Publications
^{_{Ciliate Genomics and Molecular Biology}}

Seah, B.; Swart, E.: When cleaning facilitates cluttering: genome editing in ciliates. Trends in Genetics 39 (5), pp. 344 - 346 (2023)

Seah, B.; Singh, M.; Emmerich, C.; Singh, A.; Woehle, C.; Huettel, B.; Byerly, A.; Stover, N.; Sugiura, M.; Harumoto, T. et al.; Swart, E.: MITE infestation accommodated by genome editing in the germline genome of the ciliate Blepharisma. Proceedings of the National Academy of Sciences of the United States of America 120 (4), e2213985120 (2023)

Singh, M.; Seah, B.; Emmerich, C.; Singh, A.; Woehle, C.; Huettel, B.; Byerly, A.; Stover, N.; Sugiura, M.; Harumoto, T. et al.; Swart, E.: Origins of genome-editing excisases as illuminated by the somatic genome of the ciliate Blepharisma. Proceedings of the National Academy of Sciences of the United States of America 120 (4), e2213887120 (2023)

Singh, A.; Maurer-Alcalá, X.; Solberg, T.; Haeussermann, L.; Gisler, S.; Ignarski , M.; Swart, E.; Nowacki, M.: Chromatin remodeling is required for sRNA-guided DNA elimination in Paramecium. EMBO Journal 41 (22), e111839 (2022)

Seah, B.; Emmerich, C.; Singh, A.; Swart, E.: Improved methods for bulk cultivation and fixation of Loxodes ciliates for fluorescence microscopy. Protist 173 (5), 125905 (2022)

Seah, B.; Singh, A.; Swart, E.: Karyorelict ciliates use an ambiguous genetic code with context-dependent stop/sense codons. Peer Community Journal 2, e42 (2022)

Rzeszutek, I.; Swart, E.; Pabian-Jewuła, S.; Russo, A.; Nowacki, M.: Early developmental, meiosis-specific proteins - Spo11, Msh4-1, and Msh5 - Affect subsequent genome reorganization in Paramecium tetraurelia. Biochimica et Biophysica Acta: Molecular Cell Research 1869 (6), 119239 (2022)

Seah, B.; Swart, E.: BleTIES: Annotation of natural genome editing in ciliates using long read sequencing. Bioinformatics 37 (21), btab613, pp. 3929 - 3931 (2021)

Mozzicafreddo, M.; Pucciarelli, S.; Swart, E.; Piersanti, A.; Emmerich, C.; Migliorelli, G.; Ballarini, P.; Miceli, C.: The macronuclear genome of the Antarctic psychrophilic marine ciliate Euplotes focardii reveals new insights on molecular cold adaptation. Scientific Reports 11 (1), 18782 (2021)

Sayavedra, L.; Li, T.; Bueno Batista, M.; Seah, B.; Booth, C.; Zhai, Q.; Chen, W.; Narbad, A.: Desulfovibrio diazotrophicus sp. nov., a sulfate-reducing bacterium from the human gut capable of nitrogen fixation. Environmental Microbiology 23 (6), pp. 3164 - 3181 (2021)

Rzeszutek, I.; Singh, A.: Small RNAs, Big Diseases. International Journal of Molecular Sciences 21 (16), 5699 (2020)

Faktorová, D.; Nisbet, R.; Fernández Robledo , J.; Casacuberta, E.; Sudek, L.; Allen, A.; Ares, M.; Balestreri, C.; Barbrook, A.; Beardslee, P. et al.; Bender, S.; Booth, D.; Bouget, Y.-F.; Bowler, C.; Breglia, S.; Brownlee, C.; Burger, G.; Cerutti, H.; Cesaroni, R.; Chiurillo, M.; Clemente, T.; Coles, D.; Collier, J.; Cooney, E.; Coyne, K.; Docampo, R.; Dupont, C.; Edgcomb, V.; Einarsson, E.; Elustondo, P.; Federici, F.; Freire-Beneitez, V.; Freyria, N.; Fukuda, K.; García, P.; Girguis, P.; Gomaa, R.; Gornik, S.; Guo, J.; Hampl, V.; Hanawa, Y.; Haro-Contreras, E.; Hehenberger, E.; Highfield, A.; Hirakawa, Y.; Hopes, A.; Howe, C.; Hu, I.; Ibañez, J.; Irwin, N.; Ishii, Y.; Janowicz, N.; Jones, A.; Kachele, A.; Fujimura-Kamada, K.; Kaur, B.; Kaye, J.; Kazana, A.; Keeling, P.; King, N.; Klobutcher, L.; Lander, N.; Lassadi, I.; Li, Z.; Lin, S.; Lozano, J.-C.; Luan, F.; Maruyama, S.; Matute, T.; Miceli, C.; Minagawa, J.; Moosburner, M.; Najle, S.; Nanjappa, D.; Nimmo, I.; Noble, L.; Novák Vanclová, A.; Nowacki, M.; Nuñez, I.; Pain, A.; Piersanti, A.; Pucciarelli, S.; Pyrih, J.; Rest, J.; Rius, M.; Robertson, D.; Ruaud, A.; Ruiz-Trillo, I.; Sigg, M.; Silver, P.; Slamovits, C.; Smith, G.; Sprecher, B.; Stern, R.; Swart, E.; Tsaousis, A.; Tsypin, L.; Turkewitz, A.; Turnšek, J.; Valach, M.; Vergé, V.; von Dassow, P.; von der Haar, T.; Waller, R.; Wang, L.; Wen, X.; Wheeler, G.; Woods, A.; Zhang, H.; Mock, T.; Worden, A.; Lukeš, J.: Publisher Correction: Genetic tool development in marine protists: emerging model organisms for experimental cell biology. Nature Methods 17 (5), 551 (2020)

