Publications of the Jinek Group

ZORA Publication List

Publications

• 2024

  • Raimondi, Federica; Siow, Kah Mun; Wrona, Dominik; Fuster-García, Carla; Pastukhov, Oleksandr; Schmitz, Michael; Bargsten, Katja; Kissling, Lucas; Swarts, Daan C; Andrieux, Geoffroy; Cathomen, Toni; Modlich, Ute; Jinek, Martin; Siler, Ulrich; Reichenbach, Janine (2024). Gene editing of NCF1 loci is associated with homologous recombination and chromosomal rearrangements. Communications Biology, 7(1):1291.
  • Siow, Kah Mun; Güngör, Merve; Wrona, Dominik; Raimondi, Federica; Pastukhov, Oleksandr; Tsapogas, Panagiotis; Menzi, Timon; Schmitz, Michael; Kulcsár, Péter István; Schwank, Gerald; Schulz, Ansgar; Jinek, Martin; Modlich, Ute; Siler, Ulrich; Reichenbach, Janine (2024). Targeted knock-in of NCF1 cDNA into the NCF2 locus leads to myeloid phenotypic correction of p47 $^{phox}$ -deficient chronic granulomatous disease. Molecular Therapy : Nucleic Acids, 35(3):102229.
  • Weibel, Nathalie; Curcio, Martina; Schreiber, Atilla; Arriaga, Gabriel; Mausy, Marine; Mehdy, Jana; Brüllmann, Lea; Meyer, Andreas; Roth, Len; Flury, Tamara; Pecina, Valerie; Starlinger, Kim; Dernič, Jan; Jungfer, Kenny; Ackle, Fabian; Earp, Jennifer; Hausmann, Martin; Jinek, Martin; Rogler, Gerhard; Antunes Westmann, Cauã (2024). Engineering a Novel Probiotic Toolkit in Escherichia coli Nissle 1917 for Sensing and Mitigating Gut Inflammatory Diseases. ACS Synthetic Biology, 13(8):2376-2390.
  • Loeff, Luuk; Adams, David W; Chanez, Christelle; Stutzmann, Sandrine; Righi, Laurie; Blokesch, Melanie; Jinek, Martin (2024). Molecular mechanism of plasmid elimination by the DdmDE defense system. Science, 385(6705):188-194.
  • Reginato, Giordano; Dello Stritto, Maria Rosaria; Wang, Yanbo; Hao, Jingzhou; Pavani, Raphael; Schmitz, Michael; Halder, Swagata; Morin, Vincent; Cannavo, Elda; Ceppi, Ilaria; Braunshier, Stefan; Acharya, Ananya; Ropars, Virginie; Charbonnier, Jean-Baptiste; Jinek, Martin; Nussenzweig, Andrè; Ha, Taekjip; Cejka, Petr (2024). HLTF disrupts Cas9-DNA post-cleavage complexes to allow DNA break processing. Nature Communications, 15(1):5789.
  • Bastiaanssen, Carolien; Bobadilla Ugarte, Pilar; Kim, Kijun; Finocchio, Giada; Feng, Yanlei; Anzelon, Todd A; Köstlbacher, Stephan; Tamarit, Daniel; Ettema, Thijs J G; Jinek, Martin; MacRae, Ian J; Joo, Chirlmin; Swarts, Daan C; Wu, Fabai (2024). RNA-guided RNA silencing by an Asgard archaeal Argonaute. Nature Communications, 15(1):5499.
  • Weber, Yanik; Böck, Desirée; Ivașcu, Anastasia; Mathis, Nicolas; Rothgangl, Tanja; Ioannidi, Eleonora I; Blaudt, Alex C; Tidecks, Lisa; Vadovics, Máté; Muramatsu, Hiromi; Reichmuth, Andreas; Marquart, Kim F; Kissling, Lucas; Pardi, Norbert; Jinek, Martin; Schwank, Gerald (2024). Enhancing prime editor activity by directed protein evolution in yeast. Nature Communications, 15(1):2092.
  • Schmidheini, Lukas; Mathis, Nicolas; Marquart, Kim Fabiano; Rothgangl, Tanja; Kissling, Lucas; Böck, Desirée; Chanez, Christelle; Wang, Jingrui Priscilla; Jinek, Martin; Schwank, Gerald (2024). Continuous directed evolution of a compact CjCas9 variant with broad PAM compatibility. Nature Chemical Biology, 20(3):333-343.
  • Pacesa, Martin; Pelea, Oana; Jinek, Martin (2024). Past, present, and future of CRISPR genome editing technologies. Cell, 187(5):1076-1100.
  • Finocchio, Giada; Koopal, Balwina; Potocnik, Ana; Heijstek, Clint; Westphal, Adrie H; Jinek, Martin; Swarts, Daan C (2024). Target DNA-dependent activation mechanism of the prokaryotic immune system SPARTA. Nucleic Acids Research, 52(4):2012-2029.
  • Saha, Aakash; Ahsan, Mohd; Arantes, Pablo R; Schmitz, Michael; Chanez, Christelle; Jinek, Martin; Palermo, Giulia (2024). An alpha-helical lid guides the target DNA toward catalysis in CRISPR-Cas12a. Nature Communications, 15(1):1473.
  • Jungfer, Kenny; Sigg, Annina; Jinek, Martin (2024). Substrate selectivity and catalytic activation of the type III CRISPR ancillary nuclease Can2. Nucleic Acids Research, 52(1):462-473.

