BIO 205 Syllabus (10059)

Dr. Matt Pearcy BIO 205 Microbiology (10059) Spring 2022

SYLLABUS You r Co ur s e Le a rni n g Pl an

Part 1: Course Information Instructor Information Office: Prescott Campus Building 4 Room 129 Office Hours: Mondays from 5pm to 6pm, Tuesdays from 10am to 11am, Wednesdays from 5pm to 6pm and Thursdays from 3:30pm- 5:30pm Office Telephone: 928 634 7569 E-mail: matt.pearcy@yc.edu Classroom: Monday and Wednesday from 11:00am to 1:45pm in Building 4 Room 123 on the Prescott campus.

Course Description Introduction to microorganisms and viruses of medical importance.

Chemical and physical methods of microbial control; bacterial, fungal, protozoal, and viral drug therapy; the immune system response to infection; transmission of human disease; and common clinical presentation of various diseases. Prerequisite: BIO 100 or BIO 156 or BIO 181. Reading Proficiency.

Textbook & Course Materials Required Text The free textbook is Microbiology by OpenStax. It can be downloaded here: https://openstax.org/details/books/microbiology

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You can also access the free textbook by downloading the OpenStax app from the app store. It’s called OpenStax + SE and looks like this:

Required Lab Manual

We use a lab manual for the lab portion of the class. Don’t rent a lab manual.

You will be filling the labs out and turning them in. The lab manual can be found at the YC bookstore, or you can buy it here: https://www.amazon.com/Laboratory-Fundamentals-Microbiology-JeffreyPommerville/dp/1284100979/ref=sr_1_1?crid=3EO8EMX5XRNC5&keywords=la boratory+fundamentals+of+microbiology++11th+edition&qid=1641418341&sprefix=laboratory+fundament%2Caps%2C790 &sr=8-1

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Part 2: Course Content & Learning Outcomes Course Content 1. Microbial anatomy 2. Bacterial nutrition, metabolism, and physiology 3. Bacterial genetics 4. Physical and chemical control of microorganisms 5. Anti-microbial therapy 6. Basic principles of epidemiology 7. Humoral and Cellular immunity 8. Bacteria of medical importance 9. Viruses of medical importance 10. Fungi and protozoa of medical importance Learning Outcomes 1. Identify and describe the principal physical features of bacterial, fungal, and protozoal cells. (1) 2. Use the standard microbiological laboratory protocols to isolate, cultivate, and identify bacteria. Prepare a written summary of the identification. (2) 3. Describe the method of inheritance in haploid microorganisms, with emphasis on mutation rate. (3) 4. Use the standard microbiological laboratory protocols to prepare sterile microbiological media and demonstrate the effects of chemical agents on bacterial growth. (4) 5. Use the standard microbiological laboratory protocols to demonstrate the effects of antibiotics on medically important bacteria. (5) 6. Describe the various methods of transmission of human disease from other humans, the environment, and animal vectors.(6) 7.

7. Describe the relationship between the human immune system and resistance to disease. (7) 8. Describe the important clinical features of human diseases due to bacteria. (8) 9. Describe the principal structural and genetic features of medically important viruses, and their usual clinical presentation. (9) Yavapai College – Rev. 08/2019

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10. Describe the important clinical features of human diseases due to fungi and protozoa. (10)

Part 3: Topic Outline/Schedule BIO 205 Spring 2022 Tentative Class Schedule The general course content and learning outcomes addressed for each class is listed below. The topics covered will include, but are not limited to, the content listed below. I reserved the right to change the contents listed below.

