The aim of studying and bibliography

The main aim of study: To familiarize students with the basic techniques used in the laboratories involved in the diagnosis of pathology at the molecular level. We will show various methods of detection and identification of pathogenic organisms. Students become familiar with the methods of molecular diagnostics in infectious, cancer and hereditary diseases.

The general information about the module: The module is implemented in the second semester and includes 30 hours of lectures and 30 hours laboratory. The module ends with an exam

Teaching materials: Gene reviews: http://www.ncbi.nlm.nih.gov/books/NBK1116/?term=diagnostics

Bibliography required to complete the module

Bibliography used during lectures

1	Turner PC., McLennan AG., Bates AD., White MRH.	Biologia molekularna. Krótkie wykłady	PWN.	2004
2	Bal J.	Biologia molekularna w medycynie	PWN.	2006
3	Brown T.A	Genomy	PWN.	2009
4	Słomski R	Analiza DNA	Wyd UR w Poznaniu.	2011
5	Srebro Z. Lach H.	GENETYCZNE, EPIGENETYCZNE I BIOENERGETYCZNE MECHANIZMY STARZENIA SIĘ I NOWOTWORÓW	Wydawnictwo UJ.	2000

Bibliography used during classes/laboratories/others

1

Instrukcje do ćwiczeń

.

Bibliography to self-study

1

Gene Reviews

http://www.ncbi.nlm.nih.gov/books/NBK1116.

Basic requirements in category knowledge/skills/social competences

Formal requirements: Registration for the semester

Basic requirements in category knowledge: It has specific knowledge about construction of biomolecules with their interdependence in the cell needed to understand the biochemical causes of disease

Basic requirements in category skills: Student mastered the use of the automatic pipette and knows the basic rules of behavior in the laboratory

Basic requirements in category social competences: Can work in a team, has ethical qualities necessary when working at biotechnology.

Module outcomes

MEK	The student who completed the module	Types of classes / teaching methods leading to achieving a given outcome of teaching	Methods of verifying every mentioned outcome of teaching	Relationships with KEK	Relationships with PRK
01	Has an extended knowledge in the field of molecular diagnostics and the latest diagnostic techniques	lecture	written ezam	K_W03+++ K_W07+++	P7S_WG
02	Has the ability to perform DNA analysis and problem-solving research related to molecular diagnostics	laboratory	test	K_U09++ K_U10++ K_K02++	P7S_KR P7S_UW

Attention: Depending on the epidemic situation, verification of the achieved learning outcomes specified in the study program, in particular credits and examinations at the end of specific classes, can be implemented remotely (real-time meetings).

The syllabus of the module

Sem.	TK	The content	realized in	MEK
2	TK01	The use of molecular biology techniques in diagnostics and introduction of molecular diagnostics. Methods of nucleic acid amplification (PCR. LCR, and isothermal methods) PCR (RT-PCR), and real time PCR (Q-PCR) technique as the molecular pathology laboratories Technic of fluorescence in situ hybridization (FISH). Fluorescent determinants and detection methods, spectral imaging karyotype (SIC), 4. Comparative genomic hybridization. Microarray gene expression in profiling cDNA microarrays, and chips oligonucleotides / DNA. The study of protein expression as a method of molecular diagnostics. The next generation sequencing techniques in the diagnosis of human. Identification of pathogenic organisms with the use of immunological methods. Molecular diagnostics of genetically inherited diseases. Molecular diagnostics of viral and bacterial infectious diseases. Methods of epigenetic variability testing in the diagnosis of oncological diseases.	-	MEK01
2	TK02	Genotyping by STR technique. Detection of the selected viruses. Rybotypowanie DNA equencing (Sanger) Real-time PCR (quantitative determinations and the melting point test). Identification of the structural mutations (karyotyping).	-	MEK02

The student's effort

The type of classes	The work before classes	The participation in classes	The work after classes
Lecture (sem. 2)		contact hours: 30.00 hours/sem.	complementing/reading through notes: 5.00 hours/sem. Studying the recommended bibliography: 16.00 hours/sem.
Laboratory (sem. 2)	The preparation for a Laboratory: 5.00 hours/sem. The preparation for a test: 5.00 hours/sem.	contact hours: 30.00 hours/sem.
Advice (sem. 2)		The participation in Advice: 2.00 hours/sem.
Exam (sem. 2)	The preparation for an Exam: 20.00 hours/sem.	The written exam: 1.00 hours/sem.

