolled in Bio 1AL or be exempt from simultaneous enrollment. See our
website for more information: http://mcb.berkeley.edu/courses/bio1a/ and click under
enrollment information. The deadline to do this is 8 AM on Friday August 28th. You will be
contacted if we were able to add you to 1A/1AL.
4. SWITCHING DISCUSSION/LAB (Permanent Switch):
Submit a "DISCUSSION
SWITCH" form available at our website (http://mcb.berkeley.edu/courses/bio1a) and
bSpace. The deadline to do this is 8 AM on Friday August 28th. Section switches will be
made directly online and can be seen on Tele-BEARS or Bear Facts (updated at 7:00 AM
Mon-Fri) by Monday August 31st. Requests to switch sections will be accepted after August
28th, but earlier applications have priority.
5. DISCUSSION begins Monday, August 31st. You must show up to your assigned
discussion or you will be dropped.
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6. LABORATORY. Lecture begins Monday August 31st and labs begin Tuesday September 1st
The first lab will cover Safety and Chordate Diversity. The lab exercise will be available for
download on our website (and via Mastering Biology). Note that Monday September 7th is a
holiday. There will be no lab lecture held and instead you will need to watch the lab lecture
webcast from Sp09 (Monday Jan 26th, 2009). Lab will be held Tuesday through Friday.
7. Attendance: You are required to attend the lab AND discussion sections in which you are
enrolled (not waitlisted). You may request to reschedule a particular lab, but only in the
case of unavoidable direct conflicts. For further information, see the lab syllabus (#6
Reschedule Lab). You cannot switch the week of (Nov 30th - Dec 4th).
8. Lecture examinations are scheduled for September 30th and October 30th at 8 AM. There
are no make-up exams. A handout will be given in lecture concerning each exam.
9. Final Examination: Monday Dec. 14th at 8 - 11 AM. Room(s) to be arranged. The final exam
will be comprehensive and will cover all lectures. You will receive a handout in lecture
regarding specific details about the final (point distribution, weighting, etc.).
10. In the case of disruption of an exam (fire alarm, bomb threat, etc.) alternative arrangements
have been made. These may include moving the exam to another location, and/or
extending the time, and/or arranging an alternative exam date or format (possibly essay).
11. Lab exams are scheduled as follows: First lab exam, Friday night, October 23rd. Room(s) to
be arranged. Your second Lab Exam will be held on your assigned lab day, within your
three-hour period (November 30th December 4th). There are no make-up lab exams, nor
may you switch from your assigned section. A handout will be available on-line concerning
each exam room assignments, material covered, etc. There is NO additional final exam for
the lab class.
12. Assignments, exams: When papers, etc. are returned it is your responsibility to pick them
up. If you do not attend discussion, then you must contact your GSI and get the papers
from them, at their convenience. Papers not picked up after 3 weeks may be discarded.
LECTURE MATERIALS:
Required textbook: Campbell, Biology, 7th or 8th editions. The textbook packaged with the lab
manual is the same price as the textbook by itself. The package also includes a discount on
iClickers, access to the Campbell website, an ebook version of Campbell, and mastering biology.
iClicker: The faculty may want to use iClickers. You can use any iClicker (from Chemistry, or
any other class).
Required Course Reader(s): The required course reader for the first part of the course is
available at Replica Copy, 2140 Oxford, near Ben & Jerry's. The cost for the first part is about
$3.00. Additional readers will be required for each of the lecturers.
Exam Reader: An exam reader with exams from past semesters is available at Replica Copy.
The cost is about $4.00.

GRADING PROCEDURE: Grades will be determined numerically as follows:


Midterm Examinations (2 x 100)
200 pts.
Final Exam
300 pts.
Total:
500 pts.
Changes affecting the point distribution, the reading schedule, or other aspects of the
syllabus may occur during the semester. We will inform you of any changes.
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Letter grades are based upon the points that you EARN (not based upon needs or wants). They
are guaranteed as follows.
A (some form of an A)
100-90%
D (some form of a D)
69-60%
B (some form of a B)
89-80%
F
59-00%
C (some form of a C)
79-70%
However, in the event that some examinations have been unusually difficult, the cut offs
for letter grades may be lowered (but only by a few percentage points, and as deemed
necessary). Historically around 40-50% of the class EARN As and Bs.
I GRADES: In keeping with University regulations, the grade of "incomplete" is assigned to a
student only if (1) the student has completed at least one-half of the material with a passing
grade of C or better and (2) the student presents documented medical evidence of inability to
complete the course on schedule. The student assigned an I grade in Biology 1A must complete
the work before the first day of classes in the Fall Semester of 2009, without including the course
for units on the study list, or the I lapses to an F.
CHEATING: The rare student found cheating in the course will be reported to the University
for review for dismissal. An automatic 0 will be given on that assignment. Cheating is not
tolerated. This includes ALL workincluding pre-labs!
RECOMMENDATIONS: It is probably better for you to obtain letters from upper division
classes, in the future, but we are willing to write letters. Your GSI will write an initial draft of
the letter (they know you the best). The course coordinator will edit the letter and a faculty
member will sign the edited letter. The course coordinator will then forward your letter to the
Placement center. This takes time--at least two weeks

