Conducted in terms: 2021/22_L, 2022/23_L, 2023/24_L, 2024/25_L

Erasmus code: 13.1

ECTS credits: unknown

Language: Polish

Organized by: Faculty of Biology and Environmental Sciences

Molecular biology of plants WB-BI-EOP-09lab

The course of classes in the subject "Molecular biology of plants" includes lectures and exercises. During the exercises, students will use various algorithms for the conversion, matching and comparison of nucleotide and amino acid sequences, construct phylogenetic trees and learn computational methods for the genetic similarity of DNA and protein sequences of the plant species under study using freely available programs.

Term 2021/22_L:

The classes consist of computer exercises with the following content:
1. Basic concepts used in molecular biology: UTR, promoter, gene, terminator, differences between DNA, cDNA, RNA, and protein, identification of signal sequences, knowledge of gene databases for Arabidopsis.
2. Analysis of amino acid and nucleotide sequences: annealing, genetic similarity, analysis of homologues, heterologues, and paralogs.
3. Analysis of the sequence, function, location, and structure of proteins using two plant databases: ARAPORT and BAR ePlant.
4. Sequence search, construction of genetic similarity dendrograms, bootstrapping, and grouping probability for amino acid sequences using the algorithmic method in MEGA X.
5. Sequence search, construction of genetic similarity dendrograms, bootstrapping, and aggregation probability for DNA sequences using the algorithmic method in MEGA X.
6. Phylogenesis, dendrogram construction, bootstrapping, and clustering probability for amino acid sequences by the algorithmic method in NCBI-BLAST.
7. Phylogenesis, dendrogram construction, bootstrapping, and clustering probability for DNA sequences using the NCBI-BLAST algorithmic method.

Term 2022/23_L:

None

Term 2023/24_L:

None

Term 2024/25_L:

None

(in Polish) Dyscyplina naukowa, do której odnoszą się efekty uczenia się

biological sciences

(in Polish) E-Learning

Term 2022/23_L:

(in Polish) E-Learning

Term 2024/25_L:

(in Polish) E-Learning

Term 2023/24_L:

(in Polish) E-Learning

Term 2019/20_L:

(in Polish) E-Learning z podziałem na grupy

Term 2020/21_L:

(in Polish) E-Learning

(in Polish) Grupa przedmiotów ogólnouczenianych

(in Polish) nie dotyczy

(in Polish) Opis nakładu pracy studenta w ECTS

Term 2022/23_L:

(in Polish) Wykłady: 30h – bezpośredni udział w wykładach 20h – przygotowanie do egzaminu 10h – konsultacje Razem: 60h [60/30=2 ECTS] Ćwiczenia: 30 h – bezpośredni udział w ćwiczeniach 10h – przygotowanie i przedstawienie wyników obliczeń 15h – przygotowanie do kolokwium 5h – konsultacje Razem: 60h [60/30=2 ECTS]

Term 2023/24_L:

(in Polish) 30h – bezpośredni udział w wykładach 20h – przygotowanie do egzaminu 10h – konsultacje Razem: 60h [60/30=2 ECTS] Ćwiczenia: 30 h – bezpośredni udział w ćwiczeniach 10h – przygotowanie i przedstawienie wyników obliczeń 15h – przygotowanie do kolokwium 5h – konsultacje Razem: 60h [60/30=2 ECTS]

Term 2024/25_L:

Subject level

intermediate

Learning outcome code/codes

BI1_U02,BI1_U09,BI1_K01

Type of subject

optional with unlimited choices

Preliminary Requirements

Basics of molecular biology and genetics at the level of the third year of Biology or related studies.

Course coordinators

Justyna Nowakowska

Bibliography

Compulsory literature:
1. Easy phylogenetic trees. B.G. Hall. Ed. University of Warsaw, Warsaw, 2008.
2. Basics of population genetics. Ed. D.L. Hartl, A.G. Clark. WUW, Warsaw, 2009
3. Databases:
http://www.expasy.org/tools/dna.html
https://www.araport.org/eplant
http://bar.utoronto.ca/eplant
http://www.ncbi.nlm.nih.gov/BLAST/
http://www.ncbi.nlm.nih.gov/Education/BLASTinfo/information3.html
http://www.ebi.ac.uk/clustalw/
Supplementary literature:
1. Molecular biology. Short lectures. P.C. Turner, A.G. McLennan, A.D. Bates, M.R.H. White. PWN SA, Warsaw, 2012
2. On-line softwares: eg ClustalW, BioEdit, MEGA, MAFFT

Term 2021/22_L:

Term 2022/23_L:

None

Term 2023/24_L:

None

Term 2024/25_L:

None

Notes

Term 2021/22_L:

Practices are computer classes, preceded by a short introduction to the subject.

Term 2022/23_L:

None

Term 2023/24_L:

None

Term 2024/25_L:

None

Additional information

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

Description of WB-BI-EOP-09lab in USOSweb