Department of Functional Transcriptomics

Dr. hab. Kamilla Grzywacz, prof. IBCH PAS

Head of Department

kamilla.grzywacz@ibch.poznan.pl
Phone: 61 8291866

Research activity

Research area

The research profile of the Functional Transcriptomics Team includes the identification and characterization of molecular mechanisms of RNA-based gene expression regulation in model pro- and eukaryotic organisms, as a response to environmental changes.

Our research interest includes the following topics:

identification, characterization and determination of the regulatory potential of small ribosome-associated noncoding RNAs (rancRNA) in Saccharomyces cerevisiae under various environmental conditions, with particular emphasis on heterogeneity of ribosomes,
identification of riboswitches which regulate transcription and translation in model bacterium Bacillus subtilis,
comprehensive characterization of changes in the transcriptional, translational and regulatory activity induced in response to antibiotic stress and culture in infectious conditions in the drug-resistant strain Staphylococcus aureus, with special emphasis on the therapeutic potential of regulatory RNAs.

Słowa kluczowe

regulatorowe RNA,
niekodujące RNA,
krótkie RNA oddziałujące z rybosomem (rancRNA),
ryboprzełączniki.

Research Projects

Changes in the ribosomal protein composition and in the ribosome-associated small noncoding RNAs in Saccharomyces cerevisiae as a response to environmental stress NCN – Opus 14
Designing a new method for direct identification and absolute quantification of premature transcription termination events, following the example of bacterial riboswitches NCN – Preludium 12
RNA regulatory networks as novel antimicrobial targets in multidrugs resistant bacteria (cooperation with Department of Computational Biology, Biology Faculty UAM in Poznań). NCN – Opus 13

Selected publications

Tyczewska A, Rzepczak A, Sobańska D, Grzywacz K. The emerging roles of tRNAs and tRNA-derived fragments during aging: lessons from studies on model organisms. Ageing Res Rev. 2023, 24:101863. doi: 10.1016/j.arr.2023.101863.
Tyczewska A, Grzywacz K. tRNA-derived fragments as new players in regulatory processes in yeast. Yeast. 2022. doi: 10.1002/yea.3829.
Bąkowski P, Grzywacz K, Prusińska A, Ciemniewska-Gorzela K, Gille J, Piontek T. Autologous Matrix-Induced Chondrogenesis (AMIC) for Focal Chondral Lesions of the Knee: A 2-Year Follow-Up of Clinical, Proprioceptive, and Isokinetic Evaluation. J Funct Biomater. 2022, 13(4):277. doi: 10.3390/jfb13040277.
Kaszyński J, Bąkowski P, Kiedrowski B, Stołowski Ł, Wasilewska-Burczyk A, Grzywacz K, Piontek T. Intra-Articular Injections of Autologous Adipose Tissue or Platelet-Rich Plasma Comparably Improve Clinical and Functional Outcomes in Patients with Knee Osteoarthritis. Biomedicines. 2022, 10(3):684. doi: 10.3390/biomedicines10030684.
Machtel P, Wasilewska-Burczyk A, Zacharjasz J, Grzywacz K. PTT-quant - a new method for direct identification and absolute quantification of premature transcription termination events, following the example of bacterial riboswitches. Appl Microbiol Biotechnol. 2022, 106(4):1557-1570. doi: 10.1007/s00253-022-11809-1
Chełkowska-Pauszek A, Kosiński J, Marciniak K, Wysocka M, Bąkowska-Żywicka K, Żywicki M. The role of RNA secondary structure in regulation of gene expression in bacteria. Int J Mol Sci. 2021, Jul 22;22(15):7845. doi: 10.3390/ijms22157845.
Bąkowski P, Kaszyński J, Baka C, Kaczmarek T, Ciemniewska-Gorzela K, Bąkowska-Żywicka K, Piontek T. Patients with stage II of the knee osteoarthritis most likely benefit from the intra-articular injections of autologous adipose tissue-from 2 years of follow-up studies. Arch Orthop Trauma Surg. 2021 Jun 11. doi: 10.1007/s00402-021-03979-w
Zacharjasz J, Mleczko AM, Bąkowski P, Piontek T, Bąkowska-Żywicka K. Small Noncoding RNAs in Knee Osteoarthritis: The Role of MicroRNAs and tRNA-Derived Fragments. Int J Mol Sci. 2021 May 27;22(11):5711. doi: 10.3390/ijms22115711
Bąkowski P, Kaszyński J, Wałecka J, Ciemniewska-Gorzela K, Bąkowska-Żywicka K, Piontek T. Autologous adipose tissue injection versus platelet-rich plasma (PRP) injection in the treatment of knee osteoarthritis: a randomized, controlled study - study protocol. BMC Musculoskelet Disord. 2020 May 20;21(1):314. doi: 10.1186/s12891-020-03345-8
Mleczko AM, Machtel P, Walkowiak M, Wasilewska A, Pietras PJ, Bąkowska-Żywicka K. Levels of sdRNAs in cytoplasm and their association with ribosomes are dependent upon stress conditions but independent from snoRNA expression. Sci Rep. 2019 Dec 5;9(1):18397. doi: 10.1038/s41598-019-54924-2.
Mleczko AM, Celichowski P, Bąkowska-Żywicka K. Transfer RNA-derived fragments target regulate ribosome-associated aminoacyl-transfer RNA synthetases. Biochim Biophys Acta Gene Regul Mech. 2018 Jun 6. pii: S1874-9399(17)30380-2. doi: 10.1016/j.bbagrm.2018.06.001
Bąkowska-Żywicka K, Mleczko AM, Kasprzyk M, Machtel P, Żywicki M, Twardowski T. The widespread occurrence of tRNA-derived fragments in Saccharomyces cerevisiae. FEBS Open Bio. 2016 Oct 21;6(12):1186-1200. doi: 10.1002/2211-5463.12127
Mleczko AM, Bąkowska-Żywicka K. When small RNAs become smaller: emerging functions of snoRNAs and their derivatives. Acta Biochim Pol. 2016;63(4):601-607.
Bąkowska-Żywicka K, Kasprzyk M, Twardowski T. tRNA-derived short RNAs bind to Saccharomyces cerevisiae ribosomes in a stress-dependent manner and inhibit protein synthesis in vitro. FEMS Yeast Res. 2016 Sep;16(6). pii: fow077
Machtel P, Bąkowska-Żywicka K, Żywicki M. Emerging applications of riboswitches – from antibacterial targets to molecular tools. J Appl Genet. 2016 Nov;57(4):531-541

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Department of Functional Transcriptomics

PhD students:

Research activity

Research area

Słowa kluczowe

Research Projects

Selected publications

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Department of Functional Transcriptomics

PhD students:

Research activity

Research area

Słowa kluczowe

rys. 1

Rys. 2

Rys. 3

Research Projects

Selected publications

Adres

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