General Microbiology Lab

Page | 1 BIE 2127, Fall 2019

Syllabus

BIE 2101 Microbiology - BIE 2127 General Microbiology Laboratory

Term: Fall, 2019

Instructor: Dr. Erdal Eroglu

Department: Department of Bioengineering, Manisa Celal Bayar University

Office: C Block, Room#219 Office Phone: (0236) 201 2455

E-mail: erogluerdal@gmail.com Web page: http://erdaleroglu.cbu.edu.tr

Credit: This is a 3 credits (2 hours theoretical and 2 hours laboratory) class.

Lab time: Every Wednesday from 13.15 PM to 14.55

Room#: Theoretical: C 209, Laboratory: C-Z12

Required textbook for theoretical course: Brock Biology of Microorganisms, by MT

Madigan, JM Martinko, 14th Edition (or 13th Edition), 2014.

Required textbook for lab course: Microbiology: A Laboratory Manual, by J.

Cappuccino and N. Sherman, 10th

Edition, Pearson Education 2014

Course Description:

This module is a major requisite for the students of bioengineering and it is presented in

lectures. Its contents focus on basic microbiological techniques involved in studying the

general characteristics of microorganisms and their growth requirement.

Course Objective:

Learning how to deal with different microorganisms in laboratory and studying the

general characteristics of microorganisms.

Lab Grading Policy

Short reports will be submitted at the end of the each lab. class. They will be worth 20%

of final grade.

Extra Credit:

Note: THERE ARE NO EXTRA CREDIT ASSIGNMENTS! In an effort to treat all

students in a fair and equitable manner, I do not allow extra credit work. Also, please do

not ask for extra point(s) at the end of the semester.

General Microbiology Lab

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Make-up Policy:

No make-ups will be given!!!! Students are allowed to drop one 100 point unit exam.

Dates of exams may change, so be sure to keep up with updated information.

Announcements and contact:

All course announcements, assignments and grades will be posted online using my

personal web page (http://erdaleroglu.cbu.edu.tr). You can also find the syllabus on the

tab “Classes” under “Categories” on the web page. Updates to this syllabus will be

posted; please check periodically.

Also, you can reach me by email (erogluerdal@gmail.com) and the lab assisstants

anytime to ask your question or to discuss any topic/problem that you have.

Office hours:

Regularly scheduled office hours will be posted on my office door. These are times when

I will definitely be in my office, but I am happy to help at other times if my schedule

permits. Anytime I am in my office, please feel free to stop by. If you want to be sure of

my availability outside regular office hours, you can schedule an appointment.

Lab assistants are also available for Thursday at 4:00 PM. You can ask your questions

and observe the experiment results with them for the next day from the lab. Assistants

will be happy to answer your questions as possible as their programs allow.

Lecture Policy:

Students are expected to attend all lectures. Lectures are a necessary supplement to the

textbook. In the event of a missed lecture, the student is responsible for the lecture

material, any assignments which were given announcements or any other information that

was provided in class.

Lateness Policy:

This class is scheduled from 10.50 AM to 12.30 PM on every Tuesday. I will start

lecturing at 10.51 AM. You are not required to come to class, unless there is an exam.

Consistent lateness will result in loss of participation points and missed material. It is also

extremely disrupting to me and to your classmates. If you do come in the first 15 minutes

after lecture has started, please wait outside until I let you enter the classroom. Please sit

down as quietly and quickly as possible. If you are going to be more than 15 minutes late,

please do not come to class, wait until break time. The starting time for lab is 13:15 and

the same rules will be applied to this course.

Attendance at Exams:

Students are required to attend class on exam days. Make-up exams will not be given

General Microbiology Lab

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without a valid excuse. Validity of the excuse will be up to the discretion of the

instructor. Be forewarned; you will need to have a very good reason for missing an exam!

I am not trying to be harsh. I am only trying to treat all students in a fair and equitable

manner. If the student is aware of some responsibility which will interfere with an exam

date, it must be discussed with the instructor in advance. If an exam is missed without

advance notice due to illness or emergency, a valid written excuse will be required from

the doctor/school nurse in the case of illness in the case of a family emergency. If a

student does not have a valid excuse for missing an exam, the student will receive a zero

for the missed exam.

Classroom Protocol:

Appropriate classroom behavior is defined and guided by complete protection for the

rights of all students and faculty to a courteous, respectful classroom environment. That

environment is free from distractions such as late arrivals, early departures, inappropriate

conversations and any other behaviors that might disrupt instruction and/or compromise

students’ access to the education. Inappropriate classroom protocol may lead to removal

from the classroom and a lowering of the lecture grade. If continuous, it can lead to

forced withdrawal from the class.

