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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 – please get in touch if you are enthusiastic about genomic regulation and searching for an exciting PhD or postdoc position!


Our team

PI

Kinga Kamieniarz-Gdula, PhD, DSc

Group leader

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 and NCN SONATA BIS grants.
In her spare time Kinga loves hiking in the local forests with her family.

Agata Stępień, PhD, eng.
Postdoc

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.

Iza Lewandowska
Lab manager

Keeps the lab running!
More info soon.


Selected publications

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.


Collaborations

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


Recent Tweets


YouTube: popular science

Science Polish Perspectives Conference – Kinga’s popular science talk on YouTube

Funding

Find us

Lab location
Morasko Campus, AMU, Poznań

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
Old town in Poznań

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.

Wikipedia General info Wielkopolska National Park

Contact
Center for Advanced Technology, our home

Address:

Center for Advanced Technology
Uniwersytetu Poznańskiego 10
61-614 Poznań, POLAND

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Email: kinga.kamieniarz-gdula [at] amu.edu.pl