Učni načrt predmeta

Predmet:

Proteinsko in celično inženirstvo

Course:

Protein and Cell Engineering

Študijski program in stopnja / Study programme and level	Študijska smer / Study field	Letnik / Academic year	Semester / Semester
Nanoznanosti in nanotehnologije, 3. stopnja		1	1
Nanosciences and Nanotechnologies, 3rd cycle		1	1

Vrsta predmeta / Course type

Izbirni / Elective

Univerzitetna koda predmeta / University course code:

NANO3-825

Predavanja Lectures	Seminar Seminar	Vaje Tutorial	Klinične vaje work	Druge oblike študija	Samost. delo Individ. work	ECTS
15	15			15	105	10

*Navedena porazdelitev ur velja, če je vpisanih vsaj 15 študentov. Drugače se obseg izvedbe kontaktnih ur sorazmerno zmanjša in prenese v samostojno delo. / This distribution of hours is valid if at least 15 students are enrolled. Otherwise the contact hours are linearly reduced and transfered to individual work.

Nosilec predmeta / Course leader:

izr. prof. dr. Toni Petan

Sodelavci / Lecturers:

prof. dr. Jože Pungerčar

Jeziki / Languages:

Predavanja / Lectures:

slovenščina, angleščina / Slovenian, English

Vaje / Tutorial:

slovenščina, angleščina / Slovenian, English

Pogoji za vključitev v delo oz. za opravljanje študijskih obveznosti:

Prerequisites:

Zaključena druga stopnja bolonjskega študija ali diploma univerzitetnega študijskega programa.

Potrebna so tudi osnovna znanja s področij biokemije, molekularne in celične biologije, molekularne genetike in proteinske/encimske strukture.

Completed Bologna second level study program or an equivalent pre-Bologna university study program.

Basic knowledge of biochemistry, molecular and cell biology, molecular genetics and protein/enzyme structure is also requested.

Vsebina:

Content (Syllabus outline):

- Proteinsko inženirstvo: zgodovinski pregled, osnovni pojmi, racionalni dizajn in usmerjena evolucija.
- Mutageneza: različni pristopi in najpogostejše tehnike.
- Neomejeni potencial celičnega inženirstva.
- Uporaba različnih proteinskih označevalcev.
- Načrtovanje usmerjenih mutacij na izbrani proteinski molekuli.
- Uvedba mutacij(e) na nukleotidnem nivoju.
- Pridobitev mutiranega rekombinantnega proteina in njegova osnovna karakterizacija.
- Priprava izbranega označenega proteina v sesalskih celicah.
- Analiza dobljenih rezultatov.
- Priprava zaključne seminarske naloge.

- Protein engineering: historical view, basic concepts and terms, rational design and directed evolution.
- Mutagenesis: various approaches and common techniques.
- Unlimited potential of cell engineering.
- Use of various protein tags and markers.
- Design of site-directed mutations on a selected protein molecule.
- Introduction of mutation(s) at the nucleotide level.
- Production of a mutant recombinant protein and its basic characterization.
- Preparation of a selected labeled protein in mammalian cells.
- Analysis of the obtained results.
- Preparation of a final seminar work.

Temeljna literatura in viri / Readings:

Ausubel, F.M. et al. /Eds./ (2007): Current Protocols in Molecular Biology. John Wiley and Sons, Inc., New York, USA; Continuously updated.
Robertson, D.E. and Noel, J.P. /Eds./ (2004): Protein Engineering. In: Methods in Enzymology, Vol. 388, Elsevier Academic Press, Amsterdam, The Netherlands.
Wittrup, K.D. and Verdine G.L. /Eds./ (2012): Protein Engineering for Therapeutics, Parts A & B. In: Methods in Enzymology, Vols. 502 & 503, Elsevier Academic Press, Amsterdam, The Netherlands.
Al-Rubeai, M. and Fussenegger, M. /Eds./ (2007): Cell Engineering, Vol. 5 (Systems Biology), Springer Verlag, New York, USA.
Saltzman, W.M. (2015): Biomedical Engineering - Bridging Medicine and Technology, 2nd edn., Cambridge University Press, New York, USA.

Current research and review articles from the field.

