Course Syllabus

Posted: August 18, 2015
(Revised August 20, 2015)

Introduction to Microbiology (BIOL 3702) - CRN 41857, Fall 2015

I am Dr. Chet Cooper, your lecture instructor and laboratory coordinator for Microbiology (BIOL 3702).  BIOL 3702 is a four semester-hour upper-division course at Youngstown State University (YSU).  The course is intended for undergraduate students majoring in biology, but students in other majors may also find this course quite beneficial.
As your instructor, I am wholly committed to providing you a sound education in the foundations of microbiology. With the same commitment on your part, I guarantee that your experiences in this course will give you a different and accurate perspective of the role that microbes play in the environment as well as in human affairs.
This blog for BIOL 3702 has been devised for the delivery of course materials as well as the syllabus for this course.  This blog contains all the necessary information that students need to actively participate in this course.  I strongly encourage students to browse through the entire blog and make contributions to it as appropriate.
As your first assignment for this course, carefully and completely read through this blog-based syllabus for BIOL 3702.  If there is something that you don't understand or is not clear, please tell me.  I will be happy to alleviate your misunderstanding or confusion.  Pay particular attention to the section entitled "Acknowledgement of Syllabus".  A Syllabus Acknowledgement Statement (SAS) must be submitted to me by email no later than the first exam of the semester.  My policy is that I will not officially record any grades or scores for this course without my having received from you a completed SAS.  In essence, by submitting this statement, you signify that you have accessed and reviewed the electronic syllabus as well as agree to abide by all of its requirements and policies.
I very much look forward to an exceptionally enjoyable semester as your microbiology instructor.  Should you have any questions or comments about anything related to this, please be sure to contact me.
Best Wishes for a Great Semester in Microbiology!


Course Description
BIOL 3702/3702L. Microbiology.  Fundamentals of the biology of microbes.  The principles of microbial structure, function, reproduction, metabolism, genetics, phylogeny, host-parasite relationships, and immunity.  Fundamental technical skills acquired through laboratory experiences.  Three hours lecture, three hours laboratory.  Prereq.  BIOL 2601 and concurrent enrollment in BIOL 3702L.  4 s.h.+ 0 s.h.
The BIOL 3702 curriculum has been devised to encompass the recommendations set forth by the American Society for Microbiology.  By implementing these recommendations, BIOL 3702 is a broadly effective and cohesive undergraduate course in microbiology.  As designed, BIOL 3702 provides a mixed lecture/laboratory educational experience focused upon the rudimentary concepts of microbiology.  BIOL 3702 not only prepares students for more advanced courses in the microbiological sciences, but also provides knowledge essential to many diverse careers in biology, e.g., biotechnology, biomedical research, etc.  This course also serves students desiring a career in medicine, dentistry, podiatry, etc. 
Students who enroll in BIOL 3702 must concurrently enroll in a laboratory section, BIOL 3702L, as well.  The laboratory component of this BIOL 3702 is an integral part of Microbiology.  There are no exceptions to enrolling in BIOL 3702L, although there may be some consideration for work previously accomplished by students repeating Microbiology (see me for information). Also, there is a fee for BIOL 3702L which helps defray the costs of materials used in the laboratory.


Course Goals and Objectives
BIOL 3702 will prepare students for professional careers that utilize the principles of the microbiological sciences through the mastery of the following specific objectives:
   learn the concepts of microbial anatomy, growth, metabolism, and genetics
   identify virulence factors associated with microbial diseases
   realize the foundations of microbial taxonomy and phylogeny
   appreciate the role of microbes in human affairs
   understand the mechanism of action for common antibiotics
   comprehend the basis of the host-response to microbial infection
   recognize the importance of proper public dissemination of information
   accurately perform basic laboratory procedures
   practice data acquisition, analysis, and reporting
   learn to write effectively about microbiology-related topics
Students who successfully complete BIOL 3702 will be provided the tools needed for continued learning in the area of microbiology by achieving the following specific objectives:
   learning scientific terminology
   implement the scientific method
   efficiently and effectively communicate scientific knowledge
   understand the fundamentals of the microbiological sciences
   apply problem-solving techniques
   work collaboratively with others

Lecture Schedule
Lectures in this course are scheduled for Mondays, Wednesdays, and Fridays.  Lectures begin promptly at 10:00 AM and, except in rare instances, will end no later than 10:50 AM. Lectures will be held in Room 3022 (auditorium) in Ward Beecher Science Hall.  There may be days in which out-of-class assignments will be given in lieu of a formal lecture or in-class activity.  All lecture components (e.g., lectures, Pre-Lecture Quizzes, in-class assignments, and examinations) have been scheduled.  All of these items are noted in the Lecture Schedule which is available through the appropriately marked tab at the top of this blog page.



