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dr hab. Anna Karnkowska

Scientific interests

My research focuses on the diversity, evolution and ecology of eukaryotic microorganisms (Protista). I work on the evolution of the eukaryotic cell, including the topics of the origin, evolution and reduction of organelles of endosymbiotic origins, as well as horizontal gene transfer in Eukaryotes. I also study the diversity and the role of photosynthetic and parasitic eukaryotic microorganisms in water habitats.

Didactics

  • Practical Bioinformatics
  • Biology of eukaryotic microorganisms
  • Evolutionism for Bioinformatics and systems biology
  • Publication strategy
  • Modern biology

Research projects

Internships

  • Institute of Evolutionary Biology (IBE) CSIC-UPF, Barcelona, Spain, September  2022 – March 2023, visiting researcher
  • Roscoff Marine Station, Roscoff, France, September 2021, visiting researcher
  • Botany Department, University of British Columbia, Vancouver, Canada (scientific supervisor: Prof. Patrick Keeling), January 2016 – December 2016, Postdoc
  • Department of Cell Biology, University of Alberta, Canada (scientific supervisor: Prof. Joel B. Dacks), April 2014 – September 2014, scientific internship
  • Parasitology Department, Charles University in Prague, Czech Republic (scientific supervisor: Dr hab. Vladimir Hampl), January 2013 – December 2015, Postdoc.

Prizes and distinctions

  • L’oreal-UNESCO for Women in Science Award (2021)
  • Prof. Pieńkowski Award (2020)
  • The Science and Higher Education Minister’s Stipend for outstanding young scientists (2018)
  • Foundation for Polish Science Stipend START (2013)
  • President of the Council of Ministers Award for PhD thesis (2012)

Selected publications

2022

Karlicki, Michał; Antonowicz, Stanisław; Karnkowska, Anna

Tiara: deep learning-based classification system for eukaryotic sequences Journal Article

In: Bioinformatics, vol. 38, no. 2, pp. 344–350, 2022.

Abstract | Links | BibTeX

Maciszewski, Kacper; Dabbagh, Nadja; Preisfeld, Angelika; Karnkowska, Anna

Maturyoshka: A maturase inside a maturase, and other peculiarities of the novel chloroplast genomes of marine euglenophytes Journal Article

In: Molecular Phylogenetics and Evolution, vol. 170, pp. 107441, 2022, ISSN: 1055-7903.

Abstract | Links | BibTeX

2021

Treitli, Sebastian Cristian; Peña-Diaz, Priscila; Hałakuc, Paweł; Karnkowska, Anna; Hampl, Vladimír

High quality genome assembly of the amitochondriate eukaryote Monocercomonoides exilis Journal Article

In: Microbial Genomics, vol. 7, no. 12, pp. 000745, 2021, ISSN: 2057-5858.

Abstract | Links | BibTeX

Kostygov, Alexei Y; Karnkowska, Anna; Votypka, Jan; Tashyreva, Daria; Maciszewski, Kacper; Yurchenko, Vyacheslav; Lukes, Julius

Euglenozoa : taxonomy, diversity and ecology, symbioses and viruses Journal Article

In: Open Biology, vol. 11, no. 3, pp. 200407-200407, 2021, ISBN: 0000000337.

Abstract | Links | BibTeX

2020

Kayama, Motoki; Maciszewski, Kacper; Yabuki, Akinori; Miyashita, Hideaki; Karnkowska, Anna; Kamikawa, Ryoma

Highly reduced plastid genomes of the non-photosynthetic dictyochophyceans Pteridomonas spp. (Ochrophyta, SAR) are retained for tRNA-Glu-based organellar heme biosynthesis. Journal Article

In: Frontiers in Plant Science, vol. 11, pp. 1859 , 2020.

Links | BibTeX

Lukešová, Soňa; Karlicki, Michał; Hadariová, Lucia Tomečková; Szabová, Jana; Karnkowska, Anna; Hampl, Vladimír

Analyses of environmental sequences and two regions of chloroplast genomes revealed the presence of new clades of photosynthetic euglenids in marine environments Journal Article

In: Environmental Microbiology Reports, vol. 12, no. 1, pp. 78-91, 2020.

