Course: Genomics

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Course title Genomics
Course code KGZB/GNM
Organizational form of instruction Lecture + Lesson
Level of course Master
Year of study 1
Semester Winter
Number of ECTS credits 6
Language of instruction Czech
Status of course Compulsory
Form of instruction Face-to-face
Work placements This is not an internship
Recommended optional programme components None
Lecturer(s)
  • Čítek Jindřich, prof. Ing. CSc.
  • Beran Pavel, Ing. Ph.D.
Course content
1. Introduction to the subject, basic concepts. Structural genomics. 2. Genomes of viruses, prokaryotes, eukaryotes. 3. Functional genomics. Transcriptome, proteome. 4. Metagenomics. 5. Chromosome genomics. 6. New methods of genome sequencing. Crispr / Cas9. 7. Bioinformatics in the genomics studies. 8. Genomic selection. Basic principles. Markers, QTL, their mapping. 9. Haplotypes, linkage imbalance, effective population size, identity by descent, inbreeding, inbred depression. 10. Microarrays technology in SNP genotyping. Practical implementation of genomic selection. Factors affecting the accuracy of GS. Custome chips. GWAS. Used software. 11. Current state of GS in individual species of farm animals. 12. Perspectives, whole genome sequencing in genomic selection. 13. GS in plants. MAS and GS systems. GWAS and GEM approaches. 14. Metabolomics, nutrigenomics, pharmacogenomics.

Learning activities and teaching methods
Monologic (reading, lecture, briefing)
  • Class attendance - 56 hours per semester
  • Preparation for credit - 40 hours per semester
  • Preparation for exam - 45 hours per semester
  • Semestral paper - 40 hours per semester
Learning outcomes
The aim of the course is to provide students with knowledge about the genomes of livestock, plants and microorganisms, the implementation of hereditary information from DNA to protein in the whole complex and the possibilities of use.
Students are familiar with the problematics of genomics associated with agricultural applications.
Prerequisites
Knowledge of the basics of genetics, molecular biology and basic molecular biological methods is assumed.

Assessment methods and criteria
Combined exam

This course has no prerequisites.
Recommended literature
  • Lesk, A. Introduction to Genomics. Oxford Univ. Press. 2017..
  • Ruvinsky, A., Marshall Graves J. A. (eds.):. Mammalian Genomics. Wallingford, Cambridge, CABI Publishing 2005.
  • Samuelsson, Tore. Genomics and bioinformatics: an introduction to programming tools for life scientists. Cambridge: Cambridge University Press, 2012..
  • Somers, D. J. et al. Plant Genomics. Methods and Protocols. Springer. 2009.
  • studijní materiály. http://biocentrum.zf.jcu.cz/ruzne.php.
  • Womack, J. E. (ed.):. Bovine Genomics. Willey-Blackwell, 2012.


Study plans that include the course
Faculty Study plan (Version) Category of Branch/Specialization Recommended year of study Recommended semester