Plant Molecular Eciphysiology 1400-225EMR

Full description:
1. Abiotic and biotic stress. Molecular mechanisms of plant response to stress. Methods of plant stress response analysis. Methods of gene expression analysis.
2. The role of Programmed Cell Death (PCD) in plants. PCD and necrosis. Ultrastructural and molecular methods of PCD analysis in plants.
3. Genetically Modified Organisms: production, application, importance. Law regulations of GMO use in Poland and EU. Methods of GMO identification: RT PCR, qRT PCR, ELISA.
4. High-throughput methods for transcriptome profiling: transcriptome sequencing and microarrays. Microarray platforms. Use of microarrays in molecular plant ecophysiology. Microarray experiment: design, performance, data analysis. Microarray data deposition.

Laboratory:

1. Gene expression change in response to abiotic stress.
RNA isolation from maize leaf treated with low temperature. RNA purifying. RNA quality control. Analysis of expression of selected genes (PAL, peroxidases) with) with the use of semiqualitative PCR, estimation of activity of PAL and peroxidases in maize leaves.
2. Identification of PCD in plants.
DNA isolation from maize kernels at different developmental stages. DNA electrophoresis.
3. Identification of GMO .
DNA isolation from transgenic soybean (40-3-2, Roundup Ready ) and wild type with CTAB method. Identification of CaMV 35S promotor by PCR. DNA electroophoresis. Fast identification of GMO with ELISA tests.
4. The use of microarrays for transcriptome profiling in stress treated plants
Presentation of procedure on the example pf microarrays dedicated for maize
Computer lab. Normalization, statistics and analysis of microarray data.

Type of course

obligatory courses

Mode

Classroom

Prerequisites (description)

The aim of the course is to introduce of students to the problems of molecular mechanisms of plant adaptation to variable environment and methods used. The subjects is realized in form of lectures (30 h) and exercices (60 h). Students realize projects with the use of methods used in molecular biology including bioinformatics.

Course coordinators

Paweł Sowiński

Learning outcomes

KNOWLEDGE: The graduate knows and understands
• issues in the natural sciences, conceptual categories and scientific terminology, the development of research methods, and is able to indicate the most important scientific discoveries in the history of biological sciences, including biotechnology (K_W02 Bt)
• at an advanced level, techniques and tools used in the study of natural phenomena; understands the importance of experimental work in biotechnology and can describe the significance of molecular analyses in biological and medical research (K_W04 Bt)
• at an advanced level, knowledge concerning the application of technical and technological aspects of biotechnology (K_W05 Bt)
• the basics of information technology and applies IT tools for information retrieval, text processing, and presentations (K_W08 Bt)
SKILLS: The graduate is able to
• apply basic techniques relevant to biotechnology (K_U01 Bt)
• use available information sources, including electronic ones (K_U03 Bt)
• carry out simple research tasks or expert assessments under supervision, individually and in a team (K_U04 Bt)
• conduct simple physicochemical or biological measurements and observations in the field/laboratory; apply basic mathematical and statistical methods to describe phenomena and analyze data (K_U05 Bt)
• draw correct conclusions based on data from various sources (K_U06 Bt)
SOCIAL COMPETENCIES: The graduate is prepared to
• understand biological phenomena and processes occurring in nature (K_K01 Bt)
• demonstrate responsibility for their own work and entrusted equipment; show respect for their own and others’ work (K_K03 Bt)
• work effectively in a team (K_K04 Bt)

Assessment criteria

Laboratory evaluation criteria: short reports of obtained results
Lectures – multimedial presentation of obtained results or final report

Practical placement

Bibliography

Lab manual (do pobrania ze strony: http://www.biol.uw.edu.pl/ibebr/dydaktyka)
Bioinformatyka. Baxevanis A.D., Ouellette B.F.F. (red). PWN, Warszawa, 2005.
Prasad M.N.V. Plant Ecophysiology. J. Wiley & Sons, New York.Turner P.C., 1996. McLennan A.G., Bates A.D., White M.R.H. Biologia Molekularna. PWN, Warszawa, 2007.
Nobel, P. S. Physicochemical and Environmental Plant Physiology. Elsevier Academic Press, 2005.

Additional information

Additional information (registration calendar, class conductors, localization and schedules of classes), might be available in the USOSweb system:

Description of 1400-225EMR in USOSweb