mgr Małgorzata Chwalińska

Scientific interests

The use of second and third generation sequencing techniques in protists diversity research
Interactions of ciliates and their endosymbionts
Bioinformatics

Photosymbiosis in freshwater ciliates: elucidating its diversity, functioning and evolution with single-cell sequencing, Preludium BIS Grant, NCN. Principle investigator: dr hab. Anna Karnkowska
Establishing the protocol for high-throughput single-cell transcriptomics of microbial eukaryotes, New Ideas, Excellence Initiative Research University. Principle investigator: dr hab. Anna Karnkowska
Monitoring diversity of microbial dark matter in expanding anoxic zones, Charles University 4EU+ minigrant. Principle investigator: dr Tomas Panek (Charles University)

Laboratory of Genomics and Diversity of Prostists, Institute of Parasitology, Biology Center Czech Academy of Science (supervisor dr Martina Kolísko), České Budějovice, Czechia (July 2021 – August 2021)

Oral presentations

Chwalińska M., Méndez-Sánchez D., Tymoshenko D., Archibald J., Karnkowska A. Freshwater photosymbiotic ciliates – complex systems reconstructed with single-cell genomics. Protistology Open 2026. Prague, Czech Republic; 2026
Chwalińska M., Karlicki M., Smacchia V., Karnkowska A. The usage of long, nanopore, high-quality operational taxonomic units (OTUs) to improve the taxonomic annotation of freshwater ciliates. Meeting of the EMBO Young Investigator Network on ecology and evolutionary biology of microbes. Chęciny, Poland; 2023
Chwalińska M., Karlicki M., Smacchia V., Karnkowska A. Expanding protist reference sequences databases: a bioinformatic pipeline for obtaining high-quality OTUs from Oxford Nanopore sequencing. ISEP Virtual Meeting. Online; 2023.
Chwalińska M., Sałek M., Smacchia V., Hałakuc P., Maciszewski K., Karlicki M., Karnkowska A. Freshwater protists diversity elucidated with the short Illumina vs long MinION amplicons of 18S rRNA gene. 51st Jírovec’s Protozoological Days. Hotel Svratka, Czech Republic; 2022.

Posters

Chwalińska M., Tymoshenko D., Archibald J., Karnkowska A. A single-cell genomic workflow for characterizing unculturable and diverse ciliate–green alga photosymbioses. EMBO | EMBL Symposium: The cellular mechanics of symbiosis: sensing friend from foe. Heidelberg, Germany; 2026.
Chwalińska M., Karnkowska A. Uncover the nature of ciliate-green algae symbiosis using single-cell genomics. EMBO Early Career Lecture Course “Evolutionary and Comparative Genomics”. Napflion, Greece; 2024.
Chwalińska M., Karnkowska A. Photosymbiosis in freshwater ciliates: elucidating its diversity, functioning and evolution with single-cell sequencing. de.NBI Spring School 2024 – Bioinformatics for Microbial Omics. Bielefeld, Germany; 2024.
Chwalińska M., Karlicki M., Karnkowska A. Freshwater protist diversity analysis using long nanopore 18S rDNA amplicons reveals hidden diversity of ‘Excavates’. ECOP-ISOP joint meeting “The Century of Protists”. Vienna, Austria; 2023.
Chwalińska M., Karlicki M., Karnkowska A. 18S rDNA amplicon-based analysis of the diversity of microbial eukaryotes communities in the salinity gradient of Świna river estuary, 9th Intercollegiate Biotechnology Symposium “Symbioza”. Online, 2021.