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Technická 5
166 28 Prague 6 – Dejvice
IČO: 60461373 / VAT: CZ60461373

Czech Post certified digital mail code: sp4j9ch

Copyright: UCT Prague 2017
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department

As the Department name indicates, the Department of Biotechnology is engaged in education, science, and consultancy activities in biotechnologies from the chemical, technical, and engineering points of view. The Department's core activities are in brewing, biotechnologies for environmental protection, alternative fuel production, issues of biofilms, and the production of biodetergents and enzymes.

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Our Department offers higher education in fields of traditional as well as modern biotechnologies, e.g. chemical and pharmaceutical industries and environmental protection, and bioengineering. The Department is accredited to provide three-year Bachelor programmes, two-year Master programmes, and Doctoral programmes.

studies

Interested students can participate in scientific and research work at the Department from the outset of their studies.

Given a wide range of contacts in Europe and worldwide, it is possible to apply for study or research fellowships.

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research

Research focuses on biotechnological processes in their entireties—including the behavior of biological agents; the study of unit operations which are involved in modern biotechnology, including downstream processing; aspects of bioengineering and the modeling and simulation of bioprocesses; the application of biotechnological processes in the food, pharmaceutical, biotechnology and chemical industries; and environmental protection.

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 partners

Collaboration with domestic and international industrial and research partners on a wide range of joint projects involving basic and applied research, scaling of technologies and reactors, solution of technological problems by form of grants or cooperation contracts is an essential part of our scientific and research work. An integral part of this cooperation is the involvement of students of all learning levels in such projects to improve their knowledge and skills.

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DATA


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    [nazev] => Laboratory of Molecular Biology
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Lab team (originál)

The substantial part of our scientific research is devoted to the study of viruses. We investigate retroviruses, i.e. viruses that can reversely transcribe their genetic information from RNA to DNA, and we are focused mainly on one important retroviral member: HIV, a causative agent of AIDS. We are also interested in flaviviruses, especially their representatives such as Dengue virus, tick-borne encephalitis virus, and Zika virus. We study a certain stage in the replication cycle of these viruses, during which hundreds to thousands of copies of viral structural proteins and viral genomic information gather at some specific place within the infected cell, and based on their mutual interactions the assembly of new viral particle is initiated. In order to inhibit these steps and prevent thus the viral infection, our goal is to understand the structural-functional mechanisms of these protein-protein and protein-RNA interactions, which are critical for the formation of the new viral particle.

To fulfill our research, we use the equipment available at our department for DNA/RNA analysis, Protein analysis and Tissue culture.

GIF_500x500 (originál)

box Research (originál)box Teaching (originál)box significant results (originál)box students involvement (originál)LAB OFF time (originál)

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2019

Ivana Křížová placed sixth in the second round of the University Fencing League.

sc_PB167661v (originál)

2018

Our fresh graduate students

Naše letošní slečny inženýrky (originál)

Spring welcome party under sakura trees

Vítání jara pod sakurama (originál)

Inevitable cleaning

Nezbytný úklid (originál)

Lukáš Pekárek won the Czech national final of FameLab!

Lukáš Pekárek- zvítězil v celonárodním kole FameLab (originál)

Lukáš Pekárek- zvítězil v celonárodním kole FameLab2 (originál)

Appbiotics

Appbiotics3 (originál)A team of Lukáš Pekárek and Filip Kaufman created a new application “Appbiotics” for the Android mobile platform, which is used to fight the antibiotic resistance. Their effort was awarded by the second place in the competition Angelini University Award 2017/2018. https://www.appbiotics.cz

Appbiotics1 (originál)

Appbiotics2 (originál)

An exceptionally good farewell party for Lorenzo

Vyvedená rozlučka s Lorenzem1 (originál)

Vyvedená rozlučka s Lorenzem2 (originál)

Our team Viruses busters fought bravely with a very tricky “Run competition” around the UCT buildings

2018- Náš tým Krotitelé virů (originál)

2017

Our team in 2017

2017 (originál)

The sweetest award

to nejsladší oceněn (originál)

Our team Viruses busters first in the action

Náš tým Krotitelé virů poprvé v akc (originál)

Nitrogen cooled ice cream…………… and what else?

není nad dusíkem (originál)

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Retroviruses (originál)Box Flaviviruses (originál)

