FACULTY OF ENGINEERING
Department of Genetics and Bioengineering
GBE 355 | Course Introduction and Application Information
Course Name |
Microbial Biofilms
|
Code
|
Semester
|
Theory
(hour/week) |
Application/Lab
(hour/week) |
Local Credits
|
ECTS
|
GBE 355
|
Fall/Spring
|
3
|
0
|
3
|
5
|
Prerequisites |
None
|
|||||
Course Language |
English
|
|||||
Course Type |
Elective
|
|||||
Course Level |
First Cycle
|
|||||
Mode of Delivery | - | |||||
Teaching Methods and Techniques of the Course | DiscussionGroup WorkQ&ALecture / Presentation | |||||
Course Coordinator | ||||||
Course Lecturer(s) | ||||||
Assistant(s) | - |
Course Objectives | The aim of this course is to explain the formation and dispersion processes of microbial biofilms and the environmental signals and signaling networks regulating these processes, to provide information about biofilm infections, biofouling, and the strategies to combat biofilms. |
Learning Outcomes |
The students who succeeded in this course;
|
Course Description | This course covers the formation of microbial biofilms, the structure and functions of the extracellular polymeric substance synthesized in biofilm formation, environmental signals and intracellular and intercellular signaling networks regulating the biofilm formation and dispersion processes, and biofouling on surfaces, chronic infections and implant-associated infections caused by biofilms. In addition, this course also provides information on the current strategies developed to combat biofilms. |
|
Core Courses | |
Major Area Courses |
X
|
|
Supportive Courses | ||
Media and Management Skills Courses | ||
Transferable Skill Courses |
WEEKLY SUBJECTS AND RELATED PREPARATION STUDIES
Week | Subjects | Related Preparation |
1 | Introduction to biofilms | Staffan Kjelleberg, Michael Givskov. The Biofilm Mode of Life: Mechanisms and Adaptations, 1st Edition. Horizon Bioscience, 2007. Chapter 1 |
2 | Mechanisms of bacterial adhesion, biofilm formation, biofilm life cycle | Staffan Kjelleberg, Michael Givskov. The Biofilm Mode of Life: Mechanisms and Adaptations, 1st Edition. Horizon Bioscience, 2007. Chapter 2 and Chapter 3 |
3 | Functions and components of extracellular polymeric biofilm matrix (EPS) | Staffan Kjelleberg, Michael Givskov. The Biofilm Mode of Life: Mechanisms and Adaptations, 1st Edition. Horizon Bioscience, 2007. Chapter 4 |
4 | Regulatory signaling networks of biofilm formation and dispersion, and cyclic diguanylate monophosphate (c-di GMP) | Staffan Kjelleberg, Michael Givskov. The Biofilm Mode of Life: Mechanisms and Adaptations, 1st Edition. Horizon Bioscience, 2007. Chapter 5 |
5 | Regulatory signaling networks of biofilm formation and dispersion, and quorum sensing | Staffan Kjelleberg, Michael Givskov. The Biofilm Mode of Life: Mechanisms and Adaptations, 1st Edition. Horizon Bioscience, 2007. Chapter 6 & Rina Rani Ray, Moupriya Nag, Dibyajit Lahiri. Biofilm-Mediated Diseases: Causes and Controls, 1st Edition. Springer Nature, 2021. Chapter 2 |
6 | Biofilm dispersion and strategies that trigger biofilm dispersion | Staffan Kjelleberg, Michael Givskov. The Biofilm Mode of Life: Mechanisms and Adaptations, 1st Edition. Horizon Bioscience, 2007. Chapter 9 |
7 | Midterm | |
8 | Biofilms and biofouling | Rina Rani Ray, Moupriya Nag, Dibyajit Lahiri. Biofilm-Mediated Diseases: Causes and Controls, 1st Edition. Springer Nature, 2021. Chapter 4 |
9 | Biofilms and chronic infections | Rina Rani Ray, Moupriya Nag, Dibyajit Lahiri. Biofilm-Mediated Diseases: Causes and Controls, 1st Edition. Springer Nature, 2021. Chapter 4 and Chapter 5 |
10 | Biofilms and implant-associated infections | Rina Rani Ray, Moupriya Nag, Dibyajit Lahiri. Biofilm-Mediated Diseases: Causes and Controls, 1st Edition. Springer Nature, 2021. Chapter 7 |
11 | Biofilms and antimicrobial resistance | Rina Rani Ray, Moupriya Nag, Dibyajit Lahiri. Biofilm-Mediated Diseases: Causes and Controls, 1st Edition. Springer Nature, 2021. Chapter 8 |
12 | Control and inhibition of biofilm formation, novel treatment strategies for biofilm infections | Rina Rani Ray, Moupriya Nag, Dibyajit Lahiri. Biofilm-Mediated Diseases: Causes and Controls, 1st Edition. Springer Nature, 2021. Chapter 9 and Chapter 10 |
13 | Novel treatment strategies for biofilm infections | Rina Rani Ray, Moupriya Nag, Dibyajit Lahiri. Biofilm-Mediated Diseases: Causes and Controls, 1st Edition. Springer Nature, 2021. Chapter 10 |
14 | Student presentations | - |
15 | Semester review | |
16 | Final exam |
Course Notes/Textbooks | Staffan Kjelleberg, Michael Givskov. The Biofilm Mode of Life: Mechanisms and Adaptations, 1st Edition. Horizon Bioscience, 2007. ISBN: 9781904933335
|
Suggested Readings/Materials |