Week 1

Due Dates

Topic Chapter 2: How We See the Invisible World Chapter 3: The Cell Exercise 1: Exercise 2: Exercise 3: Exercise 4: Exercise 5:

Safety Overview Best Practices in Safety Student Safety Contract Culture Transfer Techniques Pure Culture Technique – Pour Plate Method

Course Content: Microbial anatomy Learning Outcomes: 1, 2 Chapter 4: Prokaryotic Diversity

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Exercise 7: Solution Transfer Exercise 8: Serial Dilutions Exercise 9: The Compound Microscope Exercise 10: Observation of Prepared Slides Course Content: Microbial anatomy Learning Outcomes: 1, 2 Chapter 5: The Eukaryotes of Microbiology

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Exercise 12: Exercise 13: Exercise 14: Exercise 15: Exercise 16: Exercise 17:

Preparation of a Bacterial Smear Simple Stain Technique Negative Stain Technique Gram Stain Technique Bacterial Structures – Spore Stain Bacterial Structures – Capsule Stain

Course Content: Bacterial nutrition, metabolism, and physiology

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Exam #1 is

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Learning Outcomes: 1, 2 Chapter 6: Acellular Pathogens

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February 7th Lab Notebook Turned in on February 7th

Course Content: Bacterial nutrition, metabolism, and physiology Exercise 18: Viruses: The Effect of Bacteriophages on Bacteria Exercise 19: Viruses: Plaque Formation Exercise 20: Identification of Bacteriophages from Sewage Learning Outcomes: 1, 2 Chapter 7: Microbial Biochemistry Chapter 8: Microbial Metabolism

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Exercise 54: Exercise 55: Exercise 56: Exercise 57:

Bacterial Structure Characteristics Bacterial Culture Characteristics Carbohydrate Fermentation Starch Hydrolysis

Course Content: Bacterial nutrition, metabolism, and physiology Learning Outcomes: 2 Chapter 9: Microbial Growth

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Exercise 58: Exercise 59: Exercise 60: Exercise 61: Exercise 62:

Catalase Production DNA Hydrolysis Sulfide Production IMViC Series Urea Hydrolysis

Course Content: Bacterial nutrition, metabolism, and physiology Learning Outcomes: 2, 3 Chapter 11: Mechanisms of Microbial Genetics

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Exercise 65: Selecting for Antibiotic Resistant Bacteria Exercise 66: Induced Mutations in Bacteria Exercise 68: Carcinogens and the Ames Test Course Content: Bacterial genetics

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Exam #2 is March 7th Lab Notebook Turned in on March 7th

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Learning Outcomes: 2, 3 Chapter 13: Control of Microbial Growth Exercise 25: Exercise 28: Exercise 32: Exercise 33:

The Effects of Physical Agents on Bacteria The Effects of Chemical Agents on Bacteria Evaluation of Antiseptics and Disinfectants Evaluation of Antiseptics and Disinfectants

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Course Content: Physical and chemical control of microorganisms Learning Outcomes: 2, 4 9 Spring Break!

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Chapter 14: Antimicrobial Drugs Exercise 35: Evaluation of Antiseptics and Disinfectants: The Effect of Antibiotics on Bacteria Course Content: Anti-microbial therapy Learning Outcomes: 2, 4 Chapter 15: Microbial Mechanisms of Pathogenicity

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Exercise 78: Transmission of Microorganisms through Toilet Paper Exercise 79: Disinfection of Drinking Water Exercise 80: Microbiology of Food – Food Preservation with Salt and Garlic Course Content: Basic principles of epidemiology Learning Outcomes: 2, 6, 7 Chapter 16: Disease and Epidemiology Chapter 17: Innate Nonspecific Host Defenses

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Exercise 38: The Genus Mycobacterium - Colony and Cellular Morphology Exercise 39: The Genus Mycobacterium – Acid – Fast Staining Technique Exercise 40: The Genus Mycobacterium: - Cold Acid – Fast Staining Technique Exercise 43: The Genus Neisseria Course Content: Basic principles of epidemiology Humoral and cellular immunity

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Exam #3 is April 11th Lab Notebook Turned in on April 11th

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Learning Outcomes: 2, 6, 7 Chapter 18: Adaptive Specific Host Defenses Exercise 41: The Genus Streptococcus – Streptococci from the Upper Respiratory Tract Exercise 42: The Genus Streptococcus – Streptococci from the Oral Cavity

