C7175 DNA diagnostics

Faculty of Science
Spring 2023
Extent and Intensity
2/0/0. 4 credit(s). Recommended Type of Completion: zk (examination). Other types of completion: k (colloquium).
Teacher(s)
prof. RNDr. Omar Šerý, Ph.D. (lecturer)
Guaranteed by
prof. RNDr. Omar Šerý, Ph.D.
Department of Biochemistry – Chemistry Section – Faculty of Science
Supplier department: Department of Biochemistry – Chemistry Section – Faculty of Science
Timetable
Mon 13:00–14:50 B11/335
Prerequisites
C6200 Biochemical Methods
Without preconditions.
Course Enrolment Limitations
The course is also offered to the students of the fields other than those the course is directly associated with.
fields of study / plans the course is directly associated with
there are 7 fields of study the course is directly associated with, display
Course objectives
At the end of the course students should be able to understand and explain practical use of DNA diagnostics in human medicine, veterinary medicine etc.
Learning outcomes
At the end of the course students will understand principles of PCR method, RealTime PCR, sequencing, next generation sequencing, restriction analysis, work with DNA databases, European Union legislation on in vitro medical devices, use of DNA diagnostics in medical practice. Students will have the theoretical knowledge of methods used in clinical laboratories for DNA diagnosis of bacterial and viral pathogens.
Syllabus
  • 1. General introduction, history of DNA diagnostics (discovery of DNA structure, discovery of PCR principle). 2. Principle of polymerase chain reaction - master mixes, template DNA, primers, buffer, dNTP, DNA polymerase, PCR steps, thermocycler, methods of multiplying DNA in vitro without using DNA polymerase. 3. Detection of amplified DNA, agarose gels, polyacrylamide gels, electrophoresis, PCR in situ, restriction analysis. 4. Real Time PCR, principle, sybrgreen, TaqMan, molecular beacons, detection of point polymorphisms, quantification by RealTime PCR, DNA isolation methods. 5. Principles and use of genotyping methods (RFLP methods, methods based on qPCR, SNaPshot method, chip technologies, CNV analysis). 6. Principles of NGS methods (library preparation, pyrosequencing, Illumina technology, Ion PGM system, nanoball sequencing). 7. Use of NGS methods in diagnostics (genome, exome, transcriptome, metagenome, resistome, targeted resequencing). 8. Modifications of PCR methods used in diagnostics, celiac disease diagnostics. 9. DNA diagnostics in medicine: legislative requirements for in vitro diagnostic medical devices (IVDR). 10. Medical virology: practical use of DNA diagnostics in direct virus detection. Detection of HIV, SARS-CoV-2, viral hepatitis, herpes viruses, papillomaviruses, etc. 11. Medical microbiology and parasitology: practical use of DNA diagnostics in direct detection of microorganisms. Detection of MTB, borrelia, chlamydia, mycoplasmas, ureaplasmas, etc.
Literature
    recommended literature
  • Manual of commercial methods in clinical microbiology. Edited by Allan L. Truant. Washington: ASM Press, 2002, xix, 481 s. ISBN 1-55581-189-2. info
  • RAPLEY, Ralph. The nucleic acid protocols : handbook. Totowa, New Jersey: Humana Press, 1999, xxii, 1050. ISBN 0-89603-459-3. info
Teaching methods
Lectures with PowerPoint presentations and recommended books for self study.
Assessment methods
Oral exam
Language of instruction
Czech
Further Comments
Study Materials
The course is taught annually.
Listed among pre-requisites of other courses
The course is also listed under the following terms Spring 2008 - for the purpose of the accreditation, Spring 2011 - only for the accreditation, Spring 2007, Spring 2008, Spring 2009, Spring 2010, Spring 2011, Spring 2012, spring 2012 - acreditation, Spring 2013, Spring 2014, Spring 2015, Spring 2016, Spring 2017, spring 2018, Spring 2019, Spring 2020, Spring 2021, Spring 2022, Spring 2024, Spring 2025.
  • Enrolment Statistics (Spring 2023, recent)
  • Permalink: https://is.muni.cz/course/sci/spring2023/C7175