Zbigniew Lewandowski, Haluk Beyenal. Fundamentals of Biofilm Research, 2nd Edition. CRC Press, 2014. ISBN: 9781466559608
Berne, C., Ellison, C. K., Ducret, A. et al. Bacterial adhesion at the single-cell level. Nature Reviews Microbiology 2018, 16, 616–627. https://doi.org/10.1038/s41579-018-0057-5
Donlan, R. M. Biofilms: microbial life on surfaces. Emerging Infectious Diseases 2002, 8, 881-890. https://doi.org/10.3201/eid0809.020063
Rumbaugh, K. P., Sauer, K. Biofilm dispersion. Nature Reviews Microbiology 2020, 18, 571–586. https://doi.org/10.1038/s41579-020-0385-0
Koo, H., Allan, R., Howlin, R. et al. Targeting microbial biofilms: current and prospective therapeutic strategies. Nature Reviews Microbiology 2017, 15, 740–755. https://doi.org/10.1038/nrmicro.2017.99 |
EVALUATION SYSTEM
Semester Activities | Number | Weigthing |
Participation |
1
|
5
|
Laboratory / Application | ||
Field Work | ||
Quizzes / Studio Critiques | ||
Portfolio | ||
Homework / Assignments |
1
|
15
|
Presentation / Jury |
1
|
15
|
Project | ||
Seminar / Workshop | ||
Oral Exams | ||
Midterm |
1
|
25
|
Final Exam |
1
|
40
|
Total |
Weighting of Semester Activities on the Final Grade |
4
|
60
|
Weighting of End-of-Semester Activities on the Final Grade |
1
|
40
|
Total |
ECTS / WORKLOAD TABLE
Semester Activities | Number | Duration (Hours) | Workload |
---|---|---|---|
Theoretical Course Hours (Including exam week: 16 x total hours) |
16
|
3
|
48
|
Laboratory / Application Hours (Including exam week: '.16.' x total hours) |
16
|
0
|
|
Study Hours Out of Class |
14
|
2
|
28
|
Field Work |
0
|
||
Quizzes / Studio Critiques |
0
|
||
Portfolio |
0
|
||
Homework / Assignments |
1
|
15
|
15
|
Presentation / Jury |
1
|
18
|
18
|
Project |
0
|
||
Seminar / Workshop |
0
|
||
Oral Exam |
0
|
||
Midterms |
1
|
18
|
18
|
Final Exam |
1
|
23
|
23
|
Total |
150
|
COURSE LEARNING OUTCOMES AND PROGRAM QUALIFICATIONS RELATIONSHIP
#
|
Program Competencies/Outcomes |
* Contribution Level
|
||||
1
|
2
|
3
|
4
|
5
|
||
1 | To have adequate knowledge in Mathematics, Science and Genetics and Bioengineering; to be able to use theoretical and applied information in these areas on complex engineering problems. |
|||||
2 | To be able to identify, define, formulate, and solve complex Genetics and Bioengineering problems; to be able to select and apply proper analysis and modeling methods for this purpose. |
X | ||||
3 | To be able to design a complex system, process, device or product under realistic constraints and conditions, in such a way as to meet the requirements; to be able to apply modern design methods for this purpose. |
|||||
4 | To be able to devise, select, and use modern techniques and tools needed for analysis and solution of complex problems in Genetics and Bioengineering applications; to be able to use information technologies effectively. |
X | ||||
5 | To be able to design and conduct experiments, gather data, analyze and interpret results for investigating complex engineering problems or Genetics and Bioengineering research topics. |
|||||
6 | To be able to work efficiently in Genetics and Bioengineering disciplinary and multi-disciplinary teams; to be able to work individually. |
X | ||||
7 | To be able to communicate effectively in Turkish, both orally and in writing; to be able to author and comprehend written reports, to be able to prepare design and implementation reports, to present effectively, to be able to give and receive clear and comprehensible instructions. |
|||||
8 | To have knowledge about global and social impact of Genetics and Bioengineering practices on health, environment, and safety; to have knowledge about contemporary issues as they pertain to engineering; to be aware of the legal ramifications of Genetics and Bioengineering solutions. |
|||||
9 | To be aware of ethical behavior, professional and ethical responsibility; to have knowledge about standards utilized in Genetics and Bioengineering applications. |
|||||
10 | To have knowledge about industrial practices such as project management, risk management, and change management; to have awareness of entrepreneurship and innovation; to have knowledge about sustainable development. |
|||||
11 | To be able to collect data in the area of Genetics and Bioengineering, and to be able to communicate with colleagues in a foreign language. |
|||||
12 | To be able to speak a second foreign language at a medium level of fluency efficiently. |
|||||
13 | To recognize the need for lifelong learning; to be able to access information, to be able to stay current with developments in science and technology; to be able to relate the knowledge accumulated throughout the human history to Genetics and Bioengineering. |
*1 Lowest, 2 Low, 3 Average, 4 High, 5 Highest
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