300627 SE Plant Genome Evolution: Repetitive DNA (2014S)
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 We 05.02.2014 08:00 to Th 20.02.2014 18:00
- Deregistration possible until Fr 28.03.2014 18:00
Details
max. 10 participants
Language: English
Lecturers
Classes (iCal) - next class is marked with N
- Thursday 06.03. 12:00 - 14:00 Übungsraum 2 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
- Thursday 13.03. 12:00 - 13:00 Übungsraum 2 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
- Thursday 20.03. 12:00 - 14:00 Übungsraum 2 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
- Thursday 27.03. 12:00 - 14:00 Übungsraum 2 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
- Thursday 03.04. 12:00 - 14:00 Übungsraum 2 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
- Thursday 10.04. 12:00 - 14:00 Übungsraum 2 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
Information
Aims, contents and method of the course
This course offers the students the possibility to get acquainted with modern literature and recent views on repetitive DNA (tandemly repeated and dispersed including mobile genetic elements) which constitute large fractions of plant genomes. The selected papers will focus on types of repetitive DNA abundance, variation, hypotheses on their origin, factors stimulating their activity in the genome, mechanisms which enable their successful amplification, existence, and evolution in the genome. Furthermore, their impact on genome restructuring on all levels of organization and evolution will be discussed as well as their role in the genome (selfish junk DNA vs. useful collaborator). Students will be able to understand and appreciate different aspects of evolution and role of repetitive DNA in shaping plant genomes, especially in the forthcoming era of genomics. Special emphasis will be on application of next generation sequencing to analyze repetitive DNA pf complex plant genomes, both diploid and polyploid.
Assessment and permitted materials
Preparation of published papers for discussions 70%
Active participation in discussions 20%
Written report (summary of prepared papers and discussion) 10%
The deadline for written report is 25.06.2014
Active participation in discussions 20%
Written report (summary of prepared papers and discussion) 10%
The deadline for written report is 25.06.2014
Minimum requirements and assessment criteria
To acquire following skills:
1. To be able critically read the literature, to synthesize gained knowledge, ask relevant questions and plan own experiments
2. To be able to analyze, document, and interpret the data in the context of other available published information.
Knowledge outcome:
1. To be able to define different types of repetitive DNA.
2. To be able to define major mechanisms by which the repeats originate, spread and evolve in the genome
3. To be able to define types and processes by which different repeat types participate in plant genome function and define what types of evolutionary changes do they influence in different plant groups (e.g., on the level of genes, chromosomes, and whole genomes)
4. To be able to understand application of next generation sequencing techniques and bioinformatic data analyses of repeats and how these contribute to our understanding of evolution of plant genomes.
1. To be able critically read the literature, to synthesize gained knowledge, ask relevant questions and plan own experiments
2. To be able to analyze, document, and interpret the data in the context of other available published information.
Knowledge outcome:
1. To be able to define different types of repetitive DNA.
2. To be able to define major mechanisms by which the repeats originate, spread and evolve in the genome
3. To be able to define types and processes by which different repeat types participate in plant genome function and define what types of evolutionary changes do they influence in different plant groups (e.g., on the level of genes, chromosomes, and whole genomes)
4. To be able to understand application of next generation sequencing techniques and bioinformatic data analyses of repeats and how these contribute to our understanding of evolution of plant genomes.
Examination topics
seminar; presentation, discussion, and critical evaluation of scientific papers
Reading list
1. Volff J.-N. (ed.) 2005. Retrotransposable elements and genome evolution. Karger, Basel.
2. Ayala F.J., Fitch W.M., and Clegg M.T. (eds) 2000. Variation and evolution in plants and microorganisms: toward a new synthesis 50 years after Stebbins. National Academy of Sciences of the USA.
3. Puertas M.J. & Naranjo T. (eds.) 2005. Plant cytogenetics. Karger, Basel.
4. Birchler J. & Pires C. (eds.) 2010. Advanced in Plant Cytogenetics. Karger, Basel.
5. "Plant Genome Diversity" vol. 1 and 2, Springer 2013
2. Ayala F.J., Fitch W.M., and Clegg M.T. (eds) 2000. Variation and evolution in plants and microorganisms: toward a new synthesis 50 years after Stebbins. National Academy of Sciences of the USA.
3. Puertas M.J. & Naranjo T. (eds.) 2005. Plant cytogenetics. Karger, Basel.
4. Birchler J. & Pires C. (eds.) 2010. Advanced in Plant Cytogenetics. Karger, Basel.
5. "Plant Genome Diversity" vol. 1 and 2, Springer 2013
Association in the course directory
MPF W-1, MEV W-6, MGE III-2, MBO7
Last modified: Mo 07.09.2020 15:44