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Syllabus ( MBG 575 )

   Basic information
Course title: Molecular Marine Microbiology
Course code: MBG 575
Lecturer: Assist. Prof. Sonay ÖZKAN
ECTS credits: 7.5
GTU credits: 3 (3+0+0)
Year, Semester: 1/2, Fall and Spring
Level of course: Second Cycle (Master's)
Type of course: Area Elective
Language of instruction: English
Mode of delivery: Face to face
Pre- and co-requisites: none
Professional practice: No
Purpose of the course: Teach students molecular marine microbiology, barophylic, pscryopylic, simbiyotic marine bacteria and their molecular and adaptation mechanisms.
   Learning outcomes Up

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

  1. Describe usage of marine microorganisms for molecular biology.

    Contribution to Program Outcomes

    1. Define and manipulate advanced concepts of Biology
    2. Identify structure-function relationships in cells and organisms
    3. Know and apply the techniques used in gene and protein engineering / microbial identification / enzyme technologies / mammalian cell culture and plant tissue culture manipulations.
    4. Work effectively in multi-disciplinary research teams
    5. Find out new methods to improve his/her knowledge.
    6. Effectively express his/her research ideas and findings both orally and in writing
    7. Demonstrate professional and ethical responsibility.

    Method of assessment

    1. Written exam
  2. Describe molecular mechanism in symbiotic, barophylic, thermophylic and holophylic marine bacteria

    Contribution to Program Outcomes

    1. Define the relationship among life forms and their environments and ecosystems
    2. Develop an understanding of matter and energy in organisms
    3. Identify structure-function relationships in cells and organisms
    4. Acquire scientific knowledge and work independently,
    5. Find out new methods to improve his/her knowledge.
    6. Effectively express his/her research ideas and findings both orally and in writing
    7. Apply biological concepts to personal, social, economical, technological and ethical issues

    Method of assessment

    1. Written exam
  3. Grasp usage of marine bacteria for the purpose of biotechnology.

    Contribution to Program Outcomes

    1. Define and manipulate advanced concepts of Biology
    2. Know and apply the techniques used in gene and protein engineering / microbial identification / enzyme technologies / mammalian cell culture and plant tissue culture manipulations.
    3. Acquire scientific knowledge and work independently,
    4. Find out new methods to improve his/her knowledge.
    5. Effectively express his/her research ideas and findings both orally and in writing
    6. Apply biological concepts to personal, social, economical, technological and ethical issues

    Method of assessment

    1. Laboratory exercise/exam
  4. Apply methods used in molecular marine microbiology.

    Contribution to Program Outcomes

    1. Define and manipulate advanced concepts of Biology
    2. Identify structure-function relationships in cells and organisms
    3. Know and apply the techniques used in gene and protein engineering / microbial identification / enzyme technologies / mammalian cell culture and plant tissue culture manipulations.
    4. Work effectively in multi-disciplinary research teams
    5. Find out new methods to improve his/her knowledge.
    6. Effectively express his/her research ideas and findings both orally and in writing
    7. Understand the importance of identification, utilization and maintenance of the biological diversity in the country.

    Method of assessment

    1. Homework assignment
    2. Laboratory exercise/exam
   Contents Up
Week 1: Introduction. Keywords. Why are marine bacteria important?
Oceans. Global ocean circulations.
Vertical and horizontal circulations.
Nutrient circulations (Nitrogen, Carbon and others).
World Seas.
Introduction to Marine Ecology.
Week 2: Bioluminescence: Bioluminescence genes, Quorum sensing? Symbiosis.
Bioluminescence as adaptation mechanisms.
Luciferase enzyme.
Week 3: Psychrophylic bacteria: adaptation of bacteria to freezing temperatures. Stability of bacterial membrane.
Protein stability and folding.
Cold shock proteins.
Changes in nucleic acid and topology.
Gene regulation at low temperature.
Adaptation mechanism.
Week 4: Thermophylic bacteria: stability of membranes, enzyme and protein stability, and nucleic acid stability.Adaptation mechanism.
Week 5: Halophylic bacteria: lipid composition of membranes.
Osmosis.
Membranes from red and purple bacteria.
Week 6: Halotolerant bacteria. Barophilic bacteria: life at high pressure, membrane stability at high temperatures, gene regulations at high pressure, adaptation mechanisms.
Week 7: Biotechnologically important marine bacteria: Extremophylic enzymes. Thermo / psychrophylic enzymes. Halophylic proteins and membranes.
Week 8: MIDTERM EXAM
Week 9: Regulation of bioluminescence in Vibrio fischeri.
Symbiosis in Euprymna scolopes -Vibrio fischeri: biomedical model for investigating bacterial colonization on animal tissues. Bacterial signals and antagonists. Interactions between bacteria and eukaryotic organisms.
Week 10: Microbial symbionts in marine invertebrates: approaches for microbial biotechnology: microbial gene transfers: surface induced gene expression in Vibrio parahaemolyticus.
Week 11: Non-flagellar swimming in Synechococcus.
Week 12: Biodegradation of petrol in marine environments.
Week 13: Catalysts from Bacillus spores.
Formation of magnetosomes in magnetotactic bacteria.
Resistance to pressure in deep marine bacteria.
Adaptation of hyperthermophyle proteins against to high pressure and temperatures.
Pharmaceutical compounds from marine bacteria.
Proteinases from marine organisms. Investigations on marine functional genomics.
Isolation of bacteria from marine products.
Isolation of industrially important enzymes from marine products. Production of compounds produced by symbiotic bacteria.
Production of antifouling substances.
Production of microalgae. .
Marine toxicology.
Week 14: Marine phototrophic bacteria and biologic hydrogen production
Week 15*: Marine viruses
Week 16*: Final exam
Textbooks and materials: course handouts
Recommended readings: 1. Marine Microbiology. Ecology & Applications.C.B. Munn. BIOS Scientific Publishers.Taylor & Francis Group. ISBN 1859962696. 2004:282
2. Molecular Marine Microbiology. Publisher: Horizon Scientific Press. Editor: Douglas H. Bartlett UCSD, La Jolla, California. Publication date: February 2000. ISBN: 1-898486-20-4. Pp.: iv + 219.
3. Recent Advances in Marine Biotechnology. Vol. 6: Bio-Organic Compounds: Chemistry and Biomedical Applications. Milton Fingerman and Rachakonda Nagabhushanam: Department of Ecology, Evolution and Organismal Biology, Tulane University, USA. ISBN 1-57808-135-1; 2002; 272 Pages.
4. Marine Biotechnology in the Twenty-First Century: Problems, Promise, and Products. 2002. The National Academies Pres.
5. Marine Biotechnology. 2003. Springer-Verlag New York.
  * 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: 8 50
Other in-term studies: 0
Project: 0
Homework: 0
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: 5 16
Practice, Recitation: 0 0
Homework: 4 14
Term project: 0 0
Term project presentation: 0 0
Quiz: 0 0
Own study for mid-term exam: 0 0
Mid-term: 3 1
Personal studies for final exam: 0 0
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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