prof. RNDr. Ivo Sedláček, CSc.
Consultant
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Microbiology
Doctoral degree in full-time or combined form. The language of instruction is Czech.
The programme can be studied only as a single subject.
What will you learn?
The programme’s goal is to develop students into top specialists in microbiology of prokaryotic and eucaryotic cells developed within the Department of Experimental Biology at Faculty of Science, MU. Graduates should be ready to take on further scientific careers in academic institutions, but also for possible employment in health care or veterinary facilities, in food, chemical or pharmaceutical industry and in biotechnology companies with own research facilities, and as specialist lecturers.
The program actively supports its graduates in pursuing their scientific careers even further by encouraging long-term stays in post-graduate positions abroad.
The individual laboratories of the Microbiology programme cover the following research areas in which doctoral students are also trained:
Taxonomy and diversity of microorganisms
- Antibiotic rezistance of prokaryotes
- Food-safety and fast proof of pathogens
- Emerging viral infections
- Polyphasic classification of prokaryotes
- Synthetic biology
- Methanogenic archaea
The link between programmes are shared technologies, joint workshops, specialized seminars and conferences. Students are motivated by the high professional quality of research in a competitive, yet collaboration-friendly environment. Performance of individual students is recognized not only financially, but also, for example, by participating at prestigious conferences.
“Life on the Earth is not possible without microbes.”
Practical training
The student is responsible for at least one stay abroad in microbiology laboratory in minimal duration of one month during the study programme.
Further information
https://www.sci.muni.cz/do/sci/web/vzd/studijni_plany/Mikrobiologie.pdf
The Office for Doctoral Studies, Quality, Academic Affairs and Internationalization takes care of doctoral students SCI MU
https://www.sci.muni.cz/en/students/phd
On the department's website, you can find the following information:
- Forms (application forms for state examinations and defences, various applications, etc. )
- Legislation (links to: MU Study and Examination Regulations, Scholarship Regulations of MU, Terms of Scholarship Programmes of the Faculty of Science)
- Dissertations (Guidelines for dissertations, templates)
- Manuals (guidelines for Individual Study Plans, study and research obligations in DSP, etc.)
- Doctoral study programmes (recommended study plans, examination committees, overview of accredited programmes)
- Deadlines for the doctoral state examinations and defences
- Enrolment (information needed for the enrolment to the next semester)
- Graduation
but also office hours, contacts, news, information on skills development and scholarships.
Detailed information on stays abroad can be found on this website:
https://www.sci.muni.cz/en/students/phd/develop-your-skills/stay-abroad
Career opportunities
Graduates of a doctoral degree program Microbiology are qualified to work especially in research institutes and departmental workplaces or as university lecturers. The level of obtained knowledges and experiences gives adequate guaranty for high adaptability of graduates in various fields of microbiology. They are authorized to conduct independent scientific and research activities in basic and applied research. In the most general sense, they are considered qualified for any kind of scientific work in microbiology, that is dealing with conceptual issues, participating in and managing scientific research activities, and teaching.
Admission requirements
Data from the previous admission procedure (2 Jan – 15 Dec 2024)
Student must show very good knowledge of general microbiology, molecular biology, and biochemistry related to the theme of the PhD thesis. Student submits a brief project proposal of PhD thesis in which specifies the topic, designates possible problem and proposes the experimental procedure. Good knowledge of the English language is essential, which will allow the student to not only read scientific literature, but also to talk and write about their scientific research.
The entrance examination is organized as an oral discussion when the committee evaluates and assigns points for the applicant’s expertise and abilities for scientific work (0-100 points) and skills in the English language (0-90 points).
More information about admission process for international applicants in general can be found in the section Admission Process.
Date of the entrance exam
The applicants will receive information about the entrance exam by e-mail usually at least 10 days before the exam.
Please, always check your e-mails, including spam folders.
Conditions of admission
Minimum requirements for successful examination are 85 points for scientific part and 60 points for language part of the entrance examination.
Successful applicants are informed of their acceptance by e-mail and subsequently receive an invitation to the enrolment.
Programme capacity
The capacity of a given programme is not fixed; students are admitted based on a decision by the Doctoral Board after assessing their aptitude for study and motivation.
Study options
Single-subject studies
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Full-time studies in czech
What will you learn? -
Combined studies in czech
What will you learn?
Dissertation topics
Single-subject studies
Neutralizační protilátky a nanoprotilátky proti viru klíšťové encefalitidy
Supervisor: prof. RNDr. Daniel Růžek, Ph.D.