HOW TO DO WELL
1. Come to lectures and take notes. Make sure you review them.
2. Keep up with the material. It is essential that you do not fall behind. Seek help if needed.
3. Clarify topics you do not understand by
a. Coming to faculty office hours and ask questions.
b. Coming to GSI office hours and ask questions.
c. Getting into a study group.
d. Reading the book.
e. Using email to ask the faculty questions.
4. Use the exam reader, making sure you understand the reasoning behind the answers.
5. Come to the exam review sessions and ask questions.
6. Come to discussion with questions.

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BIOLOGY 1A STUDY RESOURCES


The following is a partial list. Please take advantage of these resources. Additional
opportunities such as faculty & graduate student reviews may also occur during the semester.
Further information is available in the lab manual and in the exam reader.
Faculty Office Hrs: Office hours are typically held in 2084 VLSB. Faculty will announce office
hours and any changes to them.
Academic Coordinator Office Hrs (2088 VLSB): To be announced. Refer to bSpace for up to
date hours.
Graduate Student Instructors Office Hrs (2084 VLSB): Usaully M- F, 10 - 2. Refer to bSpace for
up to date hours.
Student Learning Center (SLC, 189 Chavez Student Center): The SLC offers student-led study
groups and tutoring. Study groups require registration which can be done on SLC's webpage
(slc.berkeley.edu ). Tutoring is generally available MTWTh 9-4 and F 9-12. See the SLC's
webpage for more information. Note: None of the SLC's services are a substitute for lecture,
discussion, reading the text, or attending Bio 1A office hours. However, they are an excellent
way to get additional assistance and feedback from trained undergraduate tutors who want to
assist you in meeting your academic goals.
STUDY GROUPS: These are a great way to learn the material. I encourage you to form study
groups, either within your lab or with other students.
Tutor Services (fee): Formal tutoring (variable fees) from individuals may be available as the
semester progresses. Contact Mike.
Biology 1A Web Sites: http://mcb.berkeley.edu/courses/bio1a AND bSpace.

Schedule of Classes
Section
101
102
103
104
105
106
107
108
109
110
111
112

Disc. Time
M 11-12 PM
M 11-12 PM
M 11-12 PM
M 11-12 PM
M 12- 1 PM
M 12- 1 PM
M 12- 1 PM
M 1- 2 PM
M 1- 2 PM
M 2- 3 PM
M 2- 3 PM
M 3- 4 PM

Disc. Room
2066 VLSB
2062 VLSB
2070 VLSB
2038 VLSB
2032 VLSB
2066 VLSB
2038 VLSB
2032 VLSB
2038 VLSB
2062 VLSB
2032 VLSB
2038 VLSB

Section
113
114
115
116
117
118
119
120
121
122
123
124

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Disc. Time
M 3- 4 PM
M 3- 4 PM
T 11-12 PM
T 11-12 PM
T 1- 2 PM
T 1- 2 PM
T 2- 3 PM
T 2- 3 PM
T 3- 4 PM
T 3- 4 PM
T 4- 5 PM
T 4- 5 PM

Disc. Room
2062 VLSB
2032 VLSB
2066 VLSB
2070 VLSB
2062 VLSB
2032 VLSB
2038 VLSB
2062 VLSB
2062 VLSB
2066 VLSB
2038 VLSB
2062 VLSB

Biology 1A Calendar, Fall 2009


Lectures 1-13: Professor Malkin, Lectures 14-26: Professor Forte, Lectures 27-39: Professor Fischer
th
All readings are from the 7th or 8 edition of Campbell. If there are different pages or chapters it is indicated.
Date
Lect # Lecture Topic
Reading
Bio 1AL Lab, Discussion
Aug. 26
1
Course introduction. Introduction to
Ch. 3-5
macromolecules. Protein structure and
function.
Aug. 28
2
Structure and function: lipids, carbohydrates Ch. 5
and nucleic acids.
Aug. 31

Cell structure and organization -#1

Ch. 6

Sept. 2
Sept. 4*

4
5

Cell structure and organization -#2


The structure of biological membranes.

Ch. 6
Ch. 7

Discussion and lab!


Lab 1: Safey & Chordate
Diversity

*Deadline to drop = Sept. 4

Sept. 7
Sept. 9
Sept. 11

HOLIDAY
6
7

Lab 2: Safety, Equipment and


Cells. (watch webcast Sp09)

Cellular metabolism and biological catalysts.


Enzyme structure.

Ch. 8
Ch. 8

*Deadline to add without a fee = Sept. 11.

