biol125syllabus.doc

BIOLOGY 2060 and 2065 CLASS OUTLINE [Introductory Microbiology]

Autumn 2008

Joseph M. Papenfuss, PhD

Office: Science Building 211 during posted office hours, or by appointment

Telephone: 283-7528

email: Joseph.Papenfuss@snow.edu

COURSE DESCRIPTION

A survey of the fundamental biological processes observed in bacteria and other microorganisms with emphasis placed on their beneficial and harmful activities related to humans and other forms of life with an introduction to molecular genetics and biotechnology. Both lecture BIOL 2060 and lab BIOL 2065 must be taken concurrently.

REQUIRED TEXT and/or MATERIALS

Lecture

Microbiology -- A Human Perspective, 4th or 5th ed. (preferred). Nester, Anderson, Roberts, Pearsall, and Nester (2004 or 2007) McGraw-Hill Higher Education, Boston

Lab

Biology 2065 Lab Manual. A. C. Blauer, K. N. Sorensen, J. M. Papenfuss, K. Parnell, and D. P. Breakwell, (Fall 2008)

EVALUATION OF STUDENT PERFORMANCE

Students are more effective in the learning process if they read the material before lecture or lab, and then review notes and materials after class. Depending on individual preparation and quality of effort, usually two hours of study are required for every hour in class to earn an "A" grade.

BIOL 2060

4 100-pt tests (handwritten notes except #4 is take-home, open-book) 400 pts

5 disease brochures (25 pts professor + 25 pts students' grading) 250 pts

1 150-pt final on disease brochures and disease control triangle 150 pts

Total 800 pts

BIOL 2065

9 50-pt lab reports (may include quizzes) after dropping lowest 450 pts

1 50-pt lab midterm test (Experiments 1 -- 5) testing center 50 pts

1 50-pt lab final exam (Experiments 6 -- 9) testing center 50 pts

Total 550 pts

You may take one 8 ½ x 11 page with handwritten notes on both sides into the testing center for tests #'s 1 to 3. Test #4 is take-home, open-book. The notes must be your own work with your handwritten signature on the notes as evidence of this. I keep the test and you keep the notes.

One lab report and one lab quiz will be dropped. The lowest test may be replaced by the final exam score percentage, if the final exam percentage is higher.

THERE WILL BE NO MAKE-UPS FOR LABS AS SCHEDULED!!! Missing more than two labs will result in a failing grade! If you cannot make your lab, check with the professor to see if you can attend another lab taught at a different time by another professor. This must be done the week before to give us adequate time to make accommodations for extra students! The lab quizzes will usually be at the beginning of the following lab period.

THERE WILL BE NO MAKE-UP FOR ANY TEST without prior arrangement!!! Tests will be taken in the testing center as noted on your schedule.

Disease Brochures

Each student will do five different disease brochures. Two or three brochures must be on bacteria. One or two on viruses/viroids/prions. At least one should be a protozoan or fungal disease. No students may duplicate a disease. The first student to reserve the disease will be the one allowed to do a brochure on that disease. Reserve all five at the same time with the professor. The five different disease brochures for each student will be photocopied and distributed to the entire class. The professor will grade the brochures and the entire class will also grade the brochures. The final exam will be on the information contained in these brochures and on the disease control triangle. The brochure will be a single 8 ½ x 11 page folded in half to make four blocks. Block one will contain the student name, the class and section (BIOL 2060.001), the date, the name of the disease, the scientific name of the disease-causing organism and a description of the disease-causing organism. Photos or sketches are helpful. Block two will list and describe the signs and symptoms of the disease. Block three will include transmission route(s) and pathogenesis including incubation, clinical stages and life cycle(s). It will also include prevention and treatment protocols which should be related to the disease control triangle components of public health and sanitation, scientific and medical research, and personal behavior and hygiene. However, the prevention and treatment may continue onto block four. Block four will also include one historical event and a recent (dated) outbreak or personal example (dated). And finally, block four will also include the sources: textbook, library book, journal article, legitimate internet sources such as the Centers for Disease Control and Prevention (CDC), etc, and / or newspaper citations.

The brochure page will be folded in half and the blocks placed on it in the following manner:

Professor brochure grading will be as follows: there are no points awarded for Name, Class, Date and Disease; however, if these are missing, the brochure grade will be zero. Scientific name (1 point) and description of disease-causing organism (3 points) total 4 points. Signs and symptoms of disease are worth 5 points. Transmission route(s) and pathogenesis including incubation, clinical stages and life cycle(s) are worth 5 points. Prevention and treatment protocols which should be related to the disease control triangle components of public health and sanitation, scientific and medical research, and personal behavior and hygiene count for 6 points. And finally the historical event with an additional recent outbreak or personal example counts for 2 points and the sources for 3 points. This totals to 25 points. The other 25 points are derived from the average of the students' grades for that brochure. Each student will grade all of the other students' brochures. Failure to do so will result in that student's brochure grade being only those points from the professor grading.