Laboratory Schedule
Four different laboratory sessions associated with this course are scheduled to meet twice a week.  The laboratory is located in Cushwa Hall, Room 2321.
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  • Mon./Wed., 8:00 – 9:30 AM (CRN 41858)
  • Mon./Wed., 1:00 – 2:30 PM (CRN 41859)
  • Tue./Thu., 8:00 – 9:30 AM (CRN 41860)
  • Tue./Thu., 10:00 – 11:30 AM (CRN 41861)
Laboratory sessions will begin promptly at their scheduled times.  All laboratory activities have been scheduled and are listed in a PDF document available on the Laboratory Documents tab located at the top of this blog page.

Students may be required to return to an "open laboratory session" to continue to work on certain experiments.  These open times are given in a PDF document available on the Laboratory Documents tab located at the top of this blog page.


Lecture Notes
I make PDF copies of my PowerPoint lecture slides available to students via the appropriately marked tab at the top of this blog page.  However, students should be aware that faculty are NOT required to provide lecture notes.  Lecture notes are a privilege; lecture notes are NOT an established student right.  Often times, I will not be able to have versions of my lecture notes available until just prior to lecture.  I do my best to notify students of my recent posting of lecture notes via email.


Course Materials
The following items may be obtained from any vendor that the student desires.  To my knowledge, however, only the YSU Bookstore carries the specially printed version of the required laboratory manual.  You may wish to inquire with Campus Book and Supply on Lincoln Avenue to see if this vendor also stocks the laboratory manual.  
Required textbook for BIOL 3702
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Required Lecture Text and Materials
  • Prescott’s Microbiology (9th ed.) by Willey et al. (2014).  Please note that the 9th edition is the official edition for this course.  I am not responsible for material differences if a student uses a different edition.  This textbook is also used for Advanced Microbiology and Environmental Microbiology courses at YSU.
  • 3" x 5" index cards. The cards may ruled, unruled, or of any color.  These cards MUST BE 3" x 5" in size.  Larger or smaller cards are NOT acceptable.  These cards will be used for in-class and laboratory quizzes/writing exercises.
Required Laboratory Materials
  • Laboratory Exercises in Microbiology, 9th edition, by J. P. Harley.  2013.  WCB McGraw-Hill.  Students may have the option of buying the complete laboratory manual or the one that has been specially printed for this course.  The latter has only those exercises we will be using this semester.  NOTE:  if purchasing a used laboratory manual, be sure that it contains all of the 'tear out' pages (excercise answer sheets).
  • Laboratory coat/smock.  This item can be any garment that the student is willing to have damaged or subjected to disposal (e.g., old sweatshirt).
  • Protective eyewear.  Regular glasses will not suffice as a substitute.  Students must obtain some sort of approved protective eyewear that can be worn at all times in the laboratory.
  • Sharpie marker (or other brand of permanent marker).  Any color will suffice, although black or blue is preferred.
http://previewcf.turbosquid.com/
  • 3" x 5" index cards. See above
Note: Surgical gloves are NOT provided for students, nor are they required.  In fact, gloves can not only be a nuisance at times, but also may contribute to spills and breakages.  Nonetheless, some students feel more secure if they have gloves available (and some like them for the feeling of self-importance).  Hence, students desiring to wear gloves in the laboratory, for whatever reason, will need to purchase their own.  I strongly recommend that heavy-duty cleaning gloves not be used in the laboratory for safety reasons.



Attendance
Lecture: Students are expected to attend lecture on a regular (daily) basis, although attendance will not be taken.  Students are solely responsible for any material covered during a class when they are absent.  Moreover, if an activity occurs during a class at which a student is absent, no “make up” opportunities will be given, e.g., a bonus point opportunity will not be extended to students who are absent from class the day it is offered.  Students are strongly encouraged to attend each lecture since satisfactory progress in the course is directly related to in-class engagement.  Students who miss class due to a legitimate reason (military service, University-related activity, etc.) should consult with me. 

