PřF:Bi0260 Taxon., phylog., zool. nomencl - Course Information
Bi0260 Taxonomy, phylogenetics and zoological nomenclature
Faculty of ScienceSpring 2013
- Extent and Intensity
- 2/1/0. 3 credit(s) (plus extra credits for completion). Type of Completion: zk (examination).
- Teacher(s)
- Mgr. Igor Malenovský, Ph.D. (lecturer), prof. RNDr. Jaromír Vaňhara, CSc. (deputy)
RNDr. Andrea Špalek Tóthová, Ph.D. (lecturer) - Guaranteed by
- prof. RNDr. Jaromír Vaňhara, CSc.
Department of Botany and Zoology – Biology Section – Faculty of Science
Contact Person: prof. RNDr. Jaromír Vaňhara, CSc.
Supplier department: Department of Botany and Zoology – Biology Section – Faculty of Science - Timetable
- Wed 16:00–18:50 VS
- Prerequisites
- Bi1030 Inverteb. phylog. & divers. && Bi2090 Verteb. phylog. & divers.
Examples and the chapter on nomenclature are primarily aimed at students of systematic zoology, all interested students of other branches of biology are however welcome, as most topics included in the course are general. - Course Enrolment Limitations
- The course is also offered to the students of the fields other than those the course is directly associated with.
- fields of study / plans the course is directly associated with
- Systematic Biology and Ecology (programme PřF, N-BI, specialization Systematic Zoology and Ecology)
- Course objectives
- At the end of the course, students should be able to employ basic terms and methods of biological systematics and taxonomy, especially those related to species delimitation, phylogeny reconstruction, natural classification and rules of zoological nomenclature, and use them in praxis.
- Syllabus
- 1. Systematics, taxonomy and a brief review on their history.
- 2. Taxon, category, species concept, character, intraspecific variation.
- 3. Phenetics, review and use of statistics in contemporary taxonomy. Taxonomic character from the viewpoint of statistics, traditional and geometric morfometrics, cluster analyses, ordinations, discriminant analysis, artificial neural networks, automatic species identification.
- 4. Introduction into cladistics: similarity and relationship, homology, syn)apomorphy, (sym)plesiomorphy, determination of character polarity, principle of maximum parsimony, hypothesis in systematics.
- 5. Quantitative cladistics: character coding, cladogram construction, character optimization and weighting, tree statistics, consensus, cladistic software.
- 6. Methods of molecular taxonomy and phylogenetics: proteins, nucleic acids and their extraction, PCR, DNA cloning and sequencing, DNA hybridisation, RAPD, restriction analyses, microsatelites, DNA barcoding.
- 7. Reconstruction of phylogeny using molecular data: alignment, maximum parsimony, maximum likelihood, Bayesian analysis, distance methods.
- 8. Practical use of molecular methods in taxonomy: visit of a laboratory.
- 9. Advantages and limits of molecular and morphological data, sources of error and conflict, integration of different types of data into a phylogenetic analysis. Applications of phylogenetic analysis: classification, historical biogeography, tests of coevolution and evolutionary scenarios.
- 10. International code of zoological nomeclature: basic principles, availability, validity and formation of names.
- 11. International code of zoological nomeclature 2: homonymy and synonymy, principle of priority versus stability, type concept in nomenclature, summary and model examples.
- 12. Work with taxonomic material and literature: collections, taxonomic revision, description of new taxa, identification keys, biodiversity databases, electronic taxonomy.
- Literature
- DROZD, Pavel. Principy systematiky a taxonomie. Vyd. 1. Ostrava: Ostravská univerzita, 2004, 89 s. ISBN 807042995X. info
- FLEGR, Jaroslav. Evoluční biologie. Vyd. 1. Praha: Academia, 2005, 559 s. ISBN 8020012702. info
- Mezinárodní pravidla zoologické nomenklatury : přijaté Mezinárodní unií biologických věd. Translated by Václav Houša - Pavel Štys. 4. vyd. Praha: Česká společnost entomologická, 2003, 8, xxxi. ISBN 8023915398. info
- SCHUH, Randall T. Biological Systematics. Priciples and Applications. 1st ed. Ithaca and London: Cornell University Press, 2000, 239 pp. ISBN 0-8014-3675-3. info
- KITSCHING, Jan J. and Peter L. et al. FOREY. Cladistics. The theory and practice of parsimony analysis. 2nd ed. Oxford: Oxford University Press, 1998, 228 pp. ISBN 0 19 850138 2. info
- Zima J., Macholán M., Munclinger P., Piálek J. Genetické metody v zoologii. Univerzita Karlova v Praze, Karolinum, Praha, 239s, 2004 ISBN 80-246-0795-6.
- ŽUROVEC, Michal. Molekulární biologie živočichů. Vyd. 1. České Budějovice: Jihočeská univerzita, 1999, 312 s. ISBN 8070403330. info
- MARHOLD, Karol and Jan SUDA. Statistické zpracování mnohorozměrných dat v taxonomii : (fenetické metody). 1. vyd. Praha: Karolinum, 2002, 159 s. ISBN 8024604388. info
- WINSTON, Judith E. Describing species : practical taxonomic procedure for biologists. New York, N.Y.: Columbia University Press, 1999, xx, 518. ISBN 0231068247. info
- Wägele, Johann-Wolfgang: Foundations of phylogenetic systematics. Verlag Dr. Friedrich Pfeil, München, 2005. 365 s. ISBN 3-89937-056-2.
- Teaching methods
- Lectures, class discussion, visit of a laboratory of molecular taxonomy, visit of natural history museum collections.
- Assessment methods
- Written test, usually consisting of 25 questions from throughout the contents of the course, 50% of correct answers is needed to pass.
- Language of instruction
- Czech
- Further comments (probably available only in Czech)
- Study Materials
The course is taught annually.
- Enrolment Statistics (Spring 2013, recent)
- Permalink: https://is.muni.cz/course/sci/spring2013/Bi0260