Grader Name Class and Section Date
Brochure Author 1	Disease	points awardable	1	3	5	5	6	2	3
	1
	2
	3
	4
	5
	total points
Brochure Author 2	Disease		points awardable	1	3	5	5	6	2
	1
	2
	3
	4
	5
	total points
Brochure Author 3 and so on	Disease		points awardable	1	3	5	5	6	2
Brochure Author 3 and so on	1

Your text book has a good deal of useful information for completing the items in the Disease Brochures. For example, consider rabies on p 682 Table 26.8 in the 4th ed. or on p 699 Table 27.8 in the 5th ed. of Nester et al Microbiology: A Human Perspective.

Source bibliography information:

books including textbook: first author full name, the term et al if more than one author, year, title, publisher, page numbers

journal articles: first author full name, the term et al if more than one author, year, article title, journal name, volume, page numbers

internet sources: first author full name, the term et al if more than one author, complete date, title, institution or sponsor, full web address

newspaper articles: first author full name, the term et al if more than one author, complete date, title, newspaper name, section and page numbers.

Bacterial Diseases pp 272 -- 273 in text partial list
1 anthrax	9 black death / bubonic (or pneumonic) plague	17 Traveler's diarrhea (E. coli)	25 syphilis
2 botulism	10 NGU chlamydial STD	18 Pseudomonas infections	26 typhoid fever
3 cholera	11 salmonellosis	19 Q fever or brucellosis	27 tetanus
4 gas gangrene	12 Lyme disease	20 tuberculosis	28 tularemia
5 leprosy	13 staph infections (boils)	21 staphylococcal enteritis	29 ulcers (Helicobacter)
6 gonorrhea	14 Haemophilus or Meningococcal meningitis	22 Listeriosis or Campylobacter food poisoing (gastroenteritis)	30 bacterial canker and gummosis of stone fruit trees / bacterial borwn spot
7 strep throat / scarlet fever / rheumatic fever	15 streptococcal or Klebsiella pneumonia or Legionnaires disease	23 typhus or Rocky Mtn spotted fever	31 necrotizing fasciitis (flesh-eating bacteria)* or puerperal (childbirth) fever or toxic shock(-like) syndrome*
8 diphtheria	16 atypical pneumonia*	24 whooping cough	32 fire blight or crown gall

* more than one disease-causing agent (pathogen)

Viral Diseases pp 343 --345 in text partial list
1 West Nile virus, yellow fever or dengue fever	7 Measles or canine distemper	13 parvo or maize streak virus	18 herpes simplex II, cytomegalovirus, or Epstein-Barr virus
2 smallpox	8 hepatitis B or cauliflower mosaic virus	14 polio or hepatitis A	19 beet leaf curl or barley yellow dwarf virus
3 influenza	9 rabies	15 RSV or mumps	20 colds* or SARS
4 Norwalk(-like) gastroenteritis	10 warts	16 adenovirus	21 transmissible spongiform encephalopathies
5 rubella (German) measles	11 Ebola / Marburg virus	17 Hanta virus
6 HIV	12 cadang-cadang, chrysanthemum decline or potato spindle tuber disease

* more than one disease-causing agent (pathogen)

Protozoan Diseases p 305 in text partial list
1 malaria	3 toxoplasmosis	5 cryptosporidiosis
2 giardiasis or amoebic dysentery (amoebiasis)	4 African sleeping sickness, Chagas disease or Leishmaniasis	6 trichomoniasis

Fungal Diseases p 312 in text very short list
1 candidiasis	3 coccidioidomycosis or pneumocystis	5 ergot of rye
2 ringworm or athlete's foot	4 histoplasmosis, aspergillosis or zygomycosis	6 Dutch Elm disease or chestnut blight

No brochures on these diseases but there may be one or two on the final exam.

Helminth Diseases p 318 in text
1 schistosomiasis	3 filariasis or river blindness (onchocerciasis)	5 strongyloidiasis
2 beef, pork or fish tapeworms or trichinosis	4 ascariasis, pinworms (enterobiasis), or hookworms

A grade of A or 4.0 is given for earning 92% of the total points. Cheating in this course is punished with a zero for the item in question and with an F for the course in the event that cheating occurs a second time. If you are in doubt as to what constitutes cheating, ask the instructor.

The grades are now letter grades and correspond to numerical and percentage grades in the following table.

A	4.0	92%	C	2.0	72%
A -	3.7	89%	C-	1.7	69%
B +	3.3	86%	D +	1.3	66%
B	3.0	82%	D	1.0	62%
B -	2.7	79%	D -	0.7	59%
C +	2.3	76%	F	0.0	< 59%

Students with medical, psychological, learning or other disabilities desiring accommodations, academic adjustments, or auxiliary aids will need to contact the Accessibility Resource Center, room 211 Greenwood Center, phone number (435) 283-7321. The Americans With Disabilities Act (ADA) Coordinator at the Accessibility Resource Center (ACR) determines eligibility for and authorizes the provision of appropriate services and aids.

A reading schedule follows below.

MONDAY

TUESDAY

WEDNESDAY

THURSDAY

FRIDAY

8/20

Introduction and Scope of Microbiology; Scientific Method Chpt 1 (Koch's and Molecular Postulates p 464)

8/21

8/22

Scientific Method cont; Microscopy and Cell Structure Chpt 3

8/25

Chpt 3 cont.