Please note that the lecture for this course begins promptly at 10:00 AM on Mondays, Wednesdays, and Fridays throughout the semester.  Students are expected to be punctual.  Please note that the lecture section operates on “Ward Beecher Time” which may or may not correlate to the time that exists at other places on campus.  Students who are late may not be permitted to participate in a particular in-class activity (e.g., surprise bonus quiz). This is entirely at my discretion. 

NOTE:  Except for extenuating circumstances, it is generally unacceptable for a student to request to take an examination at a time other than the scheduled date.  Having a second examination the day before, the day after, or on the same day is absolutely certain not to evoke any sympathy from me.  Moreover, requests for an earlier or later examination to go on vacation are entirely unacceptable.

Laboratory: Attendance of laboratory is mandatory.  Missed exercises cannot be “made up”.  Moreover, laboratory sections begin sharply at the appointed time.  Tardiness is not acceptable.



Classroom and Laboratory Decorum
General.  Students should consult the following resources regarding academic decorum:

The Code              Undergraduate Bulletin

Academic Dishonesty.  Students are hereby notified that academic dishonesty, in all its forms, will be met with severe sanctions, including the possibility of dismissal from the University.  Knowing about past, current, or impending cases of academic dishonesty and not reporting it to me or your teaching assistant is also a culpable action.  
http//www.clkr.com

Electronic Communication/Data Storage Devices.  During lecture and laboratory, all cellular telephones or other electronic communication devices must be turned off or set in the quiet/vibration mode of operation.  Cell phones, tablets, and the like MUST NEVER be used on the laboratory workbench.  This can serve as a source of microbial contamination outside the laboratory.  Data storage devices (e.g., tablets, lap top computers, etc.) may be used during lectures only and solely if they do not cause distraction to other students or the course instructor.  Students failing to meet this expectation will be invited to leave the classroom until such time that they comply with this policy.

NOTE: Any person using any electronic device for email, Facebook, etc., during laboratory or lecture risks confiscation of the device and/or removal from the class.

http://www.busyteacher.org
Simply put: NO CALLS, TEXTING, OR WEB SURFING DURING LECTURE OR IN THE LABORATORY!!!

During examinations and quizzes, all electronic devices (including personal desktop assistants, computers, etc.) are strictly prohibited.  Students violating this policy will be suspected to have committed academic dishonesty.

Examinations and Quizzes.  Examinations are to be taken without assistance from other students.  If you are aware of any student cheating or having a copy of the current exam, please contact me.  Academic dishonesty in any form will not be tolerated in this course.  Penalties for such action will be enforced.

Decorum.  At all times, students are expected to exhibit behavior appropriate.  Such behavior is delimited by University policy.  Inappropriate behavior, including disrespect for me or the teaching assistants, is subject to expulsion from one or more lecture/laboratory sessions without the opportunity to begin or complete the assigned exercises.  In cases of extremely inappropriate behavior, I will recommend more severe sanctions (including dismissal from the University).

Proper decorum in the laboratory environment includes the following:
  • Appropriate dress is REQUIRED.  Students are expected to wear clothing that would be appropriate for working in a professional laboratory environment.
  • Students are REQUIRED to wear a lab coat and safety glasses.
  • Students are REQUIRED to wear closed-toed footwear only.
  • The use of electronic items (e.g., cell phones) is NOT permitted.

http//www.associationadvisor.com
Email Communications

Students may contact me by using any email system they desire.  However, all electronic communications initiated by me with students enrolled in this course will only be made using the University’s YSU Mass Email system.  Hence, the use of the YSU email account provided to you is mandatory.  Please be sure to activate your free YSU email account and check it periodically for messages from me.  Students are especially encouraged to check their email messages the morning prior to class for any last minute notifications.  Missing any email message from me because you did not activate you YSU email account or by your failure to check for messages on a regular basis will not form the basis of an acceptable excuse for not being aware of information critical to this course.