• 2023

  • Pacesa, Martin; Loeff, Luuk; Querques, Irma; Muckenfuss, Lena M; Sawicka, Marta; Jinek, Martin (2023). Publisher Correction: R-loop formation and conformational activation mechanisms of Cas9. Nature, 623(7987):E10.
  • Zhao, Lin; Koseki, Sabrina R T; Silverstein, Rachel A; Amrani, Nadia; Peng, Christina; Kramme, Christian; Savic, Natasha; Pacesa, Martin; Rodríguez, Tomás C; Stan, Teodora; Tysinger, Emma; Hong, Lauren; Yudistyra, Vivian; Ponnapati, Manvitha R; Jacobson, Joseph M; Church, George M; Jakimo, Noah; Truant, Ray; Jinek, Martin; Kleinstiver, Benjamin P; Sontheimer, Erik J; Chatterjee, Pranam (2023). PAM-flexible genome editing with an engineered chimeric Cas9. Nature Communications, 14(1):6175.

• 2022

  • Schmitz, Michael; Querques, Irma; Oberli, Seraina; Chanez, Christelle; Jinek, Martin (2022). Structural basis for the assembly of the type V CRISPR-associated transposon complex. Cell, 185(26):4999-5010.e17.
  • Pacesa, Martin; Lin, Chun-Han; Cléry, Antoine; Saha, Aakash; Arantes, Pablo R; Bargsten, Katja; Irby, Matthew J; Allain, Frédéric H-T; Palermo, Giulia; Cameron, Peter; Donohoue, Paul D; Jinek, Martin (2022). Structural basis for Cas9 off-target activity. Cell, 185(22):4067-4081.e21.
  • Nierzwicki, Łukasz; East, Kyle W; Binz, Jonas M; Hsu, Rohaine V; Ahsan, Mohd; Arantes, Pablo R; Skeens, Erin; Pacesa, Martin; Jinek, Martin; Lisi, George P; Palermo, Giulia (2022). Principles of target DNA cleavage and the role of Mg2+ in the catalysis of CRISPR-Cas9. Nature Catalysis, 5(10):912-922.
  • Muckenfuss, Lena Maria; Migenda Herranz, Anabel Carmen; Boneberg, Franziska Maria; Clerici, Marcello; Jinek, Martin (2022). Fip1 is a multivalent interaction scaffold for processing factors in human mRNA 3' end biogenesis. eLife, 11:e80332.
  • Pacesa, Martin; Loeff, Luuk; Querques, Irma; Muckenfuss, Lena M; Sawicka, Marta; Jinek, Martin (2022). R-loop formation and conformational activation mechanisms of Cas9. Nature, 609(7925):191-196.