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Semester Syllabus Course Content: Humoral and cellular immunity Learning Outcomes: 2, 6, 7 Chapter 21: Skin and Eye Infections Chapter 22: Respiratory System Infections

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Exercise 44: the Genus Staphylococcus – Isolation of Staphylococci Exercise 45: the Genus Staphylococcus – Differentiation between Staphylococci species Course Content: Bacterial of medical importance Viruses of medical importance Fungi and protozoa of medical importance Learning Outcomes: 2, 8, 9, 10 Chapter 23: Urogenital System Infections Chapter 24. Digestive System Infections

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Exercise 46: The Enteric Bacteria – Isolation of Enteric Bacteria Exercise 47: The Enteric Bacteria – Differentiation of Enteric Bacteria on TSI Agar Exercise 48: The Enteric Bacteria – The IMViC Series Course Content: Bacterial of medical importance Viruses of medical importance Fungi and protozoa of medical importance

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Exam #4 is May 2nd Lab Notebook Turned in on May 4th

Learning Outcomes: 2, 8, 9, 10 Chapter 25: Circulatory and Lymphatic System Infections Chapter 26: Nervous System Infections Exercise 50: The Genus Bacillus Exercise 51: The Genus Clostridium Exercise 52: The Genus Lactobacillus Course Content: Bacterial of medical importance Viruses of medical importance Fungi and protozoa of medical importance Learning Outcomes: 2, 8, 9, 10

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Final Exam is May 9th

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Part 4: Grading Policy Methods of Evaluation Class Assessments

Total Points

4 Regular Exams @ 100 pts apiece

400

1 Comprehensive Final Exam

200

Lab Notebook Collected 4 Times (50 pts apiece)

200

Total Points

800

Makeup Exam Policy One exam can be made up with no questions asked. If further exams must be missed, the absence must be justified (ie. Dr’s note). The Comprehensive Final Exam cannot be taken late. Lab activities cannot be made up.

Grading Timeframes All graded material will be graded within one week of being due.

Letter Grade Assignment Final grades assigned for this course will be based on the percentage of total points earned and are assigned as follows: Letter Grade A

Percentage

Performance

Points for Letter Grad

90-100%

Excellent

720 – 800 points

B

80-89%

Good

640 – 719 points

C

70-79%

Average

560 – 639 points

D

60-69%

Passing

480 – 559 points

F

0-59%

Failing

<480 points

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Part 5: Institutional Policies and Instructor Procedures Yavapai College provides enrolled students with an official Student Email: username@scholar.yc.edu email address. Yavapai College requires enrolled students to utilize the YC email system for official college-related communications. Students are expected to check their Yavapai College email account as directed by their instructor. If you need assistance, go to Information Technology Services or 928.776.2168 (www.yc.edu/its).

Attendance: Students are expected to attend and participate in all class meetings, laboratories, and field trips. A student who expects to be absent due to a school-sponsored activity must make prior arrangements with the instructor. A student who does not adhere to the instructor’s and College’s attendance and participation requirements should be dropped/withdrawn from the course as defined in the Yavapai College General Catalog. If the student is not withdrawn from the class, a grade will be entered on the student’s permanent record. The last date of attendance will need to be documented.

A student initiated withdrawal deadline is established by the Course Withdrawal: College. If a student has not withdrawn from a class by the deadline, a student will receive the letter grade earned in the course at the end of the semester. An instructor can choose to withdraw a student from the class after the deadline depending upon the instructor’s withdrawal policy. If a student does not follow official procedures for withdrawing from a course, earned grades will be posted on the student’s permanent record.

Faculty initiated withdrawals for non-attendance are in place for both the benefit of the college in assuring compliance with financial aid requirements and to benefit students. When students do not participate in classes during the first week of the semester, faculty will withdraw them from their classes unless they have been in contact with faculty member. At FTSE date, faculty should withdraw students that have not been attending.

