22D130 - Molecular Diagnostics with Bioinformatics

Course specification
Course title		Molecular Diagnostics with Bioinformatics
Acronym		22D130
Study programme		Biochemical Engineering and Biotechnology
Module
Lecturer (for classes)		prof. dr Mirjana Rajilić-Stojanović
Lecturer/Associate (for practice)		prof. dr Mirjana Rajilić-Stojanović
Lecturer/Associate (for OTC)
ESPB		5.0	Status
Condition			Облик условљености
The goal		To gain the knowledge about identification of microorganisms using genetic information and molecular techniques.
The outcome		Students will gain theoretical knowledge about the molecular basis for the systematics of organisms, particularly those based on the sequence of the 16/18 S rRNA encoding gene, and use of this sequence for the rapid identification of organisms. Another learning point is gaining theoretical knowledge and practical experience with application of molecular techniques that can be used for the analysis of complex microbial ecosystems that can be found in food, water and other biological systems.
Contents
Contents of lectures		Тheoretical knowledge about systematics of organisms based on the DNA sequence, and the use of molecular techniques for the analysis of (complex) microbial ecosystems. The main focus of the subject is understanding principles and interpretation of results obtained with the following molecular techniques: isolation of nucleic acids, polymerase chain reaction (PCR), ligation detection reaction (LDR), hybridization of DNA molecules with oligonucleotide probes both on the level of cells, or on the DNA array platforms, molecular techniques for profiling such as denaturant gradient gel electrophoresis (DGGE). The subject will give basis for bioinformatics analysis that include searches in the public databases, analysis and identification of organisms based on the DNA sequence.
Contents of exercises		Practical part of the subject will include laboratory projects, where students will apply some of the molecular techniques that will be applied for the diagnostics of model ecosystems. Bioinformatics exercises will include analysis of the 16S or 18S rRNA sequence using software such as ClustalX and ARB and searches of the public databases.
Literature
L Bromham: An Introduction to Molecular Evolution and Phylogenetics 2nd UK ed. Edition (2016) Oxford University Press, ISBN-13: 978-0198736363 M Osborn, C Smith: Molecular Microbial Ecology (Advanced Methods) (2007) Taylor & Francis, ISBN-10: 1859962831 SR Head, P Ordoukhanian, DR Salomon: Next Generation Sequencing, Methods and Protocols (2018) Springer Science+Business Media, LLC, ISBN: 978-1-4939-8507-4 Lecture notes
Number of hours per week during the semester/trimester/year
Lectures	Exercises	OTC	Study and Research	Other classes
2	1
Methods of teaching		Theoretical lectures, bioinformatic research study.
Knowledge score (maximum points 100)
Pre obligations		Points	Final exam	Points
Activites during lectures		20	Test paper
Practical lessons		20	Oral examination	60
Projects
Colloquia
Seminars