8/26

Lab A Safety lab

Check out equipment

last day to pay tuition and fees

8/27

Identification and Classification of Prokaryotes Chpt 10

8/28

8/29

Chpt 10 cont and Diversity of Prokaryotic Organisms Chpt 11

9/1

LABOR DAY

9/2

Experiment 1

Use of the microscope

9/3

Chpt 11 cont

9/4

9/5

Chpt 11 cont

9/8

Fungi Chpt 12

9/9

Experiment 2

Microbial diversity Bacteria and Fungi

a. view slides

9/10

Protozoa Chpt 12 cont.

9/11

last day to add or withdraw from class without a fee or a "W"

9/12

Protozoa cont., and Algae, (read about Helminths and Arthropods)

Chpt 12

9/15

Viruses Chpts 13, 14

9/16

Experiment 2 cont

Protozoa and Algae

a. view slides

b. inoculate media for Experiment 3

9/17

Chpts 13, 14 cont

9/18

9/19

Molecules of Life Chpt 2 part I

MONDAY

TUESDAY

WEDNESDAY

THURSDAY

FRIDAY

9/22

Chpt 2 cont part II

9/23

Experiment 3

Isolation of organisms and pure culture

9/24

Chpt 2 cont part III

Test #1

Chpts 1, 3, 10 -- 14

9/25

Test #1

9/26

Host-microbe Interactions Chpt 19

9/29

Chpt 19 cont

Disease control triangle hand-out

9/30

Experiment 4 Staining of bacterial cells

a. simple and negative stains

10/1

Epidemiology

Chpt 20

Reminder on disease brochures

10/2

10/3

Chpt 20 cont

10/6

Bacterial Growth Chpt 4

10/7

Experiment 4 cont

a. Gram and acid-fast stains; observe spore stains

10/8

Chpt 4 cont

Brochure #1 due

10/9

10/10

Control of Microbial Growth Chpt 5

10/13

Chpt 5 cont

10/14

Experiment 5

Control of bacterial growth

10/15

Chpt 5 cont and Anti-microbial Therapy Chpt 21

Brochure #2 due

10/16

Fall Vacation

10/17

Fall Vacation

10/20

Chpt 21 cont

10/21

Experiment 5 cont

Experiment 6 Normal flora of the human body

a. skin

b. respiratory tract

10/22

Chpt 21 cont and Metabolism Chpt 6

Energy and Enzymes, Glycolysis

Lab Midterm Exam

Experiments 1 -- 5 (TESTING CENTER)

10/23

10/24

Chpt 6 cont

Glycolysis cont, Krebs Cycle

Brochure #3 due

10/27

Chpt 6 cont Chemiosmotic ATP Production, Fermentation, CO₂ Fixation and Photosynthesis

10/28

Experiment 6 cont

Experiment 7

Determination of bacterial numbers

a. bacteria counts in milk

10/29

Chpt 6 cont Photosynthesis and Nonspecific Host Defenses Chpt 15 Brochure #4 due

10/30

last day to add or drop classes

10/31

Chpt 15 cont

11/3

Chpt 15 cont and Immune System Specific Host Response Chpt 16

11/4

Experiment 7 cont

a. complete bacteria in milk

b. bacteria in water

11/5

Chpt 16 cont and Applications of Immune Responses Chpt 17

Test #2

Chpts 2, 4 -- 6, 19 -- 21

11/6

Test #2

11/7

Immunological Disorders Chpt 18

11/10

Chpt 18 cont

Brochure #5 due

11/11

Experiment 7 cont

a. complete bacteria in water

Experiment 8

Food microbiology

11/12

Microbial Ecology Chpt 30

11/13

11/14

Chpt 30 cont and Treatment of Water, Wastes, Polluted Land Chpt 31

Photocopies of brochures handed back to class to be graded.

11/17

Chpt 31 cont and Food Microbiology Chpt 32

11/18

Experiment 8 cont

Experiment 9

Molecular genetics

11/19

Chpt 32 cont

Test #3

Chpts 15 -- 18, disease control triangle, 30 -- 32

11/20

Test #3

11/21

Classic DNA Experiments and Replication

Chpt 7

MONDAY

TUESDAY

WEDNESDAY

THURSDAY

FRIDAY

11/24

DNA Replication cont and Transcription Chpt 7

11/25

Experiment 9 cont

Check in lab equipment

11/26

Thanksgiving Break

11/27

Thanks-

giving Holiday

11/28

Thanksgiving Break

12/1

Transcription cont and Protein Synthesis (Translation) Chpt 7

Hand out take-home test #4.

12/2

Lab Final Exam

Experiments 6 -- 9 (TESTING CENTER)

12/3

Regulating Gene Expression Chpt 7

12/4

12/5

Bacterial Genetics

Chpt 8.

Disease brochure student grades DUE!!!

12/8

Chpt 8 cont and Biotechnology

Chpt 9

12/9

Diseases Final Exam

9:30 to 11:30 AM

12/10

12/11

Test #4

Chpts 7, 8, 9 due!!!

12/12