NCHU Course Outline

Course Name	(中) 微生物遺傳與基因體特論(一)(6079)
	(Eng.) Topics in Microbial Genetics and Genomics(I)
Offering Dept	Graduate Institute of Genomics and Bioinformatics
Course Type	Elective	Credits	2	Teacher	YING-TSONG CHEN
Department	Graduate Institute of Genomics and Bioinformatics/Graduate	Language	中/英文	Semester	2025-FALL
Course Description	Microbial genomics is the study of the molecular organization of the genome, their content, and the genes they encode. DNA can be sequenced using different methods. Microbial genome can be sequenced using whole-genome shotgun sequencing in which random genomic DNA fragments are sequenced and then assembled by computer to give the complete genome. Analyzing bacterial genomes can be the foundations in investigating bacterial physiology, their genome structures, molecular evolution, antimicrobial resistance, pathogenesis and more. It will also help in preparing new vaccines and new drugs for the treatment of infections. Both experimental genomics and bioinformatic tools for microbial genomics will be introduced in the course.
Prerequisites				self-directed learning in the course	Y

Relevance of Course Objectives and Core Learning Outcomes(%)			Teaching and Assessment Methods for Course Objectives
Course Objectives	Competency Indicators	Ratio(%)	Teaching Methods	Assessment Methods
Introducing the critical topics in the development of genomics in bacteria and studying microbiome	1. 4.	50 50	topic Discussion/Production Discussion Lecturing Practicum	Oral Presentation Internship Written Presentation Attendance Assignment Study Outcome Quiz Other
Course Content and Homework/Schedule/Tests Schedule
Week Course Content Week 1 Introduction to the course Week 2 DNA and RNA Week 3 Determing DNA sequence - Sanger sequencing Week 4 Determing DNA sequence - NGS Week 5 Determing DNA sequence - Single molecular sequencing Week 6 The concept of whole genome shotgun Week 7 Bioinformatics basics - Linux Week 8 Bioinformatics basics - Linux Week 9 Bioinformatics basics - Linux Week 10 Bioinformatics - Handling sequencing data Week 11 Bioinformatics - Introducing assembly pipelines Week 12 Bioinformatics - Annotation Week 13 Bioinformatics - analyzing bacterial antimicrobial resistance and Virulence factors Week 14 Bioinformatics - cgMLST and molecular phylogeny Week 15 Bioinformatics - Comparative genomics of Bacteria Week 16 Bioinformatics - Molecular Evolution of Bacterial Genomes self-directed learning    01.Participation in professional forums, lectures, and corporate sharing sessions related to industry-government-academia-research exchange activities.    03.Preparing presentations or reports related to industry and academia. (self-directed learning)製作並進行報告與討論
Evaluation
專題研究、實作、報告與討論
Textbook & other References
Molecular Genetics of Bacteria 4th. Ed. Snyder & Peters, ASM Press 2012 Other selected paper and review articles
Teaching Aids & Teacher's Website
Teaching materials will be avaliable in eCampus
Office Hours
週一下午1:30-2:30
Sustainable Development Goals, SDGs(Link URL)
include experience courses：N

Please respect the intellectual property rights and use the materials legally.Please respect gender equality.
Update Date, year/month/day：2025/08/06 10:19:22	Printed Date, year/month/day：2025 / 12 / 20
The second-hand book website：http://www.myub.com.tw/