Experimental biology of plants
Student Obligations
The conditions and criteria for doctoral studies are based on the following obligations:
- Completion of at least 3 hard-skills courses (or summer schools/specific courses) during the first 2 years of study (link to the list of recommended hard-skills courses will be active from 09/2025).
- Completion of at least 1 course/training focused on the development of transferable soft skills during the first 2 years of study (link to the list of recommended soft-skills courses will be active from 09/2025).
- Participation in lectures/seminars related to the field of study of the student's choice (8 lectures per semester)
- Presenting your research at an international conference/forum.
- Participation in teaching (or preparation of teaching materials, organization of field trips or PhD Retreat, etc.).
- Absolvování stáže v zahraničí (minimálně 30 dní).
- Účast na ExPBio PhD Retreatu
Hard skills
During the first two years of study, students are required to take at least three vocational courses focused on hard skills. These courses can take the form of standard semester courses, summer schools or specific intensive courses.
A recommended list of hard skills courses is available below, but other relevant courses can be selected from the course catalogue.
Summer schools and short-term vocational courses that exceed 10 hours of instruction and are equivalent in intensity and focus to standard courses are also accepted. Course offerings are published in the News section, but other relevant courses may be selected. Participation in a summer school or specific course is subject to the approval of the instructor and the program sponsor. Recognition of course completion as part of the hard skills requirements is at the discretion of the program sponsor or his/her designee. It is recommended that the possibility of course recognition be consulted prior to taking the course.
Hard skills |
Code |
Course Name |
Lecturer |
Language |
Focused on plants CZ |
Plant genetics |
J. Řepková (Mandáková) |
CZ |
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Plant molecular physiology |
M. Šámalová |
CZ |
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Plant molecular physiology - practice |
M. Šámalová |
CZ |
|
|
Physiology and cultivation of algae and cyanobacteria |
P. Váczi |
CZ |
|
|
Physiology and cultivation of algae and cyqanobacteria- practice |
P. Váczi |
CZ |
|
|
Advanced methods in induced chlorophyl fluorescence |
M. Barták |
CZ |
|
|
Advanced methods in induced chlorophyl fluorescence- practice |
M. Barták |
CZ |
|
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Plant Polar Biology |
M. Barták |
CZ |
|
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Advanced Palnt Cell Biology |
M. Pernisová |
CZ |
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Plant Biochemistry |
Lochman |
CZ |
|
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Mineral Nutrition of Plants |
V. Gloser |
CZ |
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Plant microevolution and speciation |
Zedek |
CZ |
|
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Evo-devo plant biology |
Zedek |
CZ |
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|
General CZ |
Proteomics |
Zdrahal |
CZ |
|
|
Genomics |
Hejatko |
CZ |
|
|
Methods in genomics |
Fajkus |
CZ |
|
|
Metods in proteomics |
Zdrahal |
CZ |
|
|
Fluorescence methods in life sciences- a journeyfrom molecules to cells |
Hofr |
CZ |
|
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Structural Biology- practice |
Damborsky |
CZ |
|
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|
|
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Focused on plants EN |
Principles Of Water And Nutrient Use By Plants |
Gloser |
EN |
|
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Production of Medicinal Plants |
Dvorska |
EN |
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Hormones in plant development |
Boisivon |
EN |
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Production Plant Biology |
Bartak, Vaczi |
EN |
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Plant Biochemistry |
Lochman |
EN |
|
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Experimental Plant Biology |
Bartak |
EN |
|
|
Methods in plant cytogenetics and cytogenomics I. - practical course |
Mandakova |
EN |
|
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Methods in plant cytogenetics and cytogenomics II. - practical course |
Mandakova |
EN |
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General EN |
RNA metabolism |
Vanacova |
EN |
|
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Genomics |
Hejatko |
EN |
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Proteomics |
Zdrahal |
EN |
|
|
Methods in genomics |
Fajkus |
EN |
|
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Methods in proteomics |
Zdrahal |
EN |
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Synthetic Biology |
Riha |
EN |
Soft skills
During the first two years of study, students are obliged to attend at least one professional course or training focused on the development of soft skills. These activities may focus on presentation and communication skills, teamwork, management and leadership skills development or, for example, professional competences in bioinformatics and biostatistical data processing.
Courses can be taken within the offer of the Centre for the Development of Educational Competences (CERPEK MU), the PhD Academy of the South Moravian Innovation Centre, or other educational institutions, including summer schools and short-term training courses.
In the case of courses that are not listed in the MU course catalogue or the recommended list (see link), it is necessary to consult their suitability with the supervisor and programme guarantor or his/her designee before taking them.
