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Syllabus ( BENG 460 )


   Basic information
Course title: Advanced Methods in Yeast Genetics
Course code: BENG 460
Lecturer: Assoc. Prof. Dr. Bengü ERGÜDEN
ECTS credits: 5
GTU credits: 3 ()
Year, Semester: 4, Spring
Level of course: First Cycle (Undergraduate)
Type of course: Area Elective
Language of instruction: English
Mode of delivery:  , Lab work
Pre- and co-requisites: BENG 223, BENG 301
Professional practice: No
Purpose of the course: To introduce protocols and recipes for advanced techniques and reagents used in the study of yeast biology.
   Learning outcomes Up

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

  1. follow protocols for advanced techniques in yeast genetics.

    Contribution to Program Outcomes

    1. Acquire knowledge on biological, chemical, physical and mathematical principles which constitute the basis of bioengineering applications
    2. Acquire knowledge on current bioengineering applications from the industrial and scientific aspects

    Method of assessment

    1. Laboratory exercise/exam
  2. carry out genome-wide genetic screen using yeast as a model organism

    Contribution to Program Outcomes

    1. Acquire knowledge on biological, chemical, physical and mathematical principles which constitute the basis of bioengineering applications
    2. Acquire knowledge on current bioengineering applications from the industrial and scientific aspects
    3. Design processes for the investigation of bioengineering problems, collect data, analyze and interpret the results.

    Method of assessment

    1. Written exam
    2. Laboratory exercise/exam
  3. design and make various genetic manipulations to obtain different yeast strains

    Contribution to Program Outcomes

    1. Acquire knowledge on biological, chemical, physical and mathematical principles which constitute the basis of bioengineering applications
    2. Acquire knowledge on current bioengineering applications from the industrial and scientific aspects
    3. Design processes for the investigation of bioengineering problems, collect data, analyze and interpret the results.

    Method of assessment

    1. Written exam
    2. Laboratory exercise/exam
   Contents Up
Week 1: Preparation of yeast media and plates
Week 2: Yeast culture and growth methods
Week 3: Homework; Transformation of yeast cells with Snyder gene deletion library
Week 4: Determination of transformation efficiency
Week 5: Testing deletion library transformants for hexanoic acid resistance
Week 6: Homework; Isolation of genomic DNA from hexanoic acid resistant strains
Week 7: Rescue of mTn3-lacZ/LEU2 plasmid; PCR amplification and preparation of DNA for sequencing
Week 8: Midterm Exam, dicussion of the exam questions
Week 9: Evaluation of sequencing results; BLAST to determine library hits
Week 10: Homework; Cassette PCR for deletion of GENEX, one of the library hits
Week 11: Transformation of yeast cells with geneXD cassette PCR product
Week 12: Homework; Testing transformants for deletion with colony PCR
Week 13: Testing geneXD strain for hexanoic acid resistance
Week 14: Testing geneXD strain for bioethanol production efficiency
Week 15*: -
Week 16*: Final Exam
Textbooks and materials: Laboratory protocols
Recommended readings: Methods in Yeast Genetics: A Cold Spring Harbor Laboratory Course Manual, David C. Amberg, Daniel J. Burke, Dan Burke, Jeffrey N. Strathern, 2005 Edition. Cold Spring Harbor Laboratory Press.
  * 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 30
Other in-term studies: 0
Project: 0
Homework: 3, 6, 10, 12 30
Quiz: 0
Final exam: 16 40
  Total weight:
(%)
   Workload Up
Activity Duration (Hours per week) Total number of weeks Total hours in term
Courses (Face-to-face teaching): 3 13
Own studies outside class: 3 14
Practice, Recitation: 0 0
Homework: 5 4
Term project: 0 0
Term project presentation: 0 0
Quiz: 0 0
Own study for mid-term exam: 10 1
Mid-term: 2 1
Personal studies for final exam: 15 1
Final exam: 2 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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