Sept. 14

Regulation of enzymatic activity.

Ch. 8

Sept. 16
Sept. 18

9
10

Introduction to bioenergetics.
Cellular energy production anaerobic
processes.

Ch. 8
Ch. 8

Sept. 21

11

Cellular energy production aerobic


processes.

Ch. 9

Sept. 23
Sept. 25*

12
13

Photosynthesis-the light reactions.


Photosynthesis-CO2 fixation and related
processes.

Ch. 9
Ch. 10

Sept. 28

14

Lab 3: Transform, Enzymes


Microbio-Vibrio isolation.

Lab 4: Colony Isolation,


Complementation I, Vibrio
streaking, Photosynthesis

*Deadline to add.

Multi-cellularity: Cell Shape and function,


Tissue specialization

7th Ch. 40, 820-832 Lab 5: Plasmid isolation & digestion,


8th Ch. 40, 852-862 Complementation II, GMB I,

See handout.

Vibrio streaking.

Sept. 30
Oct. 2

15

MIDTERM 1 Date: Lectures 1-13


Homeostasis: Digestion & Nutrition

Oct. 5

16

Homeostasis: Circulation

7th Ch. 42, 867-883 Lab 6 : Electrophoresis,


8th Ch. 42, 898-915 Complementation III, GMB II,

Oct. 7

17

Homeostasis: Respiration

Oct. 9

18

Homeostasis: The body's defenses

7th Ch. 42, 884-895


8th Ch. 42, 915-927
7th Ch. 43
8th Ch. 43

7th Ch. 41, 844-864


8th Ch. 41, 875-896

Vibrio examination.

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Date
Lect #
Oct. 12
19

Lecture Topic
Homeostasis: The immune system

Oct. 14

20

Homeostasis: Osmoregulation

Oct. 16

21

Integration: Hormones &


Chemical Communication

Oct. 19

22

Integration: Sex & reproduction

Oct. 21

23

Integration: Fertilization & early development

Oct. 23

24

Integration: Nerve cells & excitability

Oct. 26

25

Integration: Muscle cells & motility

Oct. 28

26

Integration: The nervous system

Oct. 30

MIDTERM 2: Lectures 14-26

Reading
7th Ch. 43
8th Ch. 43
7th Ch.. 44, 922-938
8th Ch. 44, 954-972
7th Ch. 45
8th Ch. 45

Lab, Discussion
Lab 7: Bioinformatics

7th Ch. 46, 964-983


8th Ch. 46, 997-1018
7th Ch. 47, 987-1001
8th Ch. 47, 1021-1037
7th Ch. 48, 1011-1025
8th Ch. 48, 1047-1061

Lab 8: Anatomy

7th Ch. 49, 1063-1072


8th Ch. 50, 1105-1114
7th Ch. 48, 1026-1036
8th Ch. 49, 1064-1080

Lab 9: Invertebrates I

Lab Exam 1. 6:30-8:30


PM Friday 10/23

See handout.

Deadline to change grading option.

Nov. 2

27

How Somatic Cells (Mitosis) and Gametes


(Meiosis) Inherit Genomes.

Nov. 4

28

Nov. 6

29

The Laws that Govern the Inheritance of


Traits - Segregation of Alleles.
How Genes Organized on Chromosomes
Linkage, Recombination, Mapping.

Nov. 9
Nov. 11
Nov. 13

30

Nov. 16

32

Nov. 18

33

Nov. 20

34

Nov. 23

35

Nov. 25

31

th

th

Ch. 13 7 and 8
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7 218-228
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8 228-237
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7 Ch. 14 (no 262-264)
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8 Ch. 14 (no 273-275)
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Lab 10: Invertebrates II

7 274-288
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8 286-300

Genes Are Made Of DNA.


HOLIDAY
Gene Expression I - DNA is transcribed into
RNA.

Ch. 16

No lab

Gene Expression II RNA is translated into


protein.
Microbes Viruses, Bacteria, Plasmids,
Transposons.
Regulation of Gene Expression in
Prokaryotes

7th 320-332
8th 337-349

7th 309-319
8th 324-336
Lab 11: Reproduction

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7 334-348, 351-352
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8 Ch. 19, 434-437

7th 352-end
8th 351-356
No lab

36

7th 359-369
8th 356-364
Gene Structure & Regulation in Eukaryotes II. 7th 374-381
8th 434-437
HOLIDAY

Nov. 30

37

How To Isolate, Study and Use Genes.

Ch 20

Lab Exam II - held


During your 3 hour lab.

Dec. 2
Dec. 4

38
39

How To Isolate, Study and Use Genes.


Genetic Regulation of Development.

Ch 20

Nov. 27

Gene Structure & Regulation in Eukaryotes I.

Dec. 14 Monday FINAL EXAM: 8-11 AM

th

7 421-431
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8 366-372, 755-761

See handout.

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