Introduction to Biology II at Amherst College

2010


Biology 19

MOLECULES, GENES AND CELLS

Profs. Springer/Poccia/Emerson

 

 

DATE

 

 SUBJECT

READING
(LIFE, Sadava et al., 8th Ed

LAB

 

Drosophila

 

Yeast

 

Other

9/8  Wed

Introductions; Bonds and Water

Chps. 1 & 2

NO LAB
Read Appendix 1 in Lab Manual

9/10

Cells and Membrane Structure

69-72, 96-101, 105-107

9/13

Membrane Transport
and Ion Gradients

108-112

 

 

 

Yeast Extraction Cultures

 

Membrane   Permeability

9/14 4th H

Pre-Lab: Overview  (required)

 

9/15

Protein Structure

38-48

9/17

Enzymes and Cellular Reactions

118-131

9/20

Enzymatic Mechanisms & Regulation

131-135

 

 

Yeast Extraction

 

 

Protein Structure

9/21 4th H

Weekly lecture review

 

9/22

Bioenergetics I: Metabolism

138-144

9/24

Bioenergetics I: Glycolysis & Fermentation

147-148

9/27

Proteins and Inborn Errors of Metabolism

375-376

 

 

Yeast
Chromatography

Protein Structure
Oral Reports

9/28 4th H

Weekly lecture review

 

9/29

One Gene-One Enzyme

256-260

10/1

Inheritance & Mendel’s 2 Laws

206-216

10/4

Pedigrees, incomplete and co dominance

216-219

 

     Drosophila I
   (P0)

 

 

 

Enzyme
Kinetics

10/5 4th H

Exam review session

 

10/5  Tues    7:30 pm       Exam I  (covers 9/8 – 9/29)

10/6

Multiple Alleles, Multiple Genes and Complex Phenotypes

219-223

10/8

Chromosomes, Meiosis

193-202

10/11

FALL BREAK

 

        NO LAB

10/13

Gene Mapping

223-225

10/15

Sex Chromosomes, Sex linkage

225-229

10/18

DNA: Discovery and Structure

233-241

     Drosophila I
    (F1)

 

Mitosis, Meiosis &            Recombination

10/19 4th

Mapping exercises, mi.&me. rev

 

10/20

DNA Replication

241-249

10/22

PCR, DNA Sequencing

249-253

10/25

Central Dogma, Transcription, Gene Structure

256-264,313

 

Yeast
Mutagenesis

 

10/26 4th

Exam Review Session

 

10/26  Tues   7:30 pm       Exam II (covers 10/1 – 10/22)

10/27

RNA Processing, Splicing, Genome Structure

313-318, 324-325, 306-311

10/29

Translation & the Genetic Code

264-272

11/1

Mutations

274-279

 

Drosophila I (F2)

Yeast
Replica Plating

 

11/2 4th H

Mutations exercises

 

11/3

Gene Regulation, Prokaryotic    

296-300

11/5

Gene Regulation, Eukaryotic

318-324,326-7

11/8

RNA Interference, microRNAs

325,365

Gene annotation I

 

Identify Yeast Mutants

 

   PCR of
   Cheek Cell
   DNA

11/9 4th H

Gene regulation exercises

 

11/10

Genomic Variation

311-3, 355-6, 393-396, 300-2

11/12

Recombinant DNA

293-5, 352-355, 358-364

11/15

Biotechnology

365-369

 

Gene annotation II

 

 

 

Gel Electro-phoresis

11/16 4th

Exam Review Session

 

11/17

Bioenergetics II: Mitochondria

76, 82-3, 148- 150

11/17   Wed   7:30 pm        Exam III (covers 10/25 – 11/15)

11/19

Bioenergetics II: Mitochondria

150-154

11/22-26

THANKSGIVING BREAK

11/29

Bioenergetics II: Photosynthesis

83-6, 160-168

Gene annotation III

Yeast Complementation

 

11/30 4th

Weekly lecture review

 

12/1

Bioenergetics II: Photosynthesis

169-172

12/3

Protein Trafficking and Cytoskeleton-Based Movement

86-90; 75-82; 113-114

12/6

Mitosis and Cell Division

180-183, 187-192

 

Gene annotation IV

 

Score Complementation

 

 

 

12/7 4th H

Weekly lecture review

 

12/8

Cell Cycle Control, Signaling and Cancer

184-187; 386-90; 332-345

12/10

Developmental Biology I: Fertilization, Stem Cells, Cloning

427-35

12/13

Developmental Biology II: Differentiation

435-39; 441-445

NO LAB

12/14 4th

Weekly lecture review

 

