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Posted:
Janaury 22, 2007
Revised: January 24, 2007
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 Colorized electron micrograph of the spores from a powdery mildew fungus (courtesy of www.denniskunkel.com) |
Microbiology Laboratory (BIOL 3702L) Spring 2007 Semester Course Instructor: Dr. Chet Cooper Associate Professor, Department of Biological Sciences Email: crcooper01@ysu.edu Telephone: 330.941.1361 |
Teaching Assistant (TA) Information: NOTE:
When contacting
your TA by email, please
place the words "BIOL 3702" in the Subject line Mr. Nathaniel Barasa Office
Hours: Monday,
Tuesday, and Wednesday
11:00 AM - 12:00 PM Office Location: Ward Beecher Science Hall, Room 3046 Campus Telephone: 330.941.2063 eMail: nwbarasa@student.ysu.edu Mr.
Greg Bosiljcic
Office
Hours: Monday, 12:00
PM - 1:00 PM;
Tuesday and Thursday, 12:30 PM - 1:30 PM Office Location: Ward Beecher Science Hall, Room 4006 Campus Telephone:330.941.2454 eMail:bosiljcicg@yahoo.com Mr.
Vince Ragozine
Office
Hours: Monday and
Wednesday, 2:00 PM - 2:45 PMOffice Location: Ward Beecher Science Hall, Room 4006 Campus Telephone: 330.941.2454 eMail: vkragozine@yahoo.com |
Important PDF Documents:  This button downloads a PDF version of the Laboratory Schedule for the Spring 2007 Semester  revised 1/23/07 Click the button to download a PDF version of the Lecture Schedule for the Spring 2007 Semester  Permission Form for the Spring 2007 Semester  This button downloads a PDF version of the Syllabus Acknowledgement Form for the Spring 2007 Semester  This link downloads a PDF version of the Laboratory Safety Guidelines/Procedures The following links download a PDF document containing the indicated Skills Test information    |
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General
Laboratory Information:
The laboratory portion of this course consists two formal one-hour thirty minute sessions per week. Students are advised, however, that satisfactory progress requires additional time spent in the laboratory outside the scheduled laboratory period. Open laboratory periods are posted both below and in the laboratory. These times are subject to modification, so please refer to back to this information periodically.
The laboratory activities are divided into exercises meant to not only convey the basic technological skills needed by microbiologists, but also to supplement and enhance particular topics covered by the instructor during the lecture section of the course. Skills and concepts to be covered include microscopy, sterile technique, proper handling of microbes, microbial culture, the identification of microbes by biochemical and other means, the microbiology of food/water, and the basic principles of microbial growth, metabolism, control, and genetics. In addition, the laboratory section of BIOL 3702 has been designated as Writing Intensive and will help students fulfill the YSU General Education Requirement (GER).
The laboratory portion of this course consists two formal one-hour thirty minute sessions per week. Students are advised, however, that satisfactory progress requires additional time spent in the laboratory outside the scheduled laboratory period. Open laboratory periods are posted both below and in the laboratory. These times are subject to modification, so please refer to back to this information periodically.
Monday: 9:30 AM - 1:00 PM
Tuesdsay: 8:00 AM - 10:00 AM and 11:30 AM - 4:00 PM
Wednesday: 9:30 AM - 1:00 PM and 4:30 PM - 6:30 PM
Thursday: 8:00 AM - 10:00 AM and 11:30 AM - 1:00 PM
Friday: 8:00 AM - 9:00 AM and 12:00 Pm - 1:00 PM
Tuesdsay: 8:00 AM - 10:00 AM and 11:30 AM - 4:00 PM
Wednesday: 9:30 AM - 1:00 PM and 4:30 PM - 6:30 PM
Thursday: 8:00 AM - 10:00 AM and 11:30 AM - 1:00 PM
Friday: 8:00 AM - 9:00 AM and 12:00 Pm - 1:00 PM
Depending upon the exercise(s) being
performed each week,
students are
expected to return to the laboratory to complete their work or make
additional observations. There are
specific rules required of students attending
open laboratory periods. Please read the following information
carefully! Your cooperation will be expected! Violations of
this policy will result in the loss of privilege to attend any open
laboratory period.
While a scheduled laboratory is in session, students not enrolled in that particular section must not enter the laboratory during the first hour.
While a scheduled laboratory is in session, students not enrolled in that particular section must not enter the laboratory during the first hour.
- Entrance to a scheduled laboratory session after the first hour requires permission of the course instructor or the TA in charge of that particular session. If permission is not granted, you must not enter the laboratory.