Other Resources
Writing Center.  Students having difficulty in writing should consider contacting the YSU Writing Center for help. The Center's mission is to help students become more independent, confident, and successful writers. Students can contact the Center by email (wwcenter@ysu.edu) or by telephone (330.941.3055).  Also, students can schedule appointments on-line at the following URL: http://web.ysu.edu/writingcenter/

Center for Student Progress.  The Marion G. Resch Center for Student Progress, located below the Youngstown State University Bookstore, is available to assist students in successfully completing their University experience. The Center is designed to intervene actively in the lives of students to help them achieve academic and social success in college.  Various types of services are available including tutoring.  The Center can be contacted via the following URL: http://cms.ysu.edu/administrative-offices/center-student-progress/csp-home.  Also, the telephone number for the Center is 330.941.3538.


Special Accommodations
In accordance with University procedures, if you have a documented disability and require accommodations to obtain equal access in this course, please contact me privately to discuss your specific needs.You must be registered with the Center for Student Progress (CSP) Disability Services, located at 275 Fifth Avenue, and provide a letter of accommodation to coordinate reasonable accommodations. You can reach CSP Disability Services at 330.941.1372. 



Non-Discrimination Policy
Youngstown State University does not discriminate on the basis of race, color, national origin, sex, sexual orientation, gender identity and/or expression, disability, age, religion or veteran/military status in its programs or activities. Please visit www.ysu.edu/ada-accessibility for contact information for persons designated to handle questions about this policy.”


Grade Components/Grading Scale
A student’s final grade for the course will be based upon the total number of points earned.  There are at total of 750 points available for students to earn in this course. The following items compose the various grade components for this course:

Lecture Grade Components
The lecture section of this course is comprised of opportunities to earn 600 points via the following grading components:

  • Examinations (dates have been established; see Lecture Schedule): Five examinations will be given - some in class and some take-home.  Each is worth 100 points.  Make-up examinations will be given only due to extenuating circumstances and ONLY at my discretion.  Make-up examinations may take any form, including the use of oral or essay versions.
  • Pre-Lecture Quizzes: Before almost every lecture, a short 5 point quiz will be administered.  If a student is late or absent, no opportunity to make up the quiz will be given.  However, more than 20 quizzes are anticipated to be administered, so missing one or two pre-lecture quizzes should not affect a student's course score.
Laboratory Grade Components
The laboratory section of this course is comprised of opportunities to earn 150 points (plus 10 bonus points) via the following grading components:
  • Safety Quiz – 10 points: This quiz will cover those important safety items and rules as presented by your laboratory instructor.
  • Pre-Lab Quizzes – 40 points (8 at 5 points each): These quizzes will cover the background reading material provided in the laboratory manual for the scheduled exercise(s) to be performed that day/week.
  • Laboratory Reports – 40 points: These reports consist of those "tear-out" pages located at the end of each exercise in your laboratory manual. Your laboratory instructor will randomly choose which laboratory reports to be submitted for grading.  The call for these reports will not be announced prior to the date due.  Reports will be due immediately at the beginning of the laboratory session.  Hence, students will not be able to complete their lab reports "on the spot" and are strongly advised to keep their reports up to date.
  • Skills Tests: These exercises are designed to assess the skill set of students.  The particular instructions for these Skill Tests are located in the Laboratory Documents tab located at the top of this blog page.
    • Microscopy – 5 points
    • Streak plate – 5 points
    • Gram stain – 5 points
    • Bacterial unknown – 20 points
  • Citizenship – 10 points: These points represent a subjective assessment by your laboratory instructor regarding your behavior in the lab, including collegiality, ability to follow instructions, cooperation in keeping the lab neat and clean, etc.
  • Comprehensive Laboratory Quiz – 15 points: This quiz will cover those key concepts that you should have mastered during the semester.
  • Microscope Help Card – 10 bonus points: See the Laboratory Document tab at the top of this blog page to download a PDF describing the purpose and use of this item. 
Bonus Points/Projects
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The number of "bonus points" available in this course are strictly limited.  Their availability is wholly at my discretion.  Students MUST NOT ask for bonus points or special projects to earn bonus points.  Such requests will be denied.

At my discretion, I may place some bonus point opportunities on examinations.   Moreover, all bonus points earned by students, outside those on examinations or pre-lecture quizzes, will be limited to 15 points total, which amounts to 2% of the total available points for this course.  