Faktorová, D.; Nisbet, R.; Fernández Robledo , J.; Casacuberta, E.; Sudek, L.; Allen, A.; Ares, M.; Balestreri, C.; Barbrook, A.; Beardslee, P. et al.; Bender, S.; Booth, D.; Bouget, Y.-F.; Bowler, C.; Breglia, S.; Brownlee, C.; Burger, G.; Cerutti, H.; Cesaroni, R.; Chiurillo, M.; Clemente, T.; Coles, D.; Collier, J.; Cooney, E.; Coyne, K.; Docampo, R.; Dupont, C.; Edgcomb, V.; Einarsson, E.; Elustondo, P.; Federici, F.; Freire-Beneitez, V.; Freyria, N.; Fukuda, K.; García, P.; Girguis, P.; Gomaa, R.; Gornik, S.; Guo, J.; Hampl, V.; Hanawa, Y.; Haro-Contreras, E.; Hehenberger, E.; Highfield, A.; Hirakawa, Y.; Hopes, A.; Howe, C.; Hu, I.; Ibañez, J.; Irwin, N.; Ishii, Y.; Janowicz, N.; Jones, A.; Kachele, A.; Fujimura-Kamada, K.; Kaur, B.; Kaye, J.; Kazana, A.; Keeling, P.; King, N.; Klobutcher, L.; Lander, N.; Lassadi, I.; Li, Z.; Lin, S.; Lozano, J.-C.; Luan, F.; Maruyama, S.; Matute, T.; Miceli, C.; Minagawa, J.; Moosburner, M.; Najle, S.; Nanjappa, D.; Nimmo, I.; Noble, L.; Novák Vanclová, A.; Nowacki, M.; Nuñez, I.; Pain, A.; Piersanti, A.; Pucciarelli, S.; Pyrih, J.; Rest, J.; Rius, M.; Robertson, D.; Ruaud, A.; Ruiz-Trillo, I.; Sigg, M.; Silver, P.; Slamovits, C.; Smith, G.; Sprecher, B.; Stern, R.; Swart, E.; Tsaousis, A.; Tsypin, L.; Turkewitz, A.; Turnšek, J.; Valach, M.; Vergé, V.; von Dassow, P.; von der Haar, T.; Waller, R.; Wang, L.; Wen, X.; Wheeler, G.; Woods, A.; Zhang, H.; Mock, T.; Worden, A.; Lukeš, J.: Genetic tool development in marine protists: emerging model organisms for experimental cell biology. Nature Methods 17 (5), pp. 481 - 494 (2020)

Lazzaretti, D.; Bandholz-Cajamarca, L.; Emmerich, C.; Schaaf, K.; Basquin, C.; Irion, U.; Bono, F.: The crystal structure of Staufen1 in complex with a physiological RNA sheds light on substrate selectivity. Life science alliance 1 (5), e201800187 (2018)

Seah, B.; Singh, A.; Vetter, D.; Emmerich, C.; Peters, M.; Soltys, V.; Huettel, B.; Swart, E.: Evidence for ciliates without extensive DNA elimination: the karyorelict Loxodes magnus. In The 41st Annual Meeting of the DGP, p. 25. The 41st Annual Meeting of the German Society for Protozoology (DGP 2022), Bergisch Gladbach, Germany, July 12, 2022 - July 15, 2022. (2022)

Singh, M.; Seah, B.; Emmerich, C.; Singh, A.; Woehle, C.; Huettel, B.; Byerly, A.; Sover, N.; Sugiura, M.; Harumoto, C. et al.; Swart, E.: Genome editing excisase origins illuminated by somatic genome of the ciliate Blepharisma. In The 41st Annual Meeting of the DGP, p. 26. The 41st Annual Meeting of the German Society for Protozoology (DGP 2022), Bergisch Gladbach, Germany, July 12, 2022 - July 15, 2022. (2022)

Swart, E.: RNA-seq bioinformatics for “non-model” protists. In The 41st Annual Meeting of the DGP, p. 17. The 41st Annual Meeting of the German Society for Protozoology (DGP 2022), Bergisch Gladbach, Germany, July 12, 2022 - July 15, 2022. (2022)

Emmerich, C.: Evidence for a recent horizontal gene transfer from a close relative of Paramecium killer bacteria to Blepharisma. IX. ECOP-ISOP Joint Meeting "The Century of Protists", Wien, Austria (2023)

Shaikhutdinov, N.; Seah, B.; Emmerich, C.; Moeller, H.; Paight, C.; Johnson, M.; Swart, E.: Absence of spliceosomal introns in the mixotrophic ciliate Mesodinium rubrum: how did they disappear? IX. ECOP-ISOP Joint Meeting "The Century of Protists", Wien, Austria (2023)

Singh, A.; Häußermann, L.; Emmerich, C.; Seah, B.; Nowacki, M.; Swart, E.: Resolving the composition of a chromatin remodelling complex participating in Paramecium genome rearrangement. The 41st Annual Meeting of the German Society for Protozoology (DGP 2022), Bergisch Gladbach, Germany (2022)