• 2021

  • Kroupova, Alena; Ackle, Fabian; Asanović, Igor; Weitzer, Stefan; Boneberg, Franziska M; Faini, Marco; Leitner, Alexander; Chui, Alessia; Aebersold, Ruedi; Martinez, Javier; Jinek, Martin (2021). Molecular architecture of the human tRNA ligase complex. eLife, 10:e71656.
  • Querques, Irma; Schmitz, Michael; Oberli, Seraina; Chanez, Christelle; Jinek, Martin (2021). Target site selection and remodelling by type V CRISPR-transposon systems. Nature, 599(7885):497-502.
  • Makasheva, Kristina; Bryan, Louise C; Anders, Carolin; Panikulam, Sherin; Jinek, Martin; Fierz, Beat (2021). Multiplexed Single-Molecule Experiments Reveal Nucleosome Invasion Dynamics of the Cas9 Genome Editor. Journal of the American Chemical Society, 143(40):16313-16319.
  • Donohoue, Paul D; Pacesa, Martin; Lau, Elaine; Vidal, Bastien; Irby, Matthew J; Nyer, David B; Rotstein, Tomer; Banh, Lynda; Toh, Mckenzi S; Gibson, Jason; Kohrs, Bryan; Baek, Kevin; Owen, Arthur L G; Slorach, Euan M; van Overbeek, Megan; Fuller, Christopher K; May, Andrew P; Jinek, Martin; Cameron, Peter (2021). Conformational control of Cas9 by CRISPR hybrid RNA-DNA guides mitigates off-target activity in T cells. Molecular Cell, 81(17):3637-3649.e5.
  • Rothgangl, Tanja; Dennis, Melissa K; Lin, Paulo J C; Oka, Rurika; Witzigmann, Dominik; Villiger, Lukas; Qi, Weihong; Hruzova, Martina; Kissling, Lucas; Lenggenhager, Daniela; Borrelli, Costanza; Egli, Sabina; Frey, Nina; Bakker, Noëlle; Walker, John A; Kadina, Anastasia P; Victorov, Denis V; Pacesa, Martin; Kreutzer, Susanne; Kontarakis, Zacharias; Moor, Andreas; Jinek, Martin; Weissman, Drew; Stoffel, Markus; van Boxtel, Ruben; Holden, Kevin; Pardi, Norbert; Thöny, Beat; Häberle, Johannes; Tam, Ying K; Semple, Sean C; Schwank, Gerald (2021). In vivo adenine base editing of PCSK9 in macaques reduces LDL cholesterol levels. Nature Biotechnology, 39(8):949-957.
  • Bawankar, Praveen; Lence, Tina; Paolantoni, Chiara; Haussmann, Irmgard U; Kazlauskiene, Migle; Jacob, Dominik; Heidelberger, Jan B; Richter, Florian M; Nallasivan, Mohanakarthik P; Morin, Violeta; Kreim, Nastasja; Beli, Petra; Helm, Mark; Jinek, Martin; Soller, Matthias; Roignant, Jean-Yves (2021). Hakai is required for stabilization of core components of the m6A mRNA methylation machinery. Nature Communications, 12:3778.
  • Asanović, Igor; Strandback, Emilia; Kroupova, Alena; et al; Jinek, Martin (2021). The oxidoreductase PYROXD1 uses NAD(P) + as an antioxidant to sustain tRNA ligase activity in pre-tRNA splicing and unfolded protein response. Molecular Cell, 81(12):2520-2532.e16.

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