Grading Scale
The following grading scale will be used to determine a student’s final grade in this course:
  • Grade of A =  675 or more total points earned
  • Grade of B =  600-674 total points earned
  • Grade of C =  525-599 total points earned
  • Grade of D =  450-524 total points earned
  • Grade of F = 449 or less total points earned
Please note – This grading scale is absolute!  For example, a grade of “B” will be given to a student who earns 674 points.  NO EXCEPTIONS!  My reasoning is simple - at a minimum, every student in this course has the ability to earn at least 2% of the total course points as bonus points. Realistically, the bonus opportunities will likely reach 5% of the total course points available.  Students should realize the following: good grades are not an entitlement; they are an honor to be earned.



Permission to Post Scores/Grades
On a periodic basis, I will post current scores through a link this blog page (click on “Current Scores/Grades” on the right of this blog page under Significant Web Links).  However, to have your grades/scores posted, you must give me your explicit permission to do so.


To grant me permission to post your course scores, follow the instructions given below exactly as indicated.

Using your YSU email account, send the following message to Dr. Cooper at crcooper01@ysu.edu:

Subject Line [must be used exactly as noted here]:

BIOL 3702 Grade Posting Permission - Fall 2015

Message: [must use this wording - copy and paste]

I hereby grant Dr. Cooper permission to post my course scores/grades on a periodic basis to the blog page associated with BIOL 3702.  I understand that I may revoke this permission at any time by sending an email to Dr. Cooper. I understand that once I grant permission to post my grades/scores, provided that Dr. Cooper and the University take all reasonable security precautions, they shall hold no responsibility for the misappropriation of this information by other individuals.

The posting PIN number I wish to use is: XXXXX  [Replace the XXXXX with a five (5) digit number (no letters).  The first number must NOT be a “0”.]



Resources Used By Dr. Cooper:
Unless I indicate otherwise, all material presented to students in this course represents either i) selected portions of information contained within the course’s textbook(s) or supplementary material, ii) information published in the scientific literature, iii) current issues reported by the news media, or iv) knowledge otherwise commonly known to professional microbiologists or mycologists.  I make no claim of “ownership” of facts and/or ideas presented in this course unless specifically noted.  All facts and/or ideas are used solely for educational purposes.  I make every effort to appropriately attribute facts and/or ideas to their proper sources.


Distribution of Course Material:
All original material on the BIOL 3702/3702L blog page, as well as all original material presented in either the classroom or laboratory, including orally-transmitted lectures, is considered protected by a copyright held by me.  In general, students enrolled in BIOL 3702/3702L have permission to download, print, and distribute materials copyrighted by me without my expressed written permission so long as such materials are not used for activities i) associated with the commission of academic dishonesty, ii) intended to circumvent course policies, iii) which result in monetary profit by either the student or others, and iv) that do not violate copyright protections.

NOTE: Any portion of my notes or other materials may not be sold, bartered, or traded without my expressed written permission.


Syllabus Acknowledgement Statement
Students are required to submit a Syllabus Acknowledgement Statement (SAS) to me.  Without the SAS, I will not officially record any grades or scores for this course.  In essence, by submitting this statement, you signify that you have accessed and reviewed the blog syllabus as well as agree to abide by all of its requirements and policies.  Submit the SAS to me by following the instructions given below exactly as indicated.

Using your YSU email account, send the following message to Dr. Cooper at crcooper01@ysu.edu:

Subject Line [must be used exactly as noted here]:

BIOL 3702 Syllabus Acknowledgement - Fall 2015

Message: [must use this wording - copy and paste]

I hereby acknowledge that I have accessed and read each of the links/documents on web page corresponding to BIOL 3702 in which I am enrolled.

In addition, with this email message, I agree with the following statements:
  • I fully understand the policies set forth in this syllabus.
  • I acknowledge and understand that my failure to abide by these policies may have significant academic consequences for which I am solely responsible.
  • I acknowledge and agree that the content described by this syllabus can be changed at the discretion of the course instructor in order to meet the course objectives.
  • My signature does not in any manner signify the waiver of any rights granted to me by the policies, rules, and regulations of Youngstown State University.