- When attending an open laboratory period, each individual student is required to sign the log book both upon entering and upon leaving the laboratory.
- No one other than a currently enrolled BIOL 3702 student may enter the laboratory at any time.
- Do not disturb any materials that do not belong to you.
- Do not take/use any materials that would not normally be provided for you for the particular exercise upon which you are completing.
- If you need materials that are not available in the laboratory, first seek help from Mr. Joe Bielecki or Mr. Dan Sahli or his assistant. Their office is located immediately “behind” the laboratory in Cushwa 2049. Under no circumstances are students permitted in the media kitchen.
- All other rules for working in the microbiology laboratory during a regularly scheduled session will be followed by students during open laboratory periods.
The laboratory activities are divided into exercises meant to not only convey the basic technological skills needed by microbiologists, but also to supplement and enhance particular topics covered by the instructor during the lecture section of the course. Skills and concepts to be covered include microscopy, sterile technique, proper handling of microbes, microbial culture, the identification of microbes by biochemical and other means, the microbiology of food/water, and the basic principles of microbial growth, metabolism, control, and genetics. In addition, the laboratory section of BIOL 3702 has been designated as Writing Intensive and will help students fulfill the YSU General Education Requirement (GER).
Attendance
of the laboratory section is essentially mandatory. A student may
be able to attend another laboratory section in certain cases of an
unexpected, excused absence. However, students may not
arbitrarily attend any laboratory section of their choosing or by their
whimsical fancy. Attendance of a different laboratory section
requires permission of both the course instructor and the TA(s)
responsible for the laboratory sections involved.
All students are
expected to arrive before the scheduled time for
laboratory to begin. The laboratory instructor often reviews the
activities to be performed that day and advises the class of any
changes to be made. This information is critical to the success
of the laboratory exercise(s) being conducted. This information
will not be repeated for tardy students not having an acceptable
excuse.
Rules governing student conduct and the techniques used in the
laboratory are found in the laboratory manual. Also, a separate set of Laboratory
Rules is posted to this web page and available through a button at
the top of this section as well as elsewhere in this web page.
Students must read, know, and follow these directives at
all times. Violations of expected laboratory conduct are not
tolerated.
In addition to the above stated rules, students must strictly adhere to
the following directives:
- Sterile technique will be observed at all times in this laboratory.
- There will be no eating, drinking, smoking, or grooming in the laboratory.
- Never remove or discard materials belonging to another students. Egregious violations of this type will be considered an instance of academic dishonesty.
- Students are never to remove materials from the laboratory without the explicit, written permission of Dr. Cooper.
Required
Materials:
The required laboratory manual for BIOL 3702L is:
by J. P. Harley. 2005. WCB McGraw-Hill.
(If you buy a used manual, be sure it includes all the laboratory report page.)
Finally,
students must
acquire a laboratory coat (or smock) and safety
glasses to be permitted to participate in all laboratory
activities. Most of all other materials necessary for BIOL
3702L will be provided for the students.
Lindsay
Hunter and Ms. Sandy Musuka. Their contact information and office
hours are posted b
Laboratory Exercises:
Students will be required to turn in laboratory reports based upon their work. Mainly, this will consist the “tear-out sheet” reports located at the rear of the required laboratory manual. Hence, it is important that each student secure a new laboratory manual. Used manuals may not contain all the pertinent report sheets. The course instructor/TA will not provide copies of missing report sheets. (Note: good, quality photocopies of these “tear-out sheets” are acceptable for submission to your TA). The BIOL 3702 laboratory schedule lists particular questions to be answered on these sheets in addition to the required data. Please note that some of these exercises are to be performed by each individual, whereas assigned groups will perform some of the other activities. Not every laboratory report will be collected and graded. Typically, without warning the course instructor/TA will request specific reports at the beginning of a laboratory session. These reports must be submitted immediately. If they are not, they will be considered late and, except for excused absences or instances of tardiness. A total of 100 points has been allocated to this grade component with each one collected valued at a point level to be determined. A score of “0” will be recorded for late or missing laboratory reports.
Four (4) quizzes
have
been scheduled throughout the semester.
These quizzes will be given at the beginning of a laboratory
session. Each is worth 15 points. Students who miss a
laboratory quiz due to an unexcused
absence or instance of tardiness will not be permitted to take the
quiz. For individuals who miss a quiz, score will be recorded as
a “0”.
