Bi7770 Methodology of molecular taxonomy and phylogeny of insects

Faculty of Science
Autumn 2024
Extent and Intensity
1/2/0. 3 credit(s) (plus extra credits for completion). Type of Completion: z (credit).
In-person direct teaching
Teacher(s)
RNDr. Andrea Špalek Tóthová, Ph.D. (seminar tutor)
Guaranteed by
RNDr. Andrea Špalek Tóthová, Ph.D.
Department of Botany and Zoology – Biology Section – Faculty of Science
Supplier department: Department of Botany and Zoology – Biology Section – Faculty of Science
Prerequisites
SOUHLAS
Bi1030 Fylogeneze a div. bezobratlych, Bi6760 Zaklady entomologie
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
Course objectives
This course is intended for Bc., MSc. and PhD. students and would give an overview of recent molecular techniques used in entomological research. At the end of the course, students should be able to understand the theoretical and practical principles of following subjects: DNA analysis (extraction of DNA, PCR, electrophoresis, sequencing, fragment analysis of microsatellites), Analysing methods (phylogenetic data: distance methods, maximum parsimony, model testing, maximum likelihood, bayesian inference, etc.).
Learning outcomes
Students passing this course should be able to work in a molecular laboratory involving DNA extractions, PCR amplifications, electrophoresis, purifications and sequencing; as well as processing sequencing data, preparing a dataset for different phylogenetic analyses and reconstructing phylogenetic relationships using various phylogenetic programs.
Syllabus
  • Lectures 1. DNA (history, chem. structure, types of DNA, character of primers and their testing) 2. Methods based on nucleic acid analyses (PCR, MS, RAPD, AFLP, hybridization) 3. DNA sequencing 4. Barcoding and Tree of Life – use of molec. data, multigene phylogeny, working with databases 5.Rules of the work safety in a molec. biology laboratory Practice- LAB 6. Lab work I (DNA extraction from insect tissue) 7. Lab work II ( PCR, gel electrophoresis) 8. Lab work III (sample preparation for sequencing, purification and sequencing) 9. Lab work IV (mikrosatellites and fragment analysis) Practice - PC 10. Analysis methods I (sequnecing data correction) - analyses based on sequnece fragments of chosen gene markers 11. Analysis methods II (phylogenetic data) - methods based on distnace, parsimony, likelihood, bayesian inference, model testing
Literature
    recommended literature
  • ZIMA J., MACHOLÁN M., MUNCLINGER P., PIÁLEK J. (2004): Genetické metody v zoologii. Univerzita Karlova v Praze, Karolinum, Praha, 239s. ISBN 80-246-0795-6.
  • ŽUROVEC M. (1999) Molekulární biologie živočichů. Jihočeská univerzita v Českých Budějovicích, Biologická fakulta, 312 s. ISBN 80-7040-333-0.
  • BARRY G.HALL, 2004: Phylogenetic trees made easy. Sinauer Associates, Sunderland, Massachusetts, 221 pp.
  • Rozsypal S. 1998-1999: Úvod do molekulární biologie. Díl 1-2.
  • Sambrook & Russel 2001: Molecular Cloning - A laboratory manual, vol.1-2.
Teaching methods
The course will provide classic lectures as well as practical lab work with own material and computer based analyses with obtained data.
Assessment methods
Students will be classified according to their work skills, results in the laboratory and in data analyses. For the successfull ending of the course, a 100% presence is required.
Language of instruction
Czech
Further Comments
The course is taught annually.
The course is taught: every week.
The course is also listed under the following terms Autumn 2011, Autumn 2011 - acreditation, Autumn 2012, Autumn 2014, Autumn 2015, Autumn 2016, autumn 2017, Autumn 2018, Autumn 2019, Autumn 2020, autumn 2021, Autumn 2022, Autumn 2023.
  • Enrolment Statistics (recent)
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