Soft skills |
Code |
Course Name |
Lecturer |
Language |
Notes |
Biostatistics or Bioinformatics |
Biostatistics – basic course |
Dusek |
CZ |
General introduction to the biostatics. |
|
|
Biostatistics - practice |
Dusek |
CZ |
General introduction to the biostatics - practice. |
|
|
Introduction to R |
dr. Kintrová |
CZ |
Good for beginniners in R. |
|
|
Data analysis in R |
Budinska, dr. Smetanová |
CZ |
Good for beginniners with basic knowledge of R. |
|
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Multivariate methods |
Jarkovsky |
CZ |
Needs basic knowledge of R. |
|
|
Data analysis in R for experimental and molecular biology |
Ovesna |
CZ |
Good for beginniners in R. |
|
|
Data anylsis in R for experimental and molecular biology - practice |
Ovesna |
CZ |
Good for beginniners in R - practice. |
|
|
Artificial Intelligence in Biology, Chemistry, and Bioengineering |
Damborsky |
EN |
Focuses to AI, involves also introduction to Python. |
|
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Artificial Intelligence in Biology, Chemistry, and Bioengineering - practice |
Damborsky |
EN |
Focuses to AI, involves also introduction to Python - practice. |
|
|
Advanced Data Science Practicum |
Šimeček, students, guests from industry |
CZ |
Needs basic knowledge of Python. |
|
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General |
Law, Ethics and Philosophy of Science |
Havlis |
EN |
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Discover the science - Scientific knowledge and thinking |
Havlis |
EN |
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Discover the science - Science and society |
Havlis |
EN |
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Science Communication Course: Present Your Research Results with Confidence |
Hejatko |
EN |
The goal is to teach students how to prepare effective presentations. |
|
|
Communication skills training |
Vrtala |
EN |
The aim is to improve students' ability to interact and communicate (ie listening and speaking) with people. |
|
|
Academic Writing |
Dvorackova LF |
EN |
Focuses on better understanding of English-language academic and science writing cultures. |
|
|
International Performance |
Stepanek |
EN |
Introduction to the different approaches in presentation of scientific outcomes. |
|
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Introduction to Project Management and Writing |
Stepanek |
EN |
Introduction to project design, management, and writing. |
|
|
Science Writing Workshop |
Nekola |
EN |
Participants must at the start of the course have some type of completed scientific analysis which they ultimately plan on submitting to a peer-reviewed journal. |
|
|
Effective Science Communication: Written and Graphic Skills |
Harnos |
EN |
Explores written and graphic communication in science. |
|
|
Illustration in science – actractive and comprehensive graphics visualization in research and education |
Hofr |
CZ |
On-line. Focuses on graphical design a data visualization. |
|
|
FRESHERS: Skills for Research Careers |
Various (>8) |
EN |
On-line. Overall picture of the topics that researchers face (financing research and grant opportunities, publication ethics, communication of science and research results promotion). |
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English |
English for Plant Biologists |
M. Barták |
EN |
|
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Advanced English for PhD studies (C1) |
Coupkova |
EN |
|
|
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Advanced English for PhD studies (C1) |
Coupkova |
EN |
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Specialized seminar ExPBio
Students participate in specialized seminars focused on the presentation of the latest research findings, not only in the field of plant biology. Recommended activities include seminars organized at the Faculty of Science of MU or within CEITEC MU, such as Mendel Centre Seminars in Life Sciences (IS MU: S2009) Life Sciences Seminar (IS MU: S5030, S5035, XD010, XD011, Bi0011), Life Science PI Seminar (IS MU: S5020), NCBR Seminar (IS MU: CB060, CC060), Doctoral Seminar IEB (IS MU: Bi0100, Bi0101) or the Seminar of the Institute of Experimental Biology FGP (IS MU: C9950).
It is also possible to attend professional lectures organised outside Masaryk University, within other academic and research institutions. However, participation in lectures within conferences is not counted among the lectures attended; only individual professional lectures organised by research institutes are recognised.
Credit for the course Specialised Seminar - ExPBio (IS MU: C0030) may be awarded on the basis of a list of completed lectures submitted by the student. The list may be verified by the programme guarantor or his/her designee against the official electronic attendance register kept for seminars organised by Masaryk University.
To receive credit, student is obliged to:
- full-time students must attend at least 8 lectures per semester,
- combined forms of study at least 4 lectures per semester.
Template for confirmation of student´s participation (download here):
- Lecture date
- Place of venue
- Name of speaker
- Lecture title
- Brief content of lecture (one sentence)
The completed template should be placed in the course "Submissions/Odevzdávárna" at the end of each semester. After checking, credit will be given by the program guarantor.
International conferences
Students are obliged to present their research results in a form of presentation at least once during their four years of study at an international conference, forum or workshop. If you are attending an international conference abroad, please contact the guarantor and copy the PhD coordinator with the following information:
- Title and website link of the event
- Date of presentation
- Place of venue
- Name of speaker
- Lecture title
- Brief content of the lecture (in one sentence)
The guarantor will ensure that credit is awarded in the IS MU under the subject "Lecture in the Foreign Language" (IS MU: XD106).
Internship abroad
Completion of an internship abroad (at least 30 days)
During studies, the student is obliged to complete a foreign internship (IS MU: XD103) or alternatively a foreign professional practice (IS MU: XD110) of at least one month (in total for the duration of your studies), or in accordance with the requirements of national or university standards. The thematic focus of the internship or work experience must be related to the topic of the dissertation.
