Information Package / Course Catalogue
Molecular Systematic
Course Code: ZBY509
Course Type: Area Elective
Couse Group: Second Cycle (Master's Degree)
Education Language: Turkish
Work Placement: N/A
Theory: 2
Prt.: 2
Credit: 3
Lab: 0
ECTS: 8
Objectives of the Course

The aim of class is to determine the phylogenetic relationships between plants, animals, fungi and bacteria. Between species, nuclear, chloroplasts, mitochondria, 16S, gene regions and markers using computer programs such as PAUP, MEGA 6.0, CLUSTAL W, PHYLIP, and phylogenetic trees and genetic distances and species relationship were planned..

Course Content

Taxonomy, morphological markers, protein markers, nuclear, chloroplast, mitochondria, 16S, introduction of regions, DNA sequencing and sequence analysis techniques, PAUP, MEGA 6.0, CLUSTAL, Phylogeny fr. introduction of phylogenetic tree programs such as ISSR, RAPD, AFLP, SSR, VNTR in the phylogenetic use of markers.

Name of Lecturer(s)
Assoc. Prof. Emre SEVİNDİK
Learning Outcomes
1.Learning morphological and protein markers
2.Learning of encoding and non-coding gene regions used in phylogenetics
3.Learning of various bioinformatics computer programs used in phylogenetics.
4.Learning of the use of molecular marker techniques in phylogenetic studies
5.PAUP analysis and interpretation are learned
Recommended or Required Reading
1.Evolution, Palme Publishing
2.Nei M, Kumar S (2000) Molecular evolution and phylogenetics. Oxford University press
3.Lemey, P., Salemi, M., Vandamme, A.M. (2009). The Phylogenetic Handbook. Cambridge University press ISBN:9780521877107
Weekly Detailed Course Contents
Week 1 - Theoretical
Basis and purpose of classification
Week 1 - Practice
Laboratory tools used in molecular systems
Week 2 - Theoretical
Teaching systematic science
Week 2 - Practice
Laboratory tools used in molecular systems
Week 3 - Theoretical
To applicate molecular techniques to working branches
Week 3 - Practice
Morphological characterization and cladistic analysis
Week 4 - Theoretical
Morphological and protein markers learning
Week 4 - Practice
Protein markers and SDS page application
Week 5 - Theoretical
Learning SSR, VNTR, ISSR, RAPD, AFLP etc. markers
Week 5 - Practice
Restriction fragment length polymorphism (RFLP) and random amplified polymorphic DNA application
Week 6 - Theoretical
Teaching of nuclear, chloroplast and mitochondrial gene regions
Week 6 - Practice
ISSR and AFLP application
Week 7 - Theoretical
Phylogenetic classifications, ability of use phenetic classifications techniques
Week 7 - Practice
SSR and VNTR application
Week 8 - Theoretical & Practice
SSR and VNTR application (Midterm Exam)
Week 9 - Theoretical
In phylogenetic classification used in online programs used
Week 9 - Practice
nrDNA ITS sequence and analysis
Week 10 - Theoretical
PAUP, MEGA 6.0, PHYLIP, etc. use of phylogenetic programs
Week 10 - Practice
cpDNA trnL-F, ndhF, matK rbcL, psbA-trnH analysis
Week 11 - Theoretical
Phylogenetic tree building using computer program
Week 11 - Practice
mtDNA sequence
Week 12 - Theoretical
Interpretation of phylogenetic tree
Week 12 - Practice
DNA sequence analysis
Week 13 - Theoretical
Molecular clock hypothesis, Relative velocity test, Linear trees
Week 13 - Practice
Bioinformatics programs
Week 14 - Theoretical
Relationship between systematic concepts and molecular techniques
Week 14 - Practice
Phylogenetic tree and analysis
Assessment Methods and Criteria
Type of AssessmentCountPercent
Midterm Examination1%30
Final Examination1%70
Workload Calculation
ActivitiesCountPreparationTimeTotal Work Load (hours)
Lecture - Theory1462112
Lecture - Practice143270
Midterm Examination1819
Final Examination1819
TOTAL WORKLOAD (hours)200
Contribution of Learning Outcomes to Programme Outcomes
PÇ-1
PÇ-2
PÇ-3
PÇ-4
PÇ-5
OÇ-1
5
5
5
5
3
OÇ-2
5
5
5
4
3
OÇ-3
5
5
5
4
3
OÇ-4
5
5
5
5
3
OÇ-5
5
4
4
4
3
Adnan Menderes University - Information Package / Course Catalogue
2026