Molecular Evolution and Phylogenetics

Lecturer: Chien-Hui Yang (楊倩惠)

Email: chyang@ntou.edu.tw

Phone: (02) 24622192 ＃5326、5315

Webpage: https://imb.ntou.edu.tw/p/412-1075-8549.php?Lang=zh-tw

Course ID: M34013SY

Credits: 2

It is recommended that students who will use these analyses for the studies then take this course.

Objective:

This course will introduce the theories and analytic methods in molecular phylogenetic studies.

Course Prerequisites: Biology, Biochemistry

Outline:

To analyze the obtained DNA or protein sequence dataset is one of the most difficult tasks in molecular phylogenetic reconstruction. This course will introduce the theory behind molecular phylogenetic analytic methods, and hand on practical operation using computer software to analyze dataset.

Teaching Method:

Textbook, papers reading and computer software operations.

Reference:

Molecular Evolution and Phylogenetics, M. Nei & S. Kumar, 2000. Oxford University Press.

Course Schedule (subject to change):

1. Introduction on Molecular Phylogenetics, and DNA sequences alignment

2. Genetic distances and Modeltest introduction

3. Phylogenetic inference: Distance methods

4. Phylogenetic inference: Maximum parsimony methods

5. Phylogenetic inference: Maximum likelihood methods

6. Maximum likelihood software and operation

7. Phylogenetic inference: Bayesian inference

8. Testing tree topologies

9. “Beast” operation

10. Molecular clocks and evolutionary time estimation

11. Ancestral state reconstruction

12. Species delimitation

13. Genetic polymorphism and evolution

14. “Arlequin” operation

15. Oral presentation

Evaluation:

Written report -40%,

Oral presentation-40%,

Attendance-20%

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