Klíšťová encefalitida představuje závažné, potenciálně smrtelné virové onemocnění člověka. V současné době neexistují zádné možnosti pro postexpoziční profylaxi nebo léčbu tohoto onemocnění. Předkládaná práce se zaměří na vývoj nových monoklonálních protilátek a nanoprotilátek, které by účinně neutralizovaly virus klíšťové encefalitidy. Kromě testování protilátek se budeme věnovat studiu mechanismu neutralizace viru a mechanismům, které jsou zapojené do procesu vzniku rezistence viru vůči neutralizaci protilátkami.
Supervisor
Anoxygenic photosynthesis in photobioreactor: hydrogen sulfide detoxification with assimilation of carbon dioxide
Supervisor: doc. Ivan Kushkevych, Ph.D.
Cílem této disertační práce je prozkoumat a optimalizovat procesy anoxygenní fotosyntézy v prostředí fotobioreaktoru za účelem detoxikace sirovodíku a asimilace oxidu uhličitého. Práce se zaměří na zelené sirné bakterie (GSB) jako modelové organismy, které používají sirovodík jako hlavní elektronový donor a oxidu uhličitého jako zdroj uhlíku, přičemž vytváří elementární síru a organické sloučeniny. Důraz bude kladen na bioenergetiku a optimalizaci podmínek kultivace v bioreaktorech, včetně světelných podmínek, teploty a složení média. Součástí bude rovněž hodnocení potenciálu těchto mikroorganismů pro environmentální aplikace, jako je bioremediace znečištěných vod nebo výroba bioenergie. Práce také zohlední možné průmyslové aplikace v rámci konceptu biorefinerií, které přispívají k udržitelnému využití biogenního oxidu uhličitého a odpadních vod. Výsledky mohou vést k významnému snížení emisí oxidu uhličitého a k rozvoji inovativních technologií pro udržitelnou produkci.
Supervisor
Genomic analysis of pathogenic strains of enterobacteria resistant to antimicrobials using new generation sequencing approach and bioinformatics
Supervisor: doc. RNDr. Monika Dolejská, Ph.D.
Rostoucí incidence bakterií rezistentních k antimikrobiálním látkám a jejich celosvětové šíření představují jedny z předních hrozeb současné medicíny a způsobují závažné komplikace v terapii infekčních onemocnění. Nárůst rezistence je sledován také u patogenních kmenů enterobakterií, které vyvolávají různé infekce člověka i zvířat. Genomika a celogenomové sekvenování (WGS) výrazně posouvají současné poznání v mikrobiologii a staly se důležitými přístupy pro pochopení rysů a vlastností bakterií rezistentních k antibiotikům. Současné WGS technologie však také přinášejí nové výzvy v analýze sekvenačních dat z důvodu obrovské komplexnosti, plasticity a diverzity bakteriálních genomů. Cílem této dizertační práce je práce s daty ze sekvenování nové generace (Illumina, Oxford Nanopore), která zahrnuje především návrh a použití in silico metod pro bioinformatické zpracování WGS dat.
Increasing incidence of bacteria resistant to antimicrobial agents and their global spread is one of the most important threats to current medicine, causing serious difficulties in the therapy of infectious diseases. Growing resistance has been documented also in pathogenic strains of enterobacteria that cause various infections in humans and animals. Genomics and whole genome sequencing (WGS) have the capacity to greatly enhance our knowledge in microbiology and they have become an important approach in our understanding of traits and specific features of antibiotic resistant bacteria. However, current WGS technologies also pose new challenges for sequence analysis due to the enormous complexity, plasticity and diversity of bacterial genomes. The aim of the PhD study will be to work with data from NGS systems (Illumina, Oxford Nanopore), to design and apply in silico methods for bioinformatics processing of WGS data.
Increasing incidence of bacteria resistant to antimicrobial agents and their global spread is one of the most important threats to current medicine, causing serious difficulties in the therapy of infectious diseases. Growing resistance has been documented also in pathogenic strains of enterobacteria that cause various infections in humans and animals. Genomics and whole genome sequencing (WGS) have the capacity to greatly enhance our knowledge in microbiology and they have become an important approach in our understanding of traits and specific features of antibiotic resistant bacteria. However, current WGS technologies also pose new challenges for sequence analysis due to the enormous complexity, plasticity and diversity of bacterial genomes. The aim of the PhD study will be to work with data from NGS systems (Illumina, Oxford Nanopore), to design and apply in silico methods for bioinformatics processing of WGS data.
Supervisor
Molecular host-virus interactions during tick-borne encephalitis
Supervisor: prof. RNDr. Daniel Růžek, Ph.D.
