Molecular biology of plants

intermediate

BI1_U02, BI1_U09, BI1_K01

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

The exercises consist of the analysis of the sequence, function, and structure of proteins and nucleic acids using online databases and programs based on computational algorithms dedicated to genomics and proteomics.

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.

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

Objective effects in terms of skills:

Subject effect 5: The graduate is able to apply basic techniques and research tools in plant molecular biology, conduct observations, and perform research analysis based on internet databases in the field of biochemistry, genetics, proteomics, and statistics

Subject effect 6: The graduate is able to properly select sources and information derived from them, understands the literature in the field of the molecular biology of plants in Polish; reads scientific texts in English with understanding

Subject effect 7: The graduate is able to plan and organize individual work, as well as to cooperate and work in a group, assuming various roles in it, as well as perform the assigned research tasks.

Subject effects in the field of social competencies:

Subject effect 8: The graduate is ready to critically evaluate his knowledge, perceived content and recognize the importance of knowledge in solving cognitive and practical problems in the field of plant molecular biology

Subject effect 9: The graduate is ready to take care of the achievements and traditions of the profession of a molecular plant biologist, is responsible for the safety of his own work and that of others in the field of plant molecular biology.

Subject learning outcomes assigned to lectures (1-4)

Subject learning outcomes assigned to the exercises (5-9)

ECTS [1 ECTS = 30 hours]

Participation in the lecture - 30h

Preparation for the exam - 30h

Participation in exercises - 30h

Preparation for exercises - 10h

Preparation for tests - 10h

Consultation - 10h

Sum: 120h [120/30 = 4]

Ways to verify the learning outcomes:

- successful completion of exercises (learning outcomes in terms of skills and social competencies 5-9)

- positive assessment of the colloquium (learning outcomes in the field of knowledge 1-4). Final grade on the basis of partial grades obtained during the semester in tests and active participation in classes. The following grading scale applies: 94 - 100% very good (5.0), 88 - 93% plus good (4.5), 80 - 87% good (4.0), 70 - 79% plus satisfactory (3.5), 60 - 69% satisfactory (3.0), less than 59.9% insufficient (2.0). The condition for completing the course is attendance at the classes and active participation of the student in the exercises.

Laboratories - credit assessment based on partial grades obtained during the semester from reports, tests, and class activity. Classes are credited if the student: (i) actively participated in at least 85% of the classes; (ii) work during the classes in a way that allows to positively assess the knowledge, skills, and social competencies obtained in the course of the classes (described in the syllabus as subject learning outcomes 5-9).

The range of grades in the colloquium:

94 - 100% very good (5.0)

88 - 93% good plus (4.5)

80 - 87% good (4)

70 - 79% sufficient plus (3.5)

60 - 69% satisfactory (3)

below 59,9% insufficient (2)

For active presence at the lectures, it is possible to raise the final grade to a higher one if the percentage value obtained for the average grade or points is, respectively: 58-59% (for grade 3); 67-69% (for a score of 3.5); 77-79% (for a grade of 4); 86-87% (on the 4.5 mark) and 92-93% (on the 5 mark)

For grade 2 (N / A): The graduate is not able to properly select the sources and information derived from them, does not understand the literature on the molecular biology of plants in Polish at all; nor can he or she read and understand scientific texts in English. The graduate is not able to plan or organize individual work at all, nor to cooperate and work in a group, assuming different roles in it, and is also unable to perform the research tasks commissioned by the person conducting the research. The graduate is not ready at all to critically evaluate his knowledge or the received content, and he does not recognize the importance of knowledge in solving cognitive and practical problems in the field of plant molecular biology. The graduate is not ready to look after the achievements and traditions of the profession of a molecular plant biologist, he is not responsible for the safety of his own work and that of others in the field of plant molecular biology.

To grade 3 (dst.): At the basic level, a graduate is able to properly select sources and information derived from them, understands the basic literature in the field of the molecular biology of plants in Polish; at the basic level, reads and understands scientific texts in English. At the basic level, a graduate is able to plan and organize individual work and, at a basic level, to cooperate and work in a group, assuming various roles in it, and to properly perform the assigned research tasks. Graduates are ready to critically assess their knowledge and received content and recognize the basic importance of knowledge in solving cognitive and practical problems in the field of plant molecular biology. The graduate is ready to take care of the achievements and traditions of the profession of a molecular plant biologist on a basic level, is responsible for the safety of his own work and that of others in the field of plant molecular biology.

To grade 4 (db.): The graduate is able to use the basic techniques and research tools in the molecular biology of plants, conduct observations, and properly perform research analysis based on internet databases in the field of biochemistry, genetics, proteomics, and statistics. The graduate is able to properly select the sources and information derived from them, has a good understanding of the basic literature on plant molecular biology in Polish; reads well, and comprehends scientific texts in English. The graduate is able to plan and organize individual work well and cooperate well and work in a group, assume various roles in it, and also properly perform the assigned research tasks. The graduate is fully ready to critically assess his knowledge, received content and correctly recognizes the importance of knowledge in solving cognitive and practical problems in the field of plant molecular biology. The graduate is fully ready to take care of the achievements and traditions of the profession of a molecular plant biologist, is fully responsible for the safety of his own work and that of others in the field of plant molecular biology.

To grade 5 (very good): Graduates are very good at using basic techniques and research tools in plant molecular biology, conducting observations, and properly performing research analysis based on internet databases in the field of biochemistry, genetics, proteomics, and statistics. The graduate is very good at selecting the sources and information derived from them very well, he has a good understanding of the basic literature on plant molecular biology in Polish; reads scientific texts in English very well. The graduate is very good at planning and organizing individual work, and is very good at interacting and working in a group, assuming various roles in it, as well as properly performing the research tasks commissioned by the person conducting the research. The graduate is fully ready to critically assess his knowledge, received content and correctly recognizes the importance of knowledge in solving cognitive and practical problems in the field of plant molecular biology. The graduate is fully ready to take care of the achievements and traditions of the profession of a molecular plant biologist, is fully responsible for the safety of his own work and that of others in the field of plant molecular biology.