Box interaction of viral and cellular proteins (originál)Box study of selected human proteins (originál) ◳ coronaviruses_box (jpg) → (originál)

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Since 2021, we have also focused on the study of possible ways of inhibiting the replication of SARS-CoV-2 viral RNA. Since SARS-CoV-2 encodes proteins that are involved in the repair mechanisms of mutations occuring during RNA replication, the use of nucleoside analogs as antivirals for the treatment of COVID-19 is highly restricted. Therefore, we focus on characterizing the potential allosteric inhibition of RNA-dependent RNA polymerase (RdRp) and screening the binding activity of small compounds that exhibit an inhibitory effect. Furthermore, we deal with the in vitro analysis of naturally occurring mutations in RdRp regions, the occurrence of which is related to different SARS-CoV-2 variants  reported in the last three years for RdRp cofactors (nsp7, nsp8, and nsp12). Our other target is the exoribonuclease complex responsible for the repair activity of SARS-CoV-2 RNA replication. Inhibition of the activity of this complex, consisting of the exoribonuclease domain and its cofactor, appears as a promising approach to increase the efficacy of RdRp active site inhibitors.

 ◳ Koronaviry (jpg) → (originál)

Source: Glaunsinger Lab: Jessica M Tucker, Britt A Glaunsinger et al (Content Experts)

 ◳ Koronaviry_graf (jpg) → (originál)

Grant supports: GAČR 2022-2024

Collaboration: Department of Biochemistry and Microbiology UCT Prague, IOCB CAS

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In addition to retroviruses, we also study flaviviruses, especially Dengue virus, tick-borne encephalitis virus, and Zika virus. We are trying to investigate how flaviviral proteins recognize their genomic RNA and select it among many other nucleic acid molecules in the cell. We characterize structural motifs on the genomic RNA and analyze their affinity to flaviviral capsid protein. We also participate in the NMR structural studies of the capsid protein of both Dengue virus and tick-borne encephalitis virus. Our ultimate goal is to develop an in vitro method for testing of inhibitors of the assembly of viral particles and seek for inhibitors that would inhibit this step of flaviviral replication cycle.

 flaviviry1 (originál)

 Flaviviry2_ (originál)

 Flaviviry3 (originál)

Grant support: GAČR 2018-2020

Collaboration: Biology Centre CAS, University of South Bohemia in České Budejovice, IOCB CAS, BIOCEV

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We also study selected human proteins, especially WT1, AKIP1, DHX15, and NMDAR. For their production in bacterial, insect or tissue cells and subsequent isolation and purification, we engineer a broad spectrum of expression vectors. Using directed or alanine-scanning mutagenesis we identify the important amino acid residues or functional domains for their cellular functioning. The biochemical properties of purified proteins are tested using variety of biochemical or structural approaches.

Strukturně-funkční studie vybraných lidských proteinů1 (originál) 

Strukturně-funkční studie vybraných lidských proteinů2 (originál)

Strukturně-funkční studie vybraných lidských proteinů3 (originál)

Strukturně-funkční studie vybraných lidských proteinů4 (originál)

Grant support: TAČR 2019-2020

Collaborations:  Institute of Physiology CAS, Motol University Hospital

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Viruses, as non-cellular organisms, build up only from their genetic information and protein coat, need for their successful replication a broad variety of cellular proteins. By combination of immunochemical and virological techniques, we are currently studying two cellular proteins that are critical to the replication cycle of Mason-Pfizer monkey virus (M-PMV) and HIV-1.

Interakce virových a buněčných proteinů1 (originál) 

Interakce virových a buněčných proteinů2 (originál)

Grant supports: GAČR 2017-2019, MŠMT 2018-2021

Collaboration: Department of Biochemistry and Microbiology UCT Prague, IOCB CAS

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We are interested in the stage of the HIV-1 virus replication cycle, where the viral particles are assembled from thousands of polyproteins and two molecules of genomic RNA. On the other hand, we also study the opposite process during which the HIV particle undergoes the disassembly or uncoating to release its genomic information. We are interested not only in the structural-functional aspects of these processes, but we also seek for compounds that would inhibit these steps. In addition to human retroviruses, we also study simian virus M-PMV and murine leukemia virus MLV

Retroviry1 (originál) 

Retroviry2 (originál)

Grant supports: GAČR 2017-2019, MŠMT: 2018-2021

Collaboration: UCT Prague: Department of Biochemistry and Microbiology, Central laboratories, Department of Chemistry of Natural Compounds, Department of Analytical Chemistry, IOCB CAS, University of Texas in El Paso USA; University of Cambridge UK

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Our significant results and achievements

Ing. Alžběta Dostálková, Ph.D. has won the Doctorandus Award for Natural Sciences of Veolia in the most prestigious Czech award Czech Head 2022 for the study of interactions leading to the folding of retroviral particles. 