Skills Tests:
Students will perform three specific Skills Tests to assess their mastery of specific microbiological techniques. Details regarding each of these activities are posted as PDF documents as llinks in the laboratory schedule or through buttons at the top of this web page. The first two skills tests are worth 5 points each and the last is worth 20 points. Students who miss a skills test due to an unexcused absence or instance of tardiness will not be permitted to complete it. For these individuals, a score will be recorded as a “0”.
Skills Tests:
Students will perform three specific Skills Tests to assess their mastery of specific microbiological techniques. Details regarding each of these activities are posted as PDF documents as llinks in the laboratory schedule or through buttons at the top of this web page. The first two skills tests are worth 5 points each and the last is worth 20 points. Students who miss a skills test due to an unexcused absence or instance of tardiness will not be permitted to complete it. For these individuals, a score will be recorded as a “0”.
Students have the
opportunity to earn a total of 10 points in the
category entitled “Laboratory Citizenship”. These points are
subjectively granted by your course instructor/TA. Award of these
points is primarily based upon your behavior/participation in
maintenance of the laboratory and its equipment. For example,
students are responsible for the equipment in their drawers and
cabinets. It is essential that students maintain this equipment
by following specific guidelines or directions given by the
instructor/TA during the course. Moreover, your
willingness/ability to follow standard laboratory practices will be
monitored. This includes the prompt and proper disposal of
cultures or other materials in the acceptable manner. Hence,
failure to follow guidelines/directions or actively participate as a
“good laboratory citizen” will result in the loss of Laboratory
Citizenship points. The number of points deducted from this
category is at the discretion of the course instructor/TA.
A
laboratory schedule has been established and is given below. It
is also
available as as PDF document through a link
at the top of this page.
This
schedule contains dates and assignments pertinent to the laboratory
portion of BIOL 3702, including dates of laboratory quizzes, skills
tests, reading
assignments,
etc. Lastly,
while a syllabus is
considered as a type of contract between the instructor and student,
extenuating circumstances can affect the complete fulfillment of the
syllabus. Hence, students should view the Syllabus
Disclaimer
associated with this web page.
This button downloads a PDF version of the
Laboratory Schedule for the Spring 2007 Semester
Click on one of the "Week" links to go to that section of the Laboratory Schedule
| January Week 1: Jan. 22-25 Week 2: Jan. 29 - Feb. 1 |
February Week 3: Feb. 5-8 Week 4: Feb. 12-15 Week 5: Feb. 19-22 Week 6: Feb. 26 - Mar. 1 |
March Week 7: Mar. 5-8 Week 8: Spring Break Week 9: Mar. 19-22 Week 10: Mar. 26 - Mar. 29 |
April/May Week 11: Apr. 2-5 Week 12: Apr. 9-12 Week 13: Apr. 16-19 Week 14: Apr. 23-26 Week 15: Labs Closed |
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Monday, January 22nd and Tuesday, January 23rd
Class Activity:
- Meet your Teaching Assistant (TA)
- Orientation to the laboratory
- Review:
- Rules of Conduct and General Safety, pages xi-xii
- Summary of Universal Precautions and Laboratory Safety Procedures, pages xiii-xiv
- General Laboratory Procedures - available at the following URL:
http://www.as.ysu.edu/~crcooper/LabRules.pdf
Individual
Activity:
- Exercise #1: Bright-Field Light Microscopy and Microscopic Measurement of Organisms, pages 2-12
- Perform: Steps 1-8 of Procedure for Basic Microscopy: Proper Use of the Microscope, pages 3-5
- Laboratory Report: Complete all of page 9 and Question #3 on page 11; Short answer questions on pages 12-14 to be assigned by the TA
Wednesday, January 24th and Thursday, January 25th
Quiz
I: Laboratory Safety and Procedures
Individual Activity:
- Continue with Exercise #1
- Exercise #6: Negative Staining, pages 34-38
- Perform: Steps 1-7 of Procedure, pages 35-36
- Laboratory Report: Complete all of page 37; Short answer questions on page 38 to be assigned by the TA
WEEK 2
Monday, January 29th and Tuesday, January 30th
Individual Activity:
