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Syllabus ( CBRN 522 )

   Basic information
Course title: The Use of Genetically Modified Microorganisms for the Detection of Explosives
Course code: CBRN 522
Lecturer: Prof. Dr. Yelda ÖZDEN ÇİFTÇİ
ECTS credits: 7.5
GTU credits: 3 (3+0+0)
Year, Semester: 2018, Spring
Level of course: Second Cycle (Master's)
Type of course: Area Elective
Language of instruction: Turkish
Mode of delivery: Face to face
Pre- and co-requisites: none
Professional practice: No
Purpose of the course: The aim of this course is to design explosive-sensitive bioreporter microorganisms for students at graduate level using genetic engineering methods and to provide information about the potential applications of microbial bioreporters as well as analyses that can be done using these microorganisms.
   Learning outcomes Up

Upon successful completion of this course, students will be able to:

  1. Knowledge of strategies that can be used to genetically programmed microorganisms to detect explosives

    Contribution to Program Outcomes

    1. Define, Chemical, Biological, Radiological and Nuclear (cbrn) concepts in a specialized way and apply them in CBRN defense
    2. Understand relevant research methodologies and techniques and their appropriate application within his/her research field
    3. Question and find out innovative approaches
    4. Develop stragies and/or product in order decicease risks of national and intenational CBRN threats
    5. Develop an awareness of continuous learning in relation with modern technology
    6. Effectively express his/her research ideas and findings both orally and in writing
    7. Be aware of issues relating to the rights of other researchers and of research subjects e.g. confidentiality, attribution, copyright, ethics, malpractice, ownership of data
    8. Apply of chemical, biological, radiological and nuclear concepts to individual, social, economic, technological and ethical aspects

    Method of assessment

    1. Written exam
    2. Seminar/presentation
  2. Types of microorganisms that can be used for determination of explosives and giving information about possible uses of these microorganisms as a diagnostic tool

    Contribution to Program Outcomes

    1. Define, Chemical, Biological, Radiological and Nuclear (cbrn) concepts in a specialized way and apply them in CBRN defense
    2. Understand relevant research methodologies and techniques and their appropriate application within his/her research field
    3. Summarize, document, report and reflect on progress
    4. Gain original, independent and critical thinking, and develop theoretical concepts and tools
    5. Develop stragies and/or product in order decicease risks of national and intenational CBRN threats
    6. Develop an awareness of continuous learning in relation with modern technology
    7. Support his/her ideas with various arguments and present them clearly to a range of audience, formally and informally through a variety of techniques
    8. Apply of chemical, biological, radiological and nuclear concepts to individual, social, economic, technological and ethical aspects

    Method of assessment

    1. Written exam
    2. Seminar/presentation
  3. Environmental microbiology and bioremediation of bacteria that can identify residues of explosives

    Contribution to Program Outcomes

    1. Define, Chemical, Biological, Radiological and Nuclear (cbrn) concepts in a specialized way and apply them in CBRN defense
    2. Understand relevant research methodologies and techniques and their appropriate application within his/her research field
    3. Analyze critically and evaluate his/her findings and those of others
    4. Question and find out innovative approaches
    5. Develop stragies and/or product in order decicease risks of national and intenational CBRN threats
    6. Develop an awareness of continuous learning in relation with modern technology
    7. Find out new methods to improve his/her knowledge
    8. Effectively express his/her research ideas and findings both orally and in writing
    9. Be aware of issues relating to the rights of other researchers and of research subjects e.g. confidentiality, attribution, copyright, ethics, malpractice, ownership of data
    10. Apply of chemical, biological, radiological and nuclear concepts to individual, social, economic, technological and ethical aspects

    Method of assessment

    1. Written exam
    2. Seminar/presentation
   Contents Up
Week 1: General Information About Microbial Bioreporters
Week 2: Design of Bioreporter Microorganisms
Week 3: The Use of Synthetic Biology into the Design of Microorganisms as Bioreporters
Week 4: The Applications of Bioreporter Microorganisms
Week 5: The Importance of Bioreporter Microorganisms in Biodegradation
Week 6: The Use of Microorganisms Designed as Bioreporters in Environmental Contamination
Week 7: Midterm Exam
Week 8: Future Application Potentials of Bioreporters and Their Potential Contribution
Week 9: The Use of Different Organisms Changed by Genetic Engineering for the Detection of Explosives
Week 10: The Use of Bacteria Changed by Genetic Engineering for the Detection of Explosives
Week 11: Current Studies about the Use of Bacteria Changed by Genetic Engineering for the Detection of Explosives
Week 12: The Use of Yeast Changed by Genetic Engineering for the Detection of Explosives
Week 13: The Use of Microalgae Changed by Genetic Engineering for the Detection of Explosives
Week 14: New Approaches to the Use of Microorganisms for the Detection of Explosives
Week 15*: Student Homework Presentations
Week 16*: Final Exam
Textbooks and materials: Whole Cell Sensing Systems I: Reporter Cells and Devices, Mifumi Shimomura-Shimizu, Isao Karube (auth.), Shimshon Belkin, Man Bock Gu (eds.) Advances in Biochemical Engineering / Biotechnology 117, Springer-Verlag Berlin Heidelberg, 2010.
Whole Cell Sensing Systems II: Applications, Mifumi Shimomura-Shimizu, Isao Karube (auth.), Shimshon Belkin, Man Bock Gu (eds.), Advances in Biochemical Engineering / Biotechnology 118, Springer-Verlag Berlin Heidelberg, 2010.
Recommended readings: Van Der Meer, J. R., & Belkin, S. “Where microbiology meets microengineering: design and applications of reporter bacteria”, Nature Reviews Microbiology, 8, 511-522, 2010.
  * Between 15th and 16th weeks is there a free week for students to prepare for final exam.
Assessment Up
Method of assessment Week number Weight (%)
Mid-terms: 7 35
Other in-term studies: 0
Project: 0
Homework: 15 15
Quiz: 0
Final exam: 16 50
  Total weight:
(%)
   Workload Up
Activity Duration (Hours per week) Total number of weeks Total hours in term
Courses (Face-to-face teaching): 3 14
Own studies outside class: 6 14
Practice, Recitation: 0 0
Homework: 15 1
Term project: 0 0
Term project presentation: 1 1
Quiz: 0 0
Own study for mid-term exam: 20 1
Mid-term: 2 1
Personal studies for final exam: 20 1
Final exam: 3 1
    Total workload:
    Total ECTS credits:
*
  * ECTS credit is calculated by dividing total workload by 25.
(1 ECTS = 25 work hours)
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