NPLB13001U Plant Genomics
MSc Programme in Agriculture
Crash course, Bioinformatics* and Crash course, Molecular genetics
Genomes: Model plants versus crops
Next-generation sequencing technologies*
Transcription factors, focus on MYB family
From microarrays to next-generation sequencing (RNA-seq)
Forward and reverse genetics
Genetic markers and Quantitative Trait Loci
Genotype – Phenotype; Map based cloning and QTL dissection
Two very different plant genomics models: rice and moss
Biomarkers and RNAi/siRNA*
Student workshop on four functional genomics assignments
Functional genomics debate on the findings of the case study
Those contents marked with an asterisk will be offered as shared sessions between the Plant and Mammalian Genomics courses.
In four practical exercises complementing the lectures, you will get familiar with the generation of haploid plant cell cultures, tracking of gene expression, both quantitatively as well as in plant tissue, analysis of quantitative trait loci, and genetic manipulation techniques.
After successful completion of the course, the students will have gained:
- Describe basic principles for the study of major model plants and general plant evolution
- Explain genetic markers and their use for qualitative and quantitative traits
- Compare basic central experimental techniques used in plant genomics and molecular breeding and propose their application for novel challenges
- Complete with confidence an assessment of the techniques used to study complex biological processes in plant model systems
- Practice molecular and genetic tools for plant improvement through molecular breeding of crops for food, fodder and production of high value crops for e.g. biomedicine, biofuel and green factories
- Manipulate cell cultures and conduct a simple transformation procedure
- Evaluate various forward and reverse genomics approaches for gene isolation and functional studies
- Relate gene differences with phenotype by means of genomics
- Communicate effectively with other students in a debate to justify conclusions on a given problem
Laboratory manuals and a dedicated Plant Genomics Compendium, consisting of all relevant chapters and papers discussed in class will be distributed in electronic form. Next to the compendium, no specific textbook will be required for this course. However, general botany and genetics textbooks may be consulted for the most basic concepts not covered within this course. The student should on his or her own initiative locate additional reading material that matches lecture material.
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- 7,5 ECTS
- Type of assessment
- Written assignment, 27 hoursWritten take-home assignment
Duration 27 hours (Assignment issued at 9.00 and submitted at 12.00 the next day)
- Exam registration requirements
- Three passed lab reports (75 %) and participation in the oral presentation of case are a requirement
- All aids allowed
Discussion with other students participating in the course allowed, but the assignment is not group work and individual reports have to be submitted.
- Marking scale
- 7-point grading scale
- Censorship form
- No external censorship
Several internal examiners (internal examiner, who does NOT lecture on the course, plus the two course responsibles)
- If 10 or fewer register for the reexamination the examination form will be oral.
Criteria for exam assesment
- Theory exercises
- Practical exercises