- Exercise #7: Smear Preparation and Simple Staining, pages 39-44
- Perform: Steps 1-4 of Procedure – Smear Preparation, pages 40-41, and Steps 1-6 of Procedure – Simple Staining, page 41
- Laboratory Report: Complete Question #1 on page 43; Short answer questions on pages 43-44 to be assigned by the TA
- Exercise #8: Gram Stain, pages 45-52
- Perform: Steps 1-11 of Procedure for Traditional Gram-Stain Technique, pages 47-48 and Steps 1-4 for Control Procedure, page 48
- Laboratory Report: Complete Questions #1 and #2 on page 51; Short answer questions on page 52 to be assigned by the TA
Wednesday, January 31st and Thursday, February 1st
- Continue with Exercises 7 and 8
WEEK 3
Monday, February 5th and Tuesday, February 6th
Individual Activity:
- Exercise #9: Acid-Fast Staining, pages 53-58
- Perform: Ziehl-Neelson Procedure only, pages 54-55
- Laboratory Report: Complete Questions #1 through #3 on page 57; Short answer questions on page 58 to be assigned by the TA
- Exercise #10: Endospore Staining, pages 59-64
- Perform: Procedure on pages 60-61
- Laboratory Report: Complete Questions #1 through #3 on page 63; Short answer questions on page 64 to be assigned by the TA
Wednesday, February 7th and Thursday, February 8th
Quiz II: covers Exercises #8
through #10
- Continue with Exercises 8 and 9
WEEK 4
Monday, February 12th and Tuesday, February 13th
Skills Test I: Gram
Stain Unknown (download the instructions for this
test
at the following URL: http://www.as.ysu.edu/~crcooper/3702ST1.pdf)
at the following URL: http://www.as.ysu.edu/~crcooper/3702ST1.pdf)
Individual Activities:
- Exercise #14: Culture Transfer Instruments, Techniques, and Isolation and Maintenance of Pure Cultures, pages 85-93
- Perform: All Steps of Procedure for Culture Transfer Instruments and Techniques, pages 88-90
- Laboratory Report: Complete all of page 91; Short answer questions on pages 92-93 to be assigned by the TA
- Exercise #16: The Streak-Plate Technique and Differential Media, pages 101-106
- Perform: Steps 5-7 of Procedure on page 102 (tryptic soy agar plates will be provided for you– omit steps 1-4) and steps 5-6 of Procedure on page 104 (media will be provided for you– omit steps 1-4)
- Laboratory Report: Questions on pages 105-106 to be assigned by the TA
Wednesday, February 14th and Thursday, February 15th
- <>Complete All Portions of Skills Test I
WEEK 5
Monday, February 19th and Tuesday, February 20th
Skills Test II: Streak
Plate (download the instructions for this test
at the following URL: http://www.as.ysu.edu/~crcooper/3702ST2.pdf)
NOTE: Inoculate plates, and then submit to TA for incubation/scoring.
at the following URL: http://www.as.ysu.edu/~crcooper/3702ST2.pdf)
NOTE: Inoculate plates, and then submit to TA for incubation/scoring.
Group Activity:
- Exercise #19: Determination of Bacterial Numbers, pages 119-126
- Perform: Procedure – Standard Plate Count on page 120
- Laboratory Report: Complete Question #1 on page 123; Short answer questions on pages 125-126 to be assigned by the TA
Wednesday, February 21st and Thursday, February 22nd
- Complete All Portions of Skills Test II and Exercise #19
WEEK 6
Monday, February 26th and Tuesday, February 27th
Group Activities:
- Exercise #20: Carbohydrates I: Fermentation and ß-Galactosidase Activity, pages 128-134
- Perform: All Steps of Procedure – Durham Tube, page 131
- Laboratory Report: Complete Questions #1 and #2 on page 133; Short answer questions on pages 133-134 to be assigned by the TA
- Exercise #21: Carbohydrates II: Triple Sugar Iron Test, pages 135-140
- Perform: Procedure on page 137
- Laboratory Report: Complete Question #1 on page 139; Short answer questions on pages 139-140 to be assigned by the TA
- Exercise #24: Proteins, Amino Acids, and Enzymes I: Hydrogen Sulfide Production and Motility, pages 149-154
- Perform: Procedure on page 151
- Laboratory Report: Complete Questions #1 and #2 on page 153; Short answer questions on pages 153-154 to be assigned by the TA
- Exercise #25: Proteins, Amino Acids, and Enzymes II: The IMViC Tests, pages 155-162
- Perform: All Procedures – Durham Tube, pages 157-160
- Laboratory Report: Complete Questions #1, #2, and #3 on page 161; Short answer questions on pages 161-162 to be assigned by the TA
- Exercise #28: Proteins, Amino Acids, and Enzymes V: Catalase Activity, pages 171-174
