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Lecturer(s)
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Čítek Jindřich, prof. Ing. CSc.
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Stehlíková Dagmar, Ing. Ph.D.
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Beran Pavel, Ing. Ph.D.
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Course content
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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.
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Learning activities and teaching methods
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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
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Learning outcomes
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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.
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Prerequisites
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Knowledge of the basics of genetics, molecular biology and basic molecular biological methods is assumed.
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Assessment methods and criteria
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Combined exam
Active participation in exercises, protocols from laboratory exercises, understanding the curriculum defined for the exam.
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Recommended literature
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Lesk, A. Introduction to Genomics. Oxford Univ. Press. 2017..
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Ruvinsky, A., Marshall Graves J. A. (eds.):. Mammalian Genomics. Wallingford, Cambridge, CABI Publishing 2005.
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Samuelsson, Tore. Genomics and bioinformatics: an introduction to programming tools for life scientists. Cambridge: Cambridge University Press, 2012..
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Somers, D. J. et al. Plant Genomics. Methods and Protocols. Springer. 2009.
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studijní materiály. http://biocentrum.zf.jcu.cz/ruzne.php.
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Womack, J. E. (ed.):. Bovine Genomics. Willey-Blackwell, 2012.
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