Disabilities:

Students with documented disabilities who may need academic accommodations should

discuss these needs with their professor during the first two weeks of class.

Note to students:

Because of the wealth of info, some memorization will be needed to acquire a solid

background in microbiology, but we will also need to learn to apply that assimilated

knowledge. The chapter problems and problem handouts are designed to aid in that

aspect. Try to complete these problems on your own before resorting to the posted

solutions or solutions manual. I am not only interested in the material directly presented,

but also that you develop the ability to apply concepts to situations not previously

encountered. Do not treat this subject matter as a mere storehouse of facts. I do expect

you to predict the outcome of a particular situation from the background you will obtain

in the course.

Exams are intended to assess mastery of the subject not just familiarity with it. Answers

to exam questions need to be reasonable and use terminology appropriately. Do not do

them in your head and expect to complete them on paper when taking the exam.

Remember I need to grade what is on the paper; I cannot gauge what is in your head. If

you are not comfortable with the material, you are not ready for the exam. Please be

honest with yourself – seek help if you are not comfortable with the material. I will do all

I can to help you, but I can’t do it for you. It requires a serious effort on your part. I do

not gain any satisfaction from giving a student a low grade. However, I do need to

assess what you have learned and assign an appropriate grade based on that.

General Microbiology Lab

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Cheating and Scholastic Dishonesty:

All students are expected to be familiar with Cheating Policy & Procedures. The policy

on Academic Honesty can be accessed from the YÖK web page http://www.yok.gov.tr/web/guest/icerik/-/journal_content/56_INSTANCE_rEHF8BIsfYRx/10279/17960 Cheating in this course will result in a failing grade (F). All cheating incidents, actual or

suspected, will be reported to the Department Chair of Bioengineering and Dean of the

Faculty of Engineering. Cheating includes, but is not limited to, the following:

1. Looking at a classmate’s paper during an exam or quiz.

2. Talking to a classmate during an exam or quiz.

3. Communicating via cell phone, laptop (i.e. text messaging, talking, sending e-mails,

etc.) during an exam or quiz.

If you want an “A” in the course, you should expect to:

1. Attend all classes, take good notes during the class, and do well on the graded in-class

exercises. You may choose to use the textbook for the class to take notes, since many

of the powerpoint presentations during lecture will include figures directly from the

book chapters.

2. Sit in the front of the class where you can see, hear and engage with the professor.

Sitting in the back exposes you to disruptive, talking students

3. Read all assigned material. Concept-map each chapter. Master the vocabulary for

each topic.

4. Prepare for the mid-term exams by anticipating questions. Instructors always give

clues as to what they think are important concepts during the class. If you come to

class late or don’t engage your attention, you will miss this information.

5. Carry out all the assignments with excellent material, significant time commitment,

and good writing. Insist on reviewing the assignment before it is submitted and be

sure it is the best you can do.

6. Carry out all the assignments with excellent material, significant time commitment,

and good writing. Insist on reviewing the assignment before it is submitted and be

sure it is the best you can do.

General Microbiology Lab

BIE 2127, Fall 2019 Page | 6

Date Groups Tentative Course Content

Sep 25 Lecture in classroom

Oct 2 Group 1 Module 1. Laboratory Safety Rules, Microbiological Culture Media Preparation and Sterilization &

Collection of Environmental Samples, Culture Transfer Instruments, Techniques, and Isolation and

Maintenance of Pure Cultures – Streak-plate Technique, Spread-Plate Technique Oct 9 Group 2

Oct 16 Group 1 Module 2. Smear Preparation & Gram Staining & Bright-Field Light Microscope

Oct 23 Group 2

Oct 30 Group 1 Module 3. Effect of Temperature on Mesophilic Bacteria Growth using Pour-Plate Technique

Nov 6 Group 2

Mid-term Exams Mid-term Exams (Exam date will be announced)

Nov 20 Group 1 Module 4. Serial Dilution & Agar Plate Technique to Quantitate Viable Cells

Nov 27 Group 2

Dec 4 Group 1 Module 5. The Effects of Chemical Agents on Bacteria I: Disinfectants

Determination of MIC using broth tube dilution method Dec 11 Group 2

Dec 18 Group 1 Module 6. The Effects of Chemical Agents on Bacteria II: Antimicrobial Agents

Determination of MIC using Kirby-Bauer Disc Diffusion Susceptibility Test Dec 25 Group 2

Final Exam (Exam date will be announced)

