Course: Development of microsatellite markers (SSRs)

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Course title Development of microsatellite markers (SSRs)
Course code KBO/125
Organizational form of instruction Lesson
Level of course Bachelor
Year of study not specified
Frequency of the course In academic years starting with an odd year (e.g. 2017/2018), in the summer semester.
Semester -
Number of ECTS credits 3
Language of instruction Czech, English
Status of course Compulsory, Compulsory-optional
Form of instruction Face-to-face
Work placements This is not an internship
Recommended optional programme components None
Lecturer(s)
  • Košnar Jiří, Mgr. Ph.D.
Course content
Content of practicals: 1) Isolation of total genomic DNA, preparation of restriction genomic library 2) Preparation of SSR-enriched genomic library via hybridization with biotin-labelled oligonucleotides and capture by streptavidin coated magnetic beads 3) Cloning, amplification and sequencing of SSR-enriched genomic library 4) Design of SSR primers (based on sequences containing SSR loci)

Learning activities and teaching methods
Monologic (reading, lecture, briefing), Laboratory
  • Preparation for classes - 10 hours per semester
  • Class attendance - 50 hours per semester
  • Preparation for credit - 10 hours per semester
Learning outcomes
Nuclear microsatellites (SSRs) are powerful and reliable tools for studies of genetic diversity. The aim of the course is to introduce students in development of specific SSR primers. The course is performed as a laboratory parctice. Students are encouraged to bring samples of their interest.
understanding the principles of microsatellite development, gaining practical skills in the method
Prerequisites
basic understanding of scientific texts in English, basic knowledge of laboratory rules and molecular methods (PCR, DNA restriction and purification)

Assessment methods and criteria
Development of laboratory protocols

understanding basics of the methods (ability to explain the technical principle), attendance at the practical part, completing laboratory protocols.
Recommended literature
  • Nunome T., Negoro S., Miyatake K., Yamaguchi H., Fukuoka H. (2006): Protocol for the construction of microsatellite enriched genomic library. - Plant Mol. Biol. Rep. 24: 305-312..
  • Selkoe K.A., Toonen R.J. (2006): Microsatellites for ecologists: a practical guide to using and evaluating microsatellite markers. - Ecology Letters 9, 615-629..
  • Weising K., Nybom H., Wolff K., Kahl G. (2005): DNA Fingerprinting in plants: principles, methods and applications. 2nd ed. Taylor & Francois, Boca Raton..
  • Zane L., Bargelloni L., Patarnello T. (2002): Strategies for microsatellite isolation: a review. - Molecular Ecology 11, 1-16..


Study plans that include the course
Faculty Study plan (Version) Category of Branch/Specialization Recommended year of study Recommended semester
Faculty: Faculty of Science Study plan (Version): Botany (1) Category: Biology courses - Recommended year of study:-, Recommended semester: -
Faculty: Faculty of Science Study plan (Version): Botany (1) Category: Biology courses - Recommended year of study:-, Recommended semester: -
Faculty: Faculty of Science Study plan (Version): Botany (1) Category: Biology courses - Recommended year of study:-, Recommended semester: -
Faculty: Faculty of Science Study plan (Version): Botany (1) Category: Biology courses - Recommended year of study:-, Recommended semester: -