Molecular Genetics (Biol 318),  Spring, 2008

 

Instructor:        Dr. Reagan

                        NSC 216

                        Phone x3110

Email: mreagan@csbsju.edu  (I would prefer that you use email to contact me, I am much more likely to respond promptly to email.)

 

Office Hours:  I am no longer having formal office hours.  Any time I am in my office feel free to come in talk to me.  I might not be able to talk to you at that exact minute, but we can set up a time to talk. Otherwise, make an appointment that will fit my schedule and yours.  Look at my homepage for my teaching schedule this semester and lets find a time that works for both of us.

 

 

Textbook:         Genetics: From Genes to Genomes  3rd ed. by Hartwell, Hood, Goldberg, Reynolds, Silver and Veres.

 

Course website:

http://www.employees.csbsju.edu/mreagan/Bio318.htm

 

Also be sure to check out the ANNOUNCEMENTS page before readings! 

 

Learning Objectives:

Facts to be understood and memorized:

         Understand nucleic acid structure

         Understand recombinant DNA techniques

         Understand gene expression and the control of gene expression

         Understand the cell cycle

         Understand DNA replication and repair

         Understand the nature of the cancer cell

         Understand the techniques of genomics and proteomics

Higher-order skills that cannot be memorized but must be mastered:

         Be able to interpret experimental results

         Learn modern lab techniques for manipulating nucleic acids

         Be able to use nucleic acid and protein databases and computational tools

         Be able to read and interpret primary literature

 

 

Grading

Note that we will have three exams during the semester, plus one comprehensive final exam.  The exams will be taken when scheduled except by prior arrangement or in cases of medical emergency, with a note from a physician.  The breakdown of what each graded portion of the course is worth will be close to the following:

Each of the three semester exams will be approximately 15% of your grade.

The final exam will be worth approximately 22% of your grade.

The lab and homework/assignments will be worth approximately 30% of your grade.

 

Tentative Grade Cutoffs (%)

 

93+      A                    

88-92   AB                  73-77   C

83-87   B                     68-72   CD

78-82   BC                   60-67   D

 

 

I really want you to be in the habit of turning assignments in on time, so there will be a 10% per day penalty for late assignments including homework, lab reports, and whatever else applies here.

 

 

Reading Schedule

 

Date

Topic

Readings

Problems

Section 1 Molecular Genetics Review

Jan. 15

Course Intro

 

 

Jan. 17

DNA structure

 

(Protein review on your own)

pp. 168-9, 173-84 (skip box),

 

(234-239 protein review)

Ch. 6, #5,6,7,8,9,10,11

Jan. 21

DNA replication and PCR

 pp. 184-191

Ch.6 #19,20,22,23,24,25

Ch. 9 #25, 26c

Jan. 23

Recombinant DNA

pp. 182-184 (box), pp. 303-314 (skip 306-307 box), skim 308-9, 549-550

Ch. 6 #15

Ch.9 #2,3,4,8,9,11,16

Jan. 25

Transcription basics/splicing

pp. 255-6, 265-275

Ch. 8 #18,19,20

Jan. 29

Transcription basics/splicing

pp. 255-6, 265-275

 

Jan. 31

The genetic code

pp. 255-265

Ch.8 #3,5,6,15

Feb. 4

Translation

pp. 275-285

Ch.8 #21,22,23

Feb. 6

Mutations

pp. 285-290

Ch.8 #24,25,26

Feb. 8

Primary Literature Paper

Tuesday Feb. 12, EXAM 1

Section 2. Genomics

Feb. 14

Mutation and DNA repair

pp. 212-213, 215-219 (skip box), 220-223

Ch. 7 #13

Feb. 18

Making DNA libraries

pp. 314-318

Ch. 9 #8, 12, 13, 14

Feb. 20

Screening DNA libraries

pp. 319-324 (skip box 320-321)

Ch. 9 #19, 21 (using partial seq)

Long Weekend

Feb. 26

Expression vectors

pp. 318-321 (read box 320-321)

 

Feb. 28

Whole genome sequencing

pp. 362-372

 

Mar. 3

Primary Literature Paper

Mar. 5

DNA polymorphisms and DNA fingerprinting

pp. 394-399, 404-408, 423-425

Ch. 11 #4,5,12,13,15,32

Section 3 Regulation of transcription

Mar. 7

Old friend, the lac operon

pp. 608-618

Ch. 17 # 3, 5, 6, 8, 11,

Mar. 11

More lac operon, and reporter genes

pp. 618-20, 623-626

Ch. 17 # 7, 12, 14, 16, 17

Thursday, Mar. 13  Exam 2

Easter Break

Mar. 25

Global prokaryotic txn control

pp. 628-29

Ch. 17 #29, 30

Mar. 27

The eukaryotic chromosome

pp. 465-474

Ch.13 # 4, 5a, 7, 8

Mar. 31

chromosomal DNA elements

pp. 475-479

Ch.13 #10a, 12, 13, 15, 17, 21

Apr. 2

Eukaryotic gene regulation basics

pp. 643-648

Ch. 18 # 2a, 3, 5, 6,

Apr. 4

Eukaryotic DNA binding proteins

pp. 648-657

Ch.18 # 8

Apr. 6

Chromatin effects on transcription

pp. 658-664

Ch. 18 # 9, 13, 14, 16a, 18a, 19, 20, 21

Apr. 10

Micro-RNAs

pp. 664-669

Ch. 18 #30

Apr. 14

Primary Literature Paper

Wed., Apr. 16 Exam 3

Section 4. Cell Cycle and Cancer

Apr. 18

Cell cycle and cyclin-cdks

pp. 686-692

Ch.19 #2,5

Apr. 22

Cell cycle checkpoints

pp. 692-696

Ch. 19 #7-11

Apr. 25

Cancer

pp. 696-702

 

Wed., Apr. 23 Scholarship and Creativity Day

Apr. 29

Mutation that lead to cancer

pp. 703-708

Ch. 19 # 14, 15, 17, 21, 25, 27

May 1

“”

pp. 703-708

 

May 5

Catching up

 

 

FINAL EXAM: Friday, May 9 1-3 PM

 

 

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