- Perform: Step 4 of Procedure – Second Period on page 172 should be conducted with cultures to be provided for you
- Laboratory Report: Complete Question #1 on page 173; Short answer questions on pages 173-174 to be assigned by the TA
Wednesday, February 28th and Thursday, March 1st
- Complete All Portions of Exercises 20-21, 24-25, and 28
WEEK 7
Monday, March 5th and Tuesday, March 6th
Group Activities:
- Exercise #30: Proteins, Amino Acids, and Enzymes VII: Oxidase Test, pages 181-186
- Perform: Procedure – Second Period on page 182 (omitting KEY Oxidase Test Strip method) by placing bacteria on slides (as in Exercise 28) using cultures to be provided
- Laboratory Report: Complete Question #1 on page 185; Short answer questions on pages 185-186 to be assigned by the TA
- Exercise #31: Proteins, Amino Acids, and Enzymes VIII: Urease Activity, pages 187-192
- Perform: Procedure – First Period on page 188 and Procedure – Second Period (the following day) on page 189
- Laboratory Report: Complete Question #1 on page 191; Short answer questions on pages 191-192 to be assigned by the TA
- Exercise #32: Proteins, Amino Acids, and Enzymes IX: Lysine and Ornithine Decarboxylase Test, pages 193-198
- Perform: Procedure – First Period (Standard Method) on page 194 and Procedure - Second Period on page 196 (omitting KEY test instructions)
- Laboratory Report: Complete Questions #1 and #2 on page 197; Short answer questions on pages 197-198 to be assigned by the TA
- Exercise #33: Proteins, Amino Acids, and Enzymes X: Phenylalanine Deamination, pages 199-204
- Perform: Procedure on page 200 (omit Step 4 – First Period)
- Laboratory Report: Complete Question #1 on page 203; Short answer questions on pages 203-204 to be assigned by the TA
- Exercise #34: Proteins, Amino Acids, and Enzymes XI: Nitrate Reduction, pages 205-210
- Perform: Procedure on page 206
- Laboratory Report: Complete Question #1 on page 209; Short answer questions on pages 209-210 to be assigned by the TA
Wednesday, March 7th and Thursday, March 8th
- Complete All Portions of Exercises 30-34
WEEK 8
Spring Break – Laboratory Closed
WEEK 9
Monday, March 19th and Tuesday, March 20th
Skills Test III: Bacterial Unknowns (download the instructions for this test at the following URL: http://www.as.ysu.edu/~crcooper/3702ST3.pdf
Wednesday, March 21st and Thursday, March 22nd
Quiz III: Biochemical Diagnostic Tests
Continue with Skills Test III
WEEK 10
Monday, March 26th and Tuesday, March 27th
Continue with Skills Test III
Wednesday, March 28th and Thursday, March 29th
Continue with Skills Test III
WEEK 11
Monday, April 2nd and Tuesday, April 3rd
Complete Skills Test III and Submit Report by End of Laboratory Session
Group Activities:
Exercise #39: Temperature, pages 242-246
Perform: Procedure on pages 243-244
Laboratory Report: Complete Questions #1, #2 and #3on page 245; Short answer questions on page 246 to be assigned by the TA
Exercise #40: pH, pages 247-250
Perform: Procedure on page 248
Laboratory Report: Complete Questions #1 through #7on page 249; Short answer questions on page 250 to be assigned by the TA
Wednesday, April 4th and Thursday, April 5th
Complete All Portions of Exercises 39 and 40
WEEK 12
Monday, April 9th and Tuesday, April 10th
Exercise #41: Osmotic Pressure, pages 251-254
Perform: Procedure on page 252
Laboratory Report: Complete Questions #1 through #8 on page 253; Short answer questions on page 254 to be assigned by the TA
Exercise #61: Bacterial Mutation, pages 389-392
Perform: Procedure on page 390
Laboratory Report: Complete Questions #1 through #3 on page 391; Short answer questions on page 392 to be assigned by the TA
Wednesday, April 11th and Thursday, April 12th
Complete All Portions of Exercises 41 and 61
WEEK 13
Monday, April 16th and Tuesday, April 17th
Exercise #50: Bacterial Count of a Food Product, pages 315-318
Perform: Procedure on pages 315-316
Laboratory Report: Complete Questions #1 through #3 on page 317; Short answer questions on page 318 to be assigned by the TA
Wednesday, April 18th and Thursday, April 19th
Complete All Portions of Exercises 41 and 61
WEEK 14
Monday, April 23rd and Tuesday, April 24th
Complete All Laboratory Work, Clean Out Incubators, Clean Up Work Area
Wednesday, April 25th and Thursday, April 26th
Quiz IV: Covers Exercises 9-41, 50, and 61
WEEK 15
Monday, April 30th and Tuesday, May 1st
Laboratory Closed
Wednesday, May 2nd and Thursday, May 3rd
Laboratory Closed