In exceptional and justified cases, the departmental board may decide on an alternative way of fulfilling this obligation, for example by active involvement in an international project for a minimum of two years.
Always contact the Mobility coordinator prior to departure to be infromed about the current documentation required before, during and after the internship.
Handling Chemical Substances
Students are obliged to take the course “Handling Chemical Substances” (IS MU: C7777) every semester for the entire duration of your studies.
ExPBio PhD Retreat
Students are obliged to attend and present their results at the ExPBio PhD Retreat every year. The detailed participation procedure is defined in the PhD Retreat guidelines. Full-time students are obliged to actively participate in the direct organisation of the Retreat. In justified cases, the program guarantor or his/her designee may decide on an alternative way of fulfilling this obligation. Upon completion of the Retreat, students are awarded “ExPBio PhD Retreat” credit (IS MU: C0020) in the information system.
TAC - Thesis Advisory Committe
The establishment of a Thesis Advisory Committee (TAC) is a mandatory part of the doctoral studies. It serves to continuously monitor study progress in collaboration with external experts. The TAC is responsible for monitoring the progress of the thesis project, providing expert advice and support to both the student and the supervisor.
Credit is awarded to the student for completion of each TAC meeting in the MU Information System (IS MU:C0010).
Composition of the TAC
The student is responsible for the composition of the TAC in collaboration with his/her supervisor. Committee members are selected and appointed by the end of the first year of study. The TAC must include the supervisor and at least two other members who are not part of the supervisor's research group; at least one member must be external, i.e. outside the institution where the student is carrying out his/her doctoral research (e.g. Masaryk University, Institute of Biophysics of the CAS, etc.). The inclusion of a foreign expert is possible and considered beneficial. There is no upper limit on the number of TAC members. Any expert (internal or external) with relevant experience in supervising PhD students can become a member. The composition of the TAC is subject to the approval of the program guarantor or his/her designee and subsequently approved by the ExPBio Departmental Board.
TAC meetings
TAC meetings can be initiated by the student, the supervisor, the program quarantor or his designee. Participation of individual members is also possible by distance (online). The student is responsible for organising the meetings, including inviting the members and ensuring the submission of fully completed evaluation reports.
- The first TAC meeting must take place no later than the end of the second semester and includes a research plan during the entire PhD study.
- The second meeting should take place by the end of the fourth semester, unless required earlier, and includes the proposed goals of the dissertation thesis.
- The third meeting is recommended during the seventh semester of study, unless required earlier, and includes the progress of the work and the final goals of the disseration thesis.
- In addition to the three prescribed TAC meetings, additional TAC meeting may be convened by the supervisor, student, program guarantor or his/her designee any time during the course of study.
- After the standard period of study (i.e., after eight semesters) or upon recommendation of the departmental board, the TAC must be expanded to include an additional external member and convened periodically on an annual basis or as needed.
TAC process
If necessary - two weeks prior the meeting, the PhD student or supervisor will send a non-public part of the documents to the PhD coordinator. The non-public part is not compulsory, but serves to better inform the TAC and the program guarantor about possible problems concerning the course of study. This section is completed separately by the PhD student and the supervisor and is used to discuss individual perspectives separately during the meeting.
One week prior to each meeting, the doctoral student will send all TAC members a written document - e.g. a draft PowerPoint presentation. Student may also include a summary of progress or a working version of the dissertation thesis, depending on the current state of the project.
Portions of the meeting without the PhD student or supervisor present are confidential and allow for open discussion of potential problems in the collaboration. In the event of a conflict of interest, ethical issues, or feelings of unequal status, the PhD student or any TAC member may request that the PhD coordinator attend the meeting.
TAC meeting structure:
- Presentation by the PhD student (about 20 minutes) followed by a discussion with all TAC members.
- Discussion between the PhD student and TAC members without the presence of the supervisor.
- Internal discussion among TAC members without the doctoral student present.
- Final summary and recommendations by the TAC Chair.
TAC cancellation and replacement of members
- The TAC can be dissolved by a decision of the PhD student or the Departmental board. A new TAC must be formed ideally within one month. Transferring TACs should be the ultimate solution and should not be done more than once during the entire study.
- Individual members can be replaced if necessary. The change must be approved by the discipline council.
TAC documentation
TAC meeting include:
- Official documents, approved by all TAC members, the student and the supervisor.
- If necessary, a non-public section to be completed separately by the student and supervisor. The non-public part can be completed and sent to the PhD coordinator at least two weeks before the TAC meeting. The PhD coordinator will inform the relevant members of the TAC or the program guarantor or his/her designee.
Mandatory documents for individual TAC meetings are available for download:
- Minutes of the 1st regular TAC
- Minutes of the 2nd regular TAC
- Minutes of the 3rd regular TAC
- Minutes of the Extraordinary TAC
- Mandatory non-public part of the TAC report - student
- Mandatory non-public part of the TAC report – supervisor
Semester Organization
Link to the Semester Schedule https://is.muni.cz/predmety/obdobi?lang=en