Honesty in academic work is a central element of the learning Academic Integrity: environment. It is expected that students will submit their own work. The presentation of another individual’s work as one’s own or the act of seeking unfair academic advantage through cheating, plagiarism or other dishonest means are violations of the College’s Student Code of Conduct. Any violations of the Student Code of Conduct will result in the student being withdrawn from the class and assigned a letter grade of F for the class.

Definitions of plagiarism, cheating, and violation of copyright and penalties for violation are available in the Yavapai College Student Code of Conduct.

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Student Code of Respect for the rights of others and for the College and its Conduct: property are fundamental expectations for every student. The Student Code of Conduct outlines behavioral expectations, and explains the process for responding to allegations of student misconduct.

Students are expected to respond and write in a respectful, professional and appropriate manner in all forms of communication and when activities are assigned to create scenarios, discuss opinions, present on a selected subject, or post to the web board. Inappropriate language or objectionable material will not be tolerated and could result in disciplinary measures and/or a failing grade for the class. (www.yc.edu/codeofconduct) Academic A student may appeal an academic or instructional decision by Complaint Form: faculty if s/he deems the decision to be made in error. The appeal must be made in a timely manner in accordance with established procedures. (www.yc.edu/academiccomplaints) Acceptable Use: Yavapai College technological equipment and resources must be used in accordance with the Technology Resource Standards (5.27), Copyright Use (2.28) and Peer-to-Peer (P2P) File Sharing (5.26) policies. Use of Yavapai College equipment and resources to illegally copy, download, access, print or store copyrighted material or download pornographic material is strictly prohibited. For example, file swapping of copyrighted material, such as music or movies is strictly prohibited. Users found to violate this policy will have their privileges to use Yavapai College technological equipment and resources revoked. (www.yc.edu/policies) Yavapai College is committed to providing a quality learning Mobile Devices: environment. All cell phones and mobile devices must be placed in silent mode while in classrooms, computer labs, library, learning center, and testing areas. Cell phones must be used outside these facilities.

Smoking and Yavapai College is committed to limiting exposure to the harmful Tobacco Use: effects of primary and secondary smoke to campus students, visitors, and employees. In order to reduce the harmful effects of tobacco use and to maintain a healthful working and learning environment, the College prohibits smoking, including vaping, on all campuses except in designated smoking areas as per the Smoking & Tobacco Use Policy (10.09). (www.yc.edu/v6/policies/docs/1000d/1009-smoking.pdf) Title IX – Sexual Yavapai College does not deny or limit any student or employee Misconduct the ability to participate in or benefit from any program offered by the institution on the basis of sex or gender. Sexual harassment, which includes acts of sexual violence such as rape, sexual assault, sexual battery, sexual coercion, unwanted touching, dating/relationship violence and stalking, are forms of gender-

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Semester Syllabus based discrimination prohibited by Title IX.

The college encourages students and employees to report incidents of sexual misconduct as soon as possible to the Title IX Coordinator or to a Deputy Title IX Coordinator. Contact information for Coordinators can be found at Sexual Misconduct Resources. (www.yc.edu/v6/studentservices/sexualmisconduct.html) Disability Resources ensures qualified students with disabilities Disability equal access and reasonable accommodations in all Yavapai Resources: College academic programs and activities. YC supports disability and accessibility awareness and promotes a welcoming environment to all. The Americans with Disabilities Act of 1990 and Section 504 of the Rehabilitation Act of 1973 prohibits discrimination on the basis of disability and requires Yavapai College to make reasonable accommodations for those otherwise qualified individuals with a disability who request accommodations. (www.yc.edu/disabilityresources) Yavapai College is committed to providing educational support services to students with documented disabilities.

Accommodations for a student must be arranged by the student through Disability Resources by phone 928.776.2085 or email disabilityresources@yc.edu.

I will respond to emails within 24 hours Monday through Friday.

Faculty Response Typically the response is much faster.

Time: All students need to be aware of and comply with the safety and Covid-19 operational protocols for COVID-19 while on Yavapai College’s Statement: campuses or centers. Safety protocols can be found at this link: https://www.yc.edu/v6/college-police/covid-19/reentry/

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