The way of giving the component module grades and the final grade

The type of classes	The way of giving the final grade
Lecture
Laboratory
The final grade

Sample problems

Required during the exam/when receiving the credit
(-)

Realized during classes/laboratories/projects
(-)

Others
(-)

Can a student use any teaching aids during the exam/when receiving the credit : no

The contents of the module are associated with the research profile: yes

1	B. Bakera; M. Rakoczy-Trojanowska; M. Szeliga; M. Święcicka; M. Tyrka	Identification of candidate genes responsible for chasmogamy in wheat	2023
2	P. Bednarek; A. Dorczyk; T. Drzazga; D. Jasińska; P. Krajewski; B. Ługowska; R. Martofel; P. Matysik; M. Niewińska; D. Ratajczak; K. Rączka; T. Sikora; D. Tyrka; M. Tyrka; E. Witkowski; U. Woźna-Pawlak	Genome-wide association mapping in elite winter wheat breeding for yield improvement	2023
3	M. Dyda; G. Gołębiowska; M. Rapacz; M. Szechyńska-Hebda; M. Tyrka; I. Wąsek; M. Wędzony	Quantitative trait loci and candidate genes associated with freezing tolerance of winter triticale (× Triticosecale Wittmack)	2022
4	M. Dyda; G. Gołębiowska; M. Rapacz; M. Tyrka; M. Wędzony	Genetic mapping of adult-plant resistance genes to powdery mildew in triticale	2022
5	M. Dyda; G. Gołębiowska; M. Rapacz; M. Tyrka; M. Wędzony	Mapping of QTL and candidate genes associated with powdery mildew resistance in triticale (× Triticosecale Wittm.)	2022
6	P. Krajewski; R. Marcinkowski; R. Martofel; P. Matysik; M. Mokrzycka; M. Rakoczy-Trojanowska; M. Rokicki; S. Stojałowski; M. Tyrka; U. Woźna-Pawlak; B. Żmijewska	Genome-Wide Association Analysis for Hybrid Breeding in Wheat	2022
7	A. Pietrusińska; M. Tyrka	Linkage of Lr55 wheat leaf rust resistance gene with microsatellite and DArT-based markers	2021
8	B. Bakera; P. Krajewski; M. Mokrzycka; M. Rakoczy-Trojanowska; M. Szeliga; M. Święcicka; M. Tyrka	Identification of Rf Genes in Hexaploid Wheat (Triticumaestivum L.) by RNA-Seq and Paralog Analyses	2021
9	B. Bakera; P. Krajewski; P. Matysik; M. Mokrzycka; M. Rakoczy-Trojanowska; M. Rokicki; S. Stojałowski; M. Szeliga; D. Tyrka; M. Tyrka	Evaluation of genetic structure in European wheat cultivars and advanced breeding lines using high-density genotyping-by-sequencing approach	2021
10	J. Buczkowicz; T. Drzazga; B. Ługowska; P. Matysik; K. Rubrycki; M. Semik; D. Tyrka; M. Tyrka; E. Witkowski	Identyfikacja efektywnych genów odporności na wybrane choroby wirusowe i grzybowe pszenicy zwyczajnej	2021
11	J. Buczkowicz; T. Drzazga; G. Fic; M. Jaromin; P. Krajewski; P. Matysik; R. Mazur; P. Milczarski; T. Sikora; M. Szeliga; D. Tyrka; M. Tyrka; E. Witkowski	Selekcja genomowa pszenicy ozimej	2021
12	E. Ciszkowicz; E. Kaznowska; P. Porzycki; M. Semik; M. Tyrka	MiR-93/miR-375: Diagnostic Potential, Aggressiveness Correlation and Common Target Genes in Prostate Cancer	2020
13	G. Czajowski; M. Karbarz; M. Pojmaj; A. Strzembicka; D. Tyrka; M. Tyrka; A. Wardyńska; M. Wędzony	Quantitative trait loci mapping of adult-plant resistance to powdery mildew in triticale	2020
14	J. Ciura; M. Szeliga; M. Tyrka	Representational Difference Analysis of Transcripts Involved in Jervine Biosynthesis	2020
15	J. Ciura; M. Grzesik; M. Szeliga; M. Tyrka	Identification of candidate genes involved in steroidal alkaloids biosynthesis in organ-specific transcriptomes of Veratrum nigrum L.	2019
16	M. Dyda; M. Szechyńska-Hebda; M. Tyrka; I. Wąsek; M. Wędzony	Local and systemic regulation of PSII efficiency in triticale infected by the hemibiotrophic pathogen Microdochium nivale	2019
17	M. Dziurka; K. Hura; T. Hura; A. Ostrowska; M. Tyrka	Participation of Wheat and Rye Genome in Drought Induced Senescence in Winter Triticale (X Triticosecale Wittm.)	2019
18	Z. Banaszak; A. Fiust; Z. Nita; W. Orłowska-Job; M. Pojmaj; M. Rapacz; M. Tyrka; M. Wójcik-Jagła	Sposób selekcji mrozoodpornych genotypów jęczmienia ozimego	2019