 ◳ česká hlava Alžběta (jpg) → (originál)

Ing. Filip Kaufman placed second in the conference competition International Graduate Symposium on Industrial Biotechnology (Jiangnan University, Wuxi, China) with poster: "Combined approach to identification of novel inhibitors of HIV-1 capsid protein".

FK1 (originál)

FK2 (originál)

Michaela Rumlová, PhD associate professor: Grant agency of Czech Republic Award in 2017

(video in Czech)

play

Lukáš Pekárek: Ministry of Education, Youth and Sport Award in 2018

Lukáš Pekárek- Cena Ministra školství a tělesné výchovy ČR 2018 (originál)

Our significant papers:

Bharat,T. A.M.; Davey,N. E.; Ulbrich,P.; Riches,J. D.; de Marco,A; Rumlova,M.; Sachse,C.; Ruml,T.; Briggs,J. A.G. (2012): Structure of the immature retroviral capsid at 8 A resolution by cryo-electron microscopy. Nature, 487(7407):385-9

Schur F., Hagen W., Rumlova M., Ruml T., Müller B., Kraeusslich H.-G, Briggs J.,.: The structure of the immature HIV-1 capsid in intact virus particles at 8.8 Å resolution. Nature (2015), 517, 505-508

Hadravová R., Rumlová M., Ruml T.: FAITH – Fast Assembly Inhibitor Test for HIV. Virology (2015) 486, 78-87

Rumlová M. & Ruml T.: In vitro methods for testing antiviral drugs. Biotechnology Advances. 2018, 36, 3, 557-576.

Dostalkova, A.; Kaufman, F.; Krizova, I.; Kultova, A.; Strohalmova, K.; Hadravova, R.; Ruml, T.; Rumlova, M.: Mutations in the Basic Region of the Mason-Pfizer Monkey Virus Nucleocapsid Protein Affect Reverse Transcription, Genomic RNA Packaging, and the Virus Assembly Site. J.Virol, 2018, 92, 10

Qu K., Glass Bärbel., Doležal M., Schur F., Murciano B, Rein A., Rumlová M., Ruml T., Kräusslich H-G., Briggs JAG. Structure and architecture of immature and mature murine leukemia virus capsids: PNAS 2018, 115, 50, E11751-E11760

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What can we teach you:

  • Basic techniques of molecular biology: DNA, RNA isolation, cloning, mutagenesis, expression of recombinant proteins in bacterial or tissue cells and their identification, isolation and purification, methods for monitoring and quantification of protein-protein, protein – DNA and protein – RNA interactions, basic virology techniques: preparation of proviral vectors, quantification of viral stock solutions
  • determination and quantification of virus production in tissue cells by immunochemical methods: ELISA and western blot, determination of virus infectivity by flow cytometry, basic techniques of tissue culture cell cultivation, cell-based methods: viability, the progression of the life cycle, apoptosis, necrosis, oxidative stress….

Zapojení studentů 1 (originál)

Zapojení studentů 2 (originál)

Zapojení studentů 3 (originál)

Zapojení studentů 4 (originál)

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Winter semester: Molecular biology, syllabus here.

syllabus Ang (originál)

Cultivation techniques, laboratory methods:

  • Techniques of molecular biology and their application in  biotechnology
  • Expression, isolation and purification of recombinant proteins
  • Determination of cell cycle using flow cytometry
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UCT Prague
Technická 5
166 28 Prague 6 – Dejvice
IČO: 60461373 / VAT: CZ60461373

Czech Post certified digital mail code: sp4j9ch

Copyright: UCT Prague 2017
Information provided by the Department of International Relations and the Department of R&D. Technical support by the Computing Centre.
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