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300319 UE Plant Chromosome Structure and Evolution: theory and practice (2017W)
Chromosome analysis in flowering plants
Continuous assessment of course work
Labels
Registration/Deregistration
Note: The time of your registration within the registration period has no effect on the allocation of places (no first come, first served).
- Registration is open from Th 07.09.2017 08:00 to Th 21.09.2017 18:00
- Deregistration possible until Tu 31.10.2017 18:00
Details
max. 8 participants
Language: English
Lecturers
Classes (iCal) - next class is marked with N
Vorbesprechung: Tuesday 3.10, 11:00, ÜR 3
The course comprises theoretical part (4-5 lectures) and practical part - one week in December (4-8.12.2017)
- Tuesday 03.10. 11:00 - 13:00 Übungsraum 3 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
- Tuesday 10.10. 11:00 - 13:00 Übungsraum 3 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
- Tuesday 17.10. 11:00 - 13:00 Übungsraum 3 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
- Tuesday 24.10. 11:00 - 13:00 Übungsraum 3 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
- Tuesday 31.10. 11:00 - 13:00 Übungsraum 3 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
- Tuesday 07.11. 12:15 - 14:00 Übungsraum 3 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
- Tuesday 14.11. 11:00 - 13:00 Übungsraum 3 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
- Tuesday 21.11. 11:00 - 13:00 Übungsraum 3 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
Information
Aims, contents and method of the course
Assessment and permitted materials
Written exam - theory from course material before practical starts 40% (15 pts max)
Active participation in experiment planning and results analyses 40% (15 pts max)
Written report summarising results (form of scientfic manuscript) 20% (7.5 pts max)Min 50% (18.75 points) for positive gradeKEY:
37.50-33.75 - 1 (100-90%)
33.50-29.25 - 2 (89-78%)
29.00-23.50 - 3 (77-63%)
23.25-18.75 - 4 (62-50%)
18.50 and below - 5 (below 50%)
Active participation in experiment planning and results analyses 40% (15 pts max)
Written report summarising results (form of scientfic manuscript) 20% (7.5 pts max)Min 50% (18.75 points) for positive gradeKEY:
37.50-33.75 - 1 (100-90%)
33.50-29.25 - 2 (89-78%)
29.00-23.50 - 3 (77-63%)
23.25-18.75 - 4 (62-50%)
18.50 and below - 5 (below 50%)
Minimum requirements and assessment criteria
Aims
- 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).
- 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).
Examination topics
- Lectures
- 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)
- 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)
Reading list
Maluszynska J. (ed.) 1998. Plant cytogenetics. Silesian University, Katowice, Poland.
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)
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)
Association in the course directory
MBO 5, MEV W-6, MGE III-2
Last modified: Mo 07.09.2020 15:43
The practical part of the course will include chromosome preparation in selected groups of plants, as well as classical and molecular chromosome staining methods. The students learn to perform DNA:DNA in-situ hybridization (FISH), in particular to prepare and label some of the DNA probes (e.g., species-specific repetitive DNA, rDNAs, telomeric sequences), to detect of the hybridization sites (fluorescence) and to analyse the obtained data. The students will acquire practical skills in chromosome handling and learn to analyse and interpret chromosomal data in evolutionary context.