Home page of the Genomic Regulation Lab
Lab manager and Postdoc positions available!
Welcome to the STOP lab
Genomic Regulation – focusing on Gene Ends
Our lab’s aim is to integrate different levels of gene expression regulation – chromatin, transcription and RNA processing – focusing on gene ends.
We want to understand the basic mechanisms of when and how transcription stops (terminates), but also how perturbed termination contributes to disease. Premature termination, called also transcription attenuation, is particularly relevant in the pathological context. Premature termination was known to be an important regulatory mechanism in bacteria and yeast, but overlooked in humans and animals in general. We and others have recently shown that this phenomenon is a very abundant genomic event in metazoa. It has also medical implications, particularly in cancer.
Our main approaches are based on NGS (genomics and nascent transcriptomics), combined with molecular biology, biochemistry and proteomics. The lab’s experimental workhorse are mammalian cell culture models of cancer and neuronal differentiation. We use both experimental and computational approaches.
We are recruiting! Currently we have a lab manager opening: http://ibmib.amu.edu.pl/wp-content/uploads/2020/12/Lab-Manager-Genomic-Regulation-Lab-Dec-2020.pdf Also please get in touch if you are enthusiastic about genomic regulation and searching for an exciting PhD or postdoc position!
Kinga Kamieniarz-Gdula, PhD, DSc
kinga.kamieniarz-gdula [at] amu.edu.pl
Kinga is an experimental and computational biologist. She finished her undergraduate studies at Adam Mickiewicz University in Poznań. She then did her PhD as well as a short postdoc in the field of Chromatin and Epigenetics with Rob Schneider at the Max-Planck-Institute in Freiburg, Germany. After that she moved to the University of Oxford to join Nick Proudfoot’s lab, supported by a Marie Skłodowska-Curie Fellowship. In Oxford, Kinga started studying the links between transcription termination and RNA processing, and became fascinated by gene ends.
After 13 successful years abroad, Kinga recently returned to Poznań to set up her own research group. Her team is generously supported by NAWA Polish Returns, NCN SONATA BIS, and EMBO Installation Grant.
In her spare time Kinga loves hiking in the local forests with her family.
Agata Stępień, PhD, eng.
Agata received her Engineer and MSc degree in biotechnology from the University of Agriculture in Krakow. She then moved to Poznan for her PhD, and worked in the group of Prof. Jarmolowski and Prof. Szweykowska-Kulinska at Adam Mickiewicz University. Her PhD research was focused on the characterization of the crosstalk between the spliceosome and the microprocessor in plants by molecular biology, microscopic and biochemical techniques. After graduating in 2017, Agata got her first Postdoc position in K. Dorota Raczynska’s group to study the role of U7 snRNA in human cells. In 2019, Agata joined STOP lab to investigate transcription termination changes during cancer progression.
Magda graduated from the Poznan University of Medical Sciences with a Master’s degree in Medical Biotechnology. During her undergraduate studies she worked on the role of long non-coding RNA molecules in cancer and their potential utility as biomarkers at the Laboratory of Cancer Genetics (Greater Poland Cancer Center). In October 2020 she started her PhD studies in our team and investigates how the chromatin environment influences transcription termination, and vice versa. In her spare time Magda enjoys popular science writing. As the most green-fingered team member she also takes loving care of the plants on our floor.
Photos: Przemysław Stanula
1) Transcriptional Control by Premature Termination: A Forgotten Mechanism.
Kamieniarz-Gdula K, Proudfoot NJ.
Trends Genet. 2019 https://doi.org/10.1016/j.tig.2019.05.005
2) Selective Roles of Vertebrate PCF11 in Premature and Full-Length Transcript Termination.
Kamieniarz-Gdula K, Gdula MR, Panser K, Nojima T, Monks J, Wiśniewski JR, Riepsaame J, Brockdorff N, Pauli A, Proudfoot NJ.
Mol Cell. 2019 https://doi.org/10.1016/j.molcel.2019.01.027
3) WNK1 kinase and the termination factor PCF11 connect nuclear mRNA export with transcription.
Volanakis A, Kamieniarz-Gdula K [joint-first & co-corresponding author], Schlackow M, Proudfoot NJ.
Genes Dev. 2017 https://doi.org/10.1101/gad.303677.117
4) BRCA1 recruitment to transcriptional pause sites is required for R-loop-driven DNA damage repair.
Hatchi E, Skourti-Stathaki K, Ventz S, Pinello L, Yen A, Kamieniarz-Gdula K, Dimitrov S, Pathania S, McKinney KM, Eaton ML, Kellis M, Hill SJ, Parmigiani G, Proudfoot NJ, Livingston DM.
Mol Cell. 2015 https://doi.org/10.1016/j.molcel.2015.01.011
5) R-loops induce repressive chromatin marks over mammalian gene terminators.
Skourti-Stathaki K, Kamieniarz-Gdula K, Proudfoot NJ.
Nature. 2014 https://doi.org/10.1038/nature13787
6) The genomic landscape of the somatic linker histone subtypes H1.1 to H1.5 in human cells.
Izzo A, Kamieniarz-Gdula K [joint-first author], Ramírez F, Noureen N, Kind J, Manke T, van Steensel B, Schneider R.
Cell Rep. 2013 https://doi.org/10.1016/j.celrep.2013.05.003
7) Regulation of transcription through acetylation of H3K122 on the lateral surface of the histone octamer.
Tropberger P, Pott S, Keller C, Kamieniarz-Gdula K, Caron M, Richter F, Li G, Mittler G, Liu ET, Bühler M, Margueron R, Schneider R.
Cell. 2013 https://doi.org/10.1016/j.cell.2013.01.032
8) A dual role of linker histone H1.4 Lys 34 acetylation in transcriptional activation.
Kamieniarz K, Izzo A, Dundr M, Tropberger P, Ozretic L, Kirfel J, Scheer E, Tropel P, Wisniewski JR, Tora L, Viville S, Buettner R, Schneider R.
Genes Dev. 2012 https://doi.org/10.1101/gad.182014.111
More publications in PubMed.
Prof. Elmar Wahle, MLU, Halle, Germany
Dr Andrea Pauli, IMP, Vienna, Austria
Dr Stephan Hamperl, HMGU, Munich, Germany
Dr Shazia Irshad, University of Oxford, UK
YouTube: popular science
We are affiliated with the Institite of Molecular Biology and Biotechnology (IBMiB), Faculty of Biology, Adam Mickiewicz University (AMU) in Poznań. Our laboratory is located in the building of the Center for Advanced Technology, at the Morasko Campus which hosts all Science Faculties of AMU.
Poznań is the capital of the Wielkopolska (Greater Poland) region. It is a vibrant university city, with an urban area population of ~1 million, located only 3 hours away from Warsaw and Berlin. At the same time, it is a paradise for nature lovers, as it is surrounded by beautiful forests & lakes.
Center for Advanced Technology
Uniwersytetu Poznańskiego 10
61-614 Poznań, POLAND
Email: kinga.kamieniarz-gdula [at] amu.edu.pl