Abstract | Links | BibTeX

2019

Maciszewski, Kacper; Karnkowska, Anna

Should I stay or should I go? Retention and loss of components in vestigial endosymbiotic organelles Journal Article

In: Current Opinion in Genetics & Development, vol. 58-59, pp. 33-39, 2019, ISSN: 0959-437X, (Evolutionary genetics).

Abstract | Links | BibTeX

Han, Kwi Young; Maciszewski, Kacper; Graf, Louis; Yang, Ji Hyun; Andersen, Robert A; Karnkowska, Anna; Yoon, Hwan Su

Dictyochophyceae Plastid Genomes Reveal Unusual Variability in Their Organization Journal Article

In: Journal of Phycology, vol. 55, no. 5, pp. 1166-1180, 2019.

Abstract | Links | BibTeX

Karnkowska, Anna; Treitli, Sebastian C; Brzoň, Ondřej; Novák, Lukáš; Vacek, Vojtěch; Soukal, Petr; Barlow, Lael D; Herman, Emily K; Pipaliya, Shweta V; Pánek, Tomáš; Žihala, David; Petrželková, Romana; Butenko, Anzhelika; Eme, Laura; Stairs, Courtney W; Roger, Andrew J; Eliáš, Marek; Dacks, Joel B; Hampl, Vladimír

The Oxymonad Genome Displays Canonical Eukaryotic Complexity in the Absence of a Mitochondrion Journal Article

In: Molecular Biology and Evolution, vol. 36, no. 10, pp. 2292-2312, 2019, ISSN: 0737-4038.

Abstract | Links | BibTeX

2018

Karnkowska, Anna; Bennett, Matthew S; Triemer, Richard E

Dynamic evolution of inverted repeats in Euglenophyta plastid genomes Journal Article

In: Scientific Reports, vol. 8, no. 1, pp. 16071, 2018, ISSN: 2045-2322.

Abstract | Links | BibTeX

Strassert, Jürgen F H; Karnkowska, Anna; Hehenberger, Elisabeth; del Campo, Javier; Kolisko, Martin; Okamoto, Noriko; Burki, Fabien; Janouškovec, Jan; Poirier, Camille; Leonard, Guy; Hallam, Steven J; Richards, Thomas A; Worden, Alexandra Z; Santoro, Alyson E; Keeling, Patrick J

Single cell genomics of uncultured marine alveolates shows paraphyly of basal dinoflagellates Journal Article

In: The ISME Journal, vol. 12, no. 1, pp. 304–308, 2018, ISSN: 1751-7370.

Abstract | Links | BibTeX

2016

Karnkowska, Anna; Hampl, Vladimir

The curious case of vanishing mitochondria Journal Article

In: Microbial Cell, vol. 3, no. 10, pp. 491–494, 2016, ISSN: 23112638.

Abstract | Links | BibTeX

Karnkowska, Anna; Vacek, Vojtěch; Zubáčová, Zuzana; Treitli, Sebastian C; Petrželková, Romana; Eme, Laura; Novák, Lukáš; Žárský, Vojtěch; Barlow, Lael D; Herman, Emily K; Soukal, Petr; Hroudová, Miluše; Doležal, Pavel; Stairs, Courtney W; Roger, Andrew J; Eliáš, Marek; Dacks, Joel B; Vlček, Čestmír; Hampl, Vladimír

A Eukaryote without a Mitochondrial Organelle Journal Article

In: Current Biology, vol. 26, no. 10, pp. 1274-1284, 2016, ISSN: 0960-9822.

Abstract | Links | BibTeX

2015

Karnkowska, Anna; Bennett, Matthew S; Watza, Donovan; Kim, Jong Im; Zakryś, Bożena; Triemer, Richard E

Phylogenetic Relationships and Morphological Character Evolution of Photosynthetic Euglenids (Excavata) Inferred from Taxon-rich Analyses of Five Genes Journal Article

In: Journal of Eukaryotic Microbiology, vol. 62, no. 3, pp. 362-373, 2015.

Abstract | Links | BibTeX