Cilji in kompetence:

Objectives and competences:

Študentje bodo poglobili svoja znanje s področja razumevanja odnosov med strukturo in funkcijo proteinov. Naučili se bodo samostojno načrtovati ustrezne eksperimente in uporabljati različne pristope proteinskega inženirstva. Prav tako se bodo naučili uporabljati različne celične sisteme za študij in razumevanje biološkega delovanja izbranih proteinov ter molekulskih mehanizmov na nivoju celice.

Splošne kompetence:
- Obvladanje raziskovalnih metod, analitičnih postopkov in molekularnobioloških procesov.
- Razvoj kritične in samokritične presoje.
- Sposobnost uporabe pridobljenega znanja v praksi.
- Samostojno raziskovalno delo.
- Kooperativnost ter delo v skupini in kompetitivnem mednarodnem raziskovalnem okolju.

Predmetnospecifične kompetence:
- Predmet pripravlja študente na konkretno delo s proteini/encimi v raziskovalnem molekularno in celičnobiološkem laboratoriju.
- Daje tudi dobra izhodišča za delo v ustreznem polindustrijskem laboratoriju.

Students are expected to gain a deep understanding of structure-function relationships in proteins. They will develop the ability to independently design experiments and apply diverse approaches in protein engineering. Additionally, students will learn to utilize various cell systems to study and uncover the biological roles of proteins of interest and the molecular mechanisms within cells.

General Competences:
- Students will master research methods, analytical procedures and molecular biology processes.
- Development of a critical and self-critical judgment.
- Transfer of acquired knowledge to practical use.
- Individual research work.
- Cooperativity and team work in a competitive international research environment.

Course Specific Competences:
- This course prepares students for practical work on proteins/enzymes in a molecular and cell biology research laboratory.
- The course provides a good background for work in an appropriate semi-industrial laboratory.

Predvideni študijski rezultati:

Intendeded learning outcomes:

Znanje in razumevanje:
- Poglobljeno razumevanje osnovnih pristopov proteinskega inženirstva.
- Razumevanje in vrednotenje različnih možnosti celičnega inženirstva in njihove smiselne uporabe.

Knowledge and Understanding:
- In-depth understanding of basic approaches to protein engineering.
- Understanding and evaluation of different possibilities of cell engineering and their rational use.

Metode poučevanja in učenja:

Learning and teaching methods:

Predavanja (opcijsko).
Seminarji, tutorstvo in seminarska naloga.
Laboratorijsko ali in silico individualno in timsko delo, usmerjeno v študentovo raziskovalno problematiko.

Lectures (optional).
Seminar work and tutorial.
Individual and team work in the laboratory or in silico that is student research-oriented.

Načini ocenjevanja:

Delež v % / Weight in %

Assesment:

Seminarska naloga

50 %

Seminar work

Ustni zagovor seminarske naloge

50 %

Oral defense of seminar work

Reference nosilca / Lecturer's references:

1.	Jovičić EJ, Janež AP, Eichmann TO, Koren Š, Brglez V, Jordan PM, Gerstmeier J, Lainšček D, Golob-Urbanc A, Jerala R, Lambeau G, Werz O, Zimmermann R, Petan T (2023) Lipid droplets control mitogenic lipid mediator production in human cancer cells. Molecular Metabolism 76: 101791.
2.	Danielli M, Perne L, Jovičić EJ & Petan T (2023) Lipid droplets and polyunsaturated fatty acid trafficking: Balancing life and death. Front Cell Developmental Biology 11: 1104725.
3.	Petan T & Manček-Keber M (2022) Half is enough: Oxidized lysophospholipids as novel bioactive molecules. Free Radic Biol Med 188: 351–362.
4.	Smolič T, Tavčar P, Horvat A, Černe U, Vasle AH, Tratnjek L, Kreft ME, Scholz N, Matis M, Petan T, Zorec R & Vardjan N (2021) Astrocytes in stress accumulate lipid droplets. Glia 69: 1540–1562
5.	Ha VT, Lainšček D, Gesslbauer B, Jarc-Jovičić E, Hyötyläinen T, Ilc N, Lakota K, Tomšič M, Loo FAJ van de, Bochkov V, Petan T, Jerala R & Manček-Keber M (2020) Synergy between 15-lipoxygenase and secreted PLA2 promotes inflammation by formation of TLR4 agonists from extracellular vesicles. Proc Natl Acad Sci U S A 117: 25679–25689.