2019-2020 Fall, BIE 2127 General Microbiology, BIE 2101 Microbiology Lab. Groups

Group I Group II

Std. No Name/Surname

Std. No Name/Surname

150323003 Ülkü BALANDIZ

150323016 Hasan İŞBİLİR

180323051 Doğancan ERTUGRUL

180323037 Simay ÖZVAROL

130323003 Memiş Bünyamin DAĞLI

140323001 Elif Canay BOZOĞLU

150323020 Necla Merve OĞUR

160323003 Meltem YAĞCIOĞLU

180323034 Oğuzhan GÜLER

180323018 Elif HARDURA

140323025 Melis ULUCAMKIRAN

140323028 Özge TOPCU

160323005 Eda NAS

160323010 Temmuz Ege KAPLAN

170323054 Merve Yağmur UZAM

170323053 Aslıhan ŞAHİN

140323039 Hande ÖZDEMİR

160323012 Ayşenur KESİMCİ

160323021 Elif Şifa ATAMAN

160323023 Dilara SABIRTAŞ

170323049 Yeşim DEMİRCİ

170323048 Yasemin EKELİK

160323029 Ezgi Dinay AKANSOY

160323032 Egemen İLHAN

170323047 Yağmur Doğa LEVENT

170323046 Yağız ALEMDAR

160323033 Tuğba BODUR

160323034 Taha UÇAR

170323043 Süeda Betül TAŞKIN

170323041 Sıla KAZAKLI

160323036 Gürkan Ali KAPSIZLAR

160323040 Bilal ÖZEN

170323040 Sezen DAĞDEVİREN

170323039 Semah KORKMAZ

170323003 Aleyna ÖĞRETEN

170323004 Aleyna FİLİZFİDANOĞLU

170323038 Pınar Biray KIRTAŞ

170323036 Özlem EREZ

170323005 Ali KARAKAŞ

170323006 Arda HANCI

170323034 Nisanur POLAT

170323033 Nil SAZLI

170323008 Ayşe Nur SARIYILDIZ

170323010 Burcu UGRAL

170323031 Melisa KAYA

170323030 Kardelen HOROZ

170323011 Büşra AYHAN

170323028 Gülcan PORTAKAL

170323012 Büşra LULACİ

170323013 Büşra ARSLAN

170323027 Fırat Ege ÇALIŞKAN

170323026 Esma Nur BEYTUR

170323014 Büşranur ULUPINAR

170323015 Cansu ERSÖZ

170323025 Emine Ecem KAŞIKÇI

170323024 Elif YAVŞAN

170323016 Ceylin KÖYMEN

170323020 Didem Seçil ERTAN

170323023 Ekinsu YILMAZOK

170323022 Ecem GİLİTCİ

170323021 Dilara PEHLİVAN

T.C.

MANISA CELAL BAYAR UNIVERSITY

BIOENGINEERING DEPARTMENT

…….. LABORATORY REPORT

EXPERIMENT ….

NAME OF EXPERIMENT

REPORT …

Name-SURNAME

Lecturer

Name SURNAME

Laboratory Assistants

Name SURNAME

MANISA, 2019

İçindekiler ABSTRACT ................................................................................................................................................ 3

1. INTRODUCTION ............................................................................................................................... 3

1.1 General Writing Rules .................................................................................................................... 3

2. MATERIALS & METHODS ................................................................................................................. 4

2.1 Materials .................................................................................................................................. 4

2.2 Methods .................................................................................................................................. 4

2.3 General Writing Rules.............................................................................................................. 4

3. RESULTS ........................................................................................................................................... 5

4. DISCUSSION ..................................................................................................................................... 6

5. CONCLUSION ................................................................................................................................... 6

6. REFERENCES .................................................................................................................................... 6

ABSTRACT

General informations about experiment are given in this title. The purpose, scope,

method and conclusions of the experiment should be mentioned clearly and concise.

This part should be included approximately 100-150 words.

1. INTRODUCTION

A microbe, or microorganism, is a microscopic organism that comprises either a single

cell (unicellular); cell clusters; or multicellular, relatively complex organisms. The study of

microorganisms is called microbiology, a subject that began with Anton van Leeuwenhoek’s

discovery of microorganisms in 1675, using a microscope of his own design [1].

A Drawing of Microbes: This is a drawing of what Arthur Hill Hassall saw under a

microscope in a sample of water taken from the River Thames at two locations. Hassall was

able to identify many microscopic organisms not perceptible to the unaided eye [2].

Microorganisms are very diverse; they include bacteria, fungi, algae, and protozoa;

microscopic plants (green algae); and animals such as rotifers and planarians [1,3].

Objective of this experiment ……….

