Bi7910 Methods of Environmental Microbiology

Faculty of Science
Autumn 2011
Extent and Intensity
2/0. 2 credit(s) (fasci plus compl plus > 4). Type of Completion: zk (examination).
Teacher(s)
doc. Ing. Martin Krsek, CSc., MSc (lecturer)
Mgr. et Mgr. Veronika Oškerová, Ph.D. (assistant)
Guaranteed by
prof. RNDr. Jan Šmarda, CSc.
Department of Experimental Biology – Biology Section – Faculty of Science
Contact Person: doc. Ing. Martin Krsek, CSc., MSc
Prerequisites (in Czech)
Bi8555 Environ. microbiol.
Course Enrolment Limitations
The course is only offered to the students of the study fields the course is directly associated with.
fields of study / plans the course is directly associated with
Course objectives
The aim of the subject is to make students familiar with methods used in environmental microbiology with main emphasize on latest molecular methods.
Syllabus
  • Introduction, sampling methods from various environments, determination of the form and arrangement of microorganisms in soil, isolation of microorganisms, biomass measurements, determination of microbial activity, methods of extraction of environmental R/DNA, creation of metagenomic libraries, diversity determination of microbial communities, exploitation of PLFA and FAME in diversity studies, fingerprinting in environmental microbiology (T/DGGE, SSCP, LH-PCR, T-RFLP), method of reassociation of environmental DNA, usage of metagenomic libraries and pyrosequencing in environmental microbiology, isotopic methods, chromatographic methods (gas and liquid chromatography).
Literature
    recommended literature
  • Methods for Studying the Ecology of soil Micro-organisms, D Parkinson, TRG Gray, ST Williams, Blackwell Scientific Publications, 1971
  • Environmental microbiology :current technology and water applications. Edited by Keya Sen. Norfolk: Caister Academic Press, 2011. ISBN 9781904455707. info
  • PEPPER, Ian L. and Charles P. GERBA. Environmental microbiology : a laboratory manual. 2nd ed. Amsterdam: Elsevier, 2004, xvii, 209. ISBN 0125506562. info
  • BITTON, Gabriel. Encyclopedia of environmental microbiology. New York, N.Y.: John Wiley & Sons, 2002, vi, 577-11. ISBN 0471360473. info
Teaching methods
lecture
Assessment methods
Active participation on lectures, final oral examination.
Language of instruction
Czech
Further Comments
The course is taught annually.
The course is taught: every week.
  • Enrolment Statistics (recent)
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