300319 UE Plant Chromosome Structure and Evolution: theory and practice (2019W)
Chromosome analysis in flowering plants
- Registration is open from Th 05.09.2019 08:00 to Th 19.09.2019 18:00
- Deregistration possible until Th 31.10.2019 18:00
Classes (iCal) - next class is marked with N
VB: 01.10.2019 at 11:00; first lecture (in total 4 lectures): 08.10.2019 11:00.
Practical course will be blocked in December: 02-06.12.2019
Due to the fact that the practical work will be done in in the cytogenetic laboratory (work in pairs, each group has own set of species to analyze) the number of participating students is limited to 8 per course.
Aims, contents and method of the course
Assessment and permitted materials
Active participation in experiment planning and results analyses 40% (20 points max)
Written report summarizing results (in form of scientific manuscript) 30% (15 points max)Min 50% for positive gradeKEY:
50-46 points - 1
45-39 points - 2
38-31 points - 3
30-25 points - 4
24.75 and below - 5 (below 50%)
Minimum requirements and assessment criteria
- To present and discuss in details the structure, types and function of chromosomes, and to emphasize their role in evolutionary processes.
- To present most relevant case studies.
- To introduce most important cytogenetic and genomic techniques, including state of the art next generation sequencing, and to discuss their application for evolutionary cytogenetics of plants.
- To introduce modern techniques used nowadays to study the structure and function of plant genomes and to emphasize the importance of such analyses as complementary approach for phylogenetic, evolutionary, or populational studies.
- To introduce methods for in situ-hybridization probe preparation and labelling, chromosome preparation and quality checks, and finally in situ hybridization (FISH).
Students will apply gathered knowledge to analyze and to interpret obtained results (light and fluorescent microscopy).
- Planning of the experiments; material pre-treatment and fixation; preparation of chromosome spreads using classical methods; documentation.
- Enzymatic chromosome preparations; DNA probe preparation and labelling (PCR labelling, nick translation); preparation of buffers and solutions for FISH.
- Checking of the quality of DNA probe labelling; FISH (fluorescent in situ hybridization); pretreatments, and hybridization.
- FISH: washing, detection and amplification.
- Analysis of FISH data (microscopy)
Fukui K., and Nakamya S. (1996). Plant chromosomes. Laboratory methods. CRC Press, Boca Raton.
Weiss-Schneeweiss H., and Schneeweiss G.M. 2012. Karyotype Evolution in Angiosperms. Springer
Levin D. A. (2002) The role of chromosomal change in plant evolution. Oxford University Press, New York, USA.
Puertas M.J. & Naranjo T. (eds.) 2005. Plant cytogenetics. Karger, Basel.
Schwarzacher T., and Heslop-Harrison P. (2000) Practical in situ hybridization. 2nd ed. BIOS, Oxford UK.
Singh R.J. (2003) Plant cytogenetics. CRC Press, Boca Raton.
Stebbins G. L. (1971) Chromosomal evolution in higher plants. Edward Arnold, London.
Puertas M.J. & Naranjo T. (eds.) 2008. Plant cytogenetics. Karger, Basel.
Birchler J. & Pires C. (eds) 2010. Advances in Plant Cytogenetics. Karger, Basel.
Plant Genome Diversity (book; 2 volumes; 2012 and 2013; Springer)