1.1 General Writing Rules

It can be written on both sides of the paper.

The text should lean on both sides and margin settings should be done. ,

Pages should be numbered. Add→Page Number

Passive voice should be used during writing.

“Times New Roman 12p” should be used and 13 punto-bold characters can be used for

first degree titles and 12 punto-bold characters can be used for other degree titles.

Paragraphs should be started from 1 cm inside.

References must be specified at the end of the sentence. (You can look at the internet how

to write references in the sentences).

Introduction part should be written approximately 1 page and objective of experiment

should be expressed in this section.

2. MATERIALS & METHODS

2.1 Materials

The materials which is used in this experiment are shown in below.

- Microscope (figure 1.a)

- Glass tubes (figure 1.b)

- Agar plate

Figure 1. (a) Microscope (b) Glass tube

2.2 Methods

In recent years automated cell counting has become an attractive alternative to manual

hemocytometer-based cell counting, offering more reliable results in a fraction of the time

needed for manual counting.

2.3 General Writing Rules

In this text, only materials were used and methods should be written. Obtained results,

graphs, figures, photos should be put and examined in results part and these results’

interpretations and comparisons should be explained in discussion part.

You can write them as text or as items.

Before the figures or tables, description must be made in text.

There must be a description of table or figure. This description should be written before

the table and after the figure.

Table and figure sizes must not be too large.

These rules should be used in “Methods, Results and Discussion”

3. RESULTS

Maximum values of growth parameters obtained at the stationary growth phase of the

strains were used for statistical calculation and for interpretation of the data. Temperature had

a significant (P B 0.05) effect on all growth parameters (OD600, viable counts, and dry mass)

for each strain. For the bacteria P. heparinus, P. piscium and P. cryoconitis, maximum

OD600 values were obtained at 20, 1–20, and 10C, respectively (Fig. 1, Table 2).

Figure 2. ……

Table 1. ……………..

4. DISCUSSION

All growth parameters measured in this study indicate that psychrophiles, i.e.

microorganisms able to grow well around 1C, are well adapted to low temperatures, as

demonstrated by high values for biomass formation at this temperature. The results obtained

in this study clearly show that the maximum growth temperature or the temperature at which

microbial growth is fastest (often named the ‘‘optimum temperature’’) was in no case (as

tested with three bacterial and three yeast strains) the temperature at which strains produced

the highest amount of biomass, as determined with OD600, viable counts and cell dry mass.

On the contrary, especially psychrophiles exhibited best performance in terms of biomass

production at substantially lower temperatures, i.e. at a temperature lower by 20C than the so-

called optimum ‘‘growth temperature’’. The same effect was noted for mesophilic strains

(biomass production was highest at temperatures lower by ca. 10C than the maximum growth

temperature), although to a lower extent than observed with psychrophiles.

5. CONCLUSION

All growth parameters measured in this study indicate that psychrophiles, i.e.

microorganisms able to grow well around 1C, are well adapted to low temperatures, as

demonstrated by high values for biomass formation at this temperature. The results obtained

in this study clearly show that the maximum growth temperature or the temperature at which

microbial growth is fastest (often named the ‘‘optimum temperature’’) was in no case (as

tested with three bacterial and three yeast strains) the temperature at which strains produced

the highest amount of biomass, as determined with OD600, viable counts and cell dry mass.

6. REFERENCES

Yeşilada, E., 1978, Kış koşullarında inşaat, Bayındırlık İşleri Dergisi, 44(21):31-38 s.

(tek yazarlı makale)

Acar, N. ve Estaş, S., 1986, Kesikli Seri Üretim Sistemlerinde Planlama ve Kontrol

Çalışmaları, MPM Yayınları, 309, Ankara, 356s. (one author articles)

Akal, Z., et al., 1985, İnşaat Endüstrisinde Verimlilik ve İş Etüdü Önemi ve Kullanımı,

Milli Prodüktivite Merkezi Yayınları, 317, Ankara, 156s. (two or more author articles)

Bursal, N., 1968, Maliyet Muhasebesi Prensipleri ve Tatbikatı, Yalkın Of-set, İstanbul,

442s. (one author books)

Bayındırlık Bakanlığı, 1974, Yapı İşleri Birim Fiat Tarifleri, Bayındırlık Bakanlığı

Personeli Biriktirme ve Yardımlaşma Sandığı, 47, Ankara, 156s. (official sources)

Ören, T. 1998. “Bilişimde Özenli Türkçe”,

http://www.site.uottawa.ca/~oren/pubs/pubs1998/pubs-1998-03-BOT.pdf (Date accessed:

03.03 2009) (web sources)