Cílem projektu je studovat interakce mezi virem klíšťové encefalitidy a hostitelem na molekulární a buněčné úrovni. Zvláštní zřetel bude kladen na identifikace molekul zapojených v procesu internalizace viru hostitelskou buňkou, aktivace drah imunitní odpovědi na infekci a hledání genetických markerů, které determinují tropismus viru k různým typům buněk a tkání a závažnost průběhu infekce.
Supervisor
Plasmids in the dissemination of antibiotic resistance and their interactions with the bacterial host
Supervisor: doc. RNDr. Monika Dolejská, Ph.D.
Celosvětové rozšíření významných mechanismů rezistence prostřednictvím úspěšných genetických elementů je rostoucím problémem současné medicíny, s obrovským dopadem na zdraví člověka, zvířat a prostředí. Pochopení přenosu a šíření genů rezistence k antibiotikům v bakteriálních populacích je nezbytným předpokladem pro úspěšný boj s rapidně narůstající rezistencí k antibiotikům. Projekt je zaměřen na různé aspekty plazmidů spojených s rezistencí ke kriticky významným antibiotickům izolovaných z různých bakterií a širokého prostředí. Za využití sekvenování nové generace (Illumina, Oxford Nanopore Technologies) a bionformatické analýzy sekvenačních dat bude studována struktura, plasticita a evoluce plazmidů stejně jako jejich potenciál se šířit a udržovat v bakteriálních komunitách. Role přídatných mechanismů a faktorů odpovědných za jejich udržování, šíření a zvyšování fitness bakteriálních hostitelů budou zhodnoceny a uvedeny do kontextu rezistence k antibiotikům. Cílem projektu je přinést nové informace o vlastnostech a rysech rezistentních plazmidů stojících za jejich úspěchem.
The worldwide dissemination of emerging resistance mechanisms via successful genetic elements is growing concern in current medicine, with the huge impact on health of humans, animals and the environment. Understanding how antibiotic resistance genes are mobilized and spread in bacteria is a desirable pre-requisite to combat antibiotic resistance. The project will be focused on various aspects of plasmids associated with resistance to critically important antibiotics isolated from various bacteria and wide sources. New-generation sequencing (Illumina, Oxford Nanopore Technologies Structure) and bioinformatics analysis of sequencing data will be used to study the plasticity and evolution of the resistance plasmids as well as their potential to spread and persist in bacterial communities. The role of additional accessory mechanisms and factors in the plasmid maintenance, transfer and fitness of bacterial hosts will be evaluated along with the resistance to antibiotics. The aim is to bring new knowledge on traits and features of resistance plasmids that are behind their success.
The worldwide dissemination of emerging resistance mechanisms via successful genetic elements is growing concern in current medicine, with the huge impact on health of humans, animals and the environment. Understanding how antibiotic resistance genes are mobilized and spread in bacteria is a desirable pre-requisite to combat antibiotic resistance. The project will be focused on various aspects of plasmids associated with resistance to critically important antibiotics isolated from various bacteria and wide sources. New-generation sequencing (Illumina, Oxford Nanopore Technologies Structure) and bioinformatics analysis of sequencing data will be used to study the plasticity and evolution of the resistance plasmids as well as their potential to spread and persist in bacterial communities. The role of additional accessory mechanisms and factors in the plasmid maintenance, transfer and fitness of bacterial hosts will be evaluated along with the resistance to antibiotics. The aim is to bring new knowledge on traits and features of resistance plasmids that are behind their success.
Supervisor
Supervisors
- Mgr. Magdaléna Crhánová, Ph.D.
- doc. RNDr. Monika Dolejská, Ph.D.
- prof. RNDr. Jiří Doškař, CSc.
- doc. Mgr. Pavel Dvořák, Ph.D.
- doc. Ivan Kushkevych, Ph.D.
- prof. RNDr. Roman Pantůček, Ph.D.
- prof. RNDr. Ivo Rudolf, Ph.D.
- prof. RNDr. Daniel Růžek, Ph.D.
- prof. RNDr. Ivo Sedláček, CSc.
- doc. RNDr. Pavel Švec, Ph.D.
- prof. Ing. Tomáš Vítěz, Ph.D.
- doc. Mgr. Monika Vítězová, Ph.D.
Study information
| Provided by | Faculty of Science | |
|---|---|---|
| Type of studies | Doctoral | |
| Mode | full-time | Yes |
| combined | Yes | |
| distance | No | |
| Study options | single-subject studies | Yes |
| single-subject studies with specialization | No | |
| major/minor studies | No | |
| Standard length of studies | 4 years | |
| Language of instruction | Czech | |
| Collaborating institutions |
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| Doctoral board and doctoral committees | ||