12/15

Discussion: Case studies in gene therapy

375-378,391-393

TBA

Exam Review Session

Course structure;
Three lectures a week - lecture notes will be posted on the course Blackboard site following each lecture
One 4th-hour session a week (Tuesday 1:00-1:50 PM) - These sessions will generally provide time with a faculty member to clarify topics raised in lecture and/or an opportunity to do in-class exercises. Students are encouraged to bring questions. Note that two required lab introductions will also be given during 4th hours.
Personal Response System (PRS) transmitters (‘clickers’) - Student responses recorded via PRS transmitters to questions posed in lecture or fourth hour sessions will enable professors to instantly assess student understanding of key concepts.
One study group meeting a week - These sessions will be staffed by the lecture teaching assistants and will focus on answering questions about the problem sets. Sign up for a particular session will occur during the first week of class. Problem sets will be collected by the lecture TA’s during the weekly study groups and graded for extent of completion (see below).
Problem Sets – Problem sets will be handed out throughout the semester as an additional way for students to test their understanding of lecture material. Problem set questions will generally be similar in style to exam questions. Questions about the problem sets will be answered in the weekly study groups. The problem sets will then be collected the following week and graded on a 0-1-2 scale (0=problem set not handed in; 1=problem set handed in, but is not complete and/or shows lack of effort; 2=problem set complete and shows good effort). We anticipate that completing the problem sets will have a beneficial effect on student learning and subsequent performance on the lecture exams.
One three-hour laboratory session a week - attendance is absolutely mandatory
Blackboard Site – Check for announcements and course documents.

Examinations:
There will be four examinations, each covering about 1/4 of the course. Three of these exams will occur on a weekday evening (see schedule) at 7:30 PM. The exams will be designed as 1 hour exams, but you will be given up to 2 hours if needed.  The last of the exams will occur during finals period, but will otherwise be like the others, covering only the last 1/4 of the course.  The exams will cover the following material:

Exam Date

Material Covered

Exam Location

10/5,  Tuesday

9/8 - 9/29

Merrill 2

10/26, Tuesday

10/1 - 10/22

Merrill 2

11/17, Wednesday

10/25 - 11/15

Merrill 2

TBA (Finals period)

11/17 - 12/15

TBA

In case of scheduling conflicts, exams may be taken early, either on the day before (2-4 PM) or the same day (2:30-4:30 PM) of the exam. Failure to show up at an exam will earn a “0” for that exam.  Postponements for medical reasons require a letter from your Dean.  Please mark these dates in your calendars NOW!

Grading:  The four lecture exams will together determine 65% of your final grade. Completion of problem sets will account for 3% of your grade and PRS participation will count for 2% of your grade. The remaining 30% will be determined by your attendance in laboratory and your performance on the various required laboratory reports that you turn in during the semester. The laboratory reports will not all carry the same weight - the comprehensive yeast report, for example, will count about three times as heavily as the Drosophila report. The due dates and approximate lengths for the lab reports are listed on the laboratory schedule. Note: lab reports not turned in by the due date will be subject to late penalties, with the penalty increasing each day that the report is late.
                                                    

Office Hours:

Professor Dick Poccia         1:00 PM - 11:00 AM, Wed/Fri       LSB 324      dlpoccia@amherst.edu       542-2143
Professor Amy Springer      11:00 – 11:59 AM, Wed/Thurs       LSB 424      aspringer@amherst.edu       542-5341
Dr. Julie Emerson                10:30 – 11:30 AM, Wed/Fri           LSB 322       jemerson@amherst.edu       542-8381

We encourage you to stop by any time during these hours; if you absolutely cannot make these times, please contact us by e-mail or telephone to set up an alternative appointment.                    

Lecture TAsAlex Chang, Paul Cohen and Fabiana Kreines
Lecture TA Study Group Times:TBD

 

Note on use of electronic devices in this course:

Hand-held calculators will be helpful for several of the labs. Laptop computers will only be used on rare occasions in the laboratory, and students will receive notice as to when to bring them to lab.

NO portable electronic devices (including laptop computers) are to be used (or heard) in the lecture hall or during exams. Please speak with Prof. Poccia or Prof. Springer if any special accommodations are necessary.

 

Amherst College Statement of Intellectual Responsibility

Every person's education is the product of his or her own intellectual effort and participation in a process of critical exchange. Amherst cannot educate those who are unwilling to submit their own work and ideas to critical assessment. Nor can it tolerate those who interfere with the participation of others in the critical process. Therefore, the College considers it a violation of the requirements of intellectual responsibility to submit work that is not one's own or otherwise to subvert the conditions under which academic work is performed by oneself or by others. For Bio 19: Any incidences of cheating will be reported to the Dean’s Office and will result in significant penalty, including the possibility of an “F” in the course.   


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