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Selected Publications

M. S. Shaban, C. Müller, C. Mayr-Buro, H. Weiser, J. Meier-Soelch, B. V. Albert, A. Weber, U. Linne, T. Hain, I. Babayev, N. Karl, N. Hofmann, S. Becker, S. Herold, M. L. Schmitz, J. Ziebuhr, M. Kracht. 2021. Multi-level inhibition of coronavirus replication by chemical ER stress. Nat Commun 12:5536.

H. Slanina, R. Madhugiri, G. Bylapudi, K. Schultheiss, N. Karl, A. Gulyaeva, A. E. Gorbalenya, U. Linne, J. Ziebuhr. 2021. Coronavirus replication-transcription complex: Vital and selective NMPylation of a conserved site in nsp9 by the NiRAN-RdRp subunit. Proc Natl Acad Sci USA 118:e2022310118.

Jungreis, C. W. Nelson, Z. Ardern, Y. Finkel, N. J. Krogan, K. Sato, J. Ziebuhr, N. Stern-Ginossar, A. Pavesi, A. E. Firth, A. E. Gorbalenya, M. Kellis. 2021. Conflicting and ambiguous names of overlapping ORFs in the SARS-CoV-2 genome: A homology-based resolution. Virology 558:145-151.

 F. Konings, M. D. Perkins, J. H. Kuhn, M. J. Pallen, E. J. Alm, B. N. Archer, A. Barakat, T. Bedford, J. N. Bhiman, L. Caly, L. L. Carter, A. Cullinane, T. de Oliveira, J. Druce, I. El Masry, R. Evans, G. F. Gao, A. E. Gorbalenya, E. Hamblion, B. L. Herring, E. Hodcroft, E. C. Holmes, M. Kakkar, S. Khare, M. P. G. Koopmans, B. Korber, J. Leite, D. MacCannell, M. Marklewitz, S. Maurer-Stroh, J. A. M. Rico, V. J. Munster, R. Neher, B. O. Munnink, B. I. Pavlin, M. Peiris, L. Poon, O. Pybus, A. Rambaut, P. Resende, L. Subissi, V. Thiel, S. Tong, S. van der Werf, A. von Gottberg, J. Ziebuhr, M. D. Van Kerkhove. 2021. SARS-CoV-2 variants of interest and concern naming scheme conducive for global discourse. Nat Microbiol 6:821-823.

B. Krichel, G. Bylapudi, C. Schmidt, C. Blanchet, R. Schubert, L. Brings, M. Koehler, R. Zenobi, D. Svergun, K. Lorenzen, R. Madhugiri, J. Ziebuhr, C. Uetrecht. 2021. Hallmarks of Alpha- and Betacoronavirus non-structural protein 7+8 complexes. Sci Adv 7:eabf1004

H. Melior, S. Li, M. Stötzel, S. Maass, R. Schütz, S. Azarderakhsh, A. Shevkoplias, S. Barth-Weber, K. Baumgardt, J. Ziebuhr, K. U. Förstner, Z. Chervontseva, D. Becher, E. Evguenieva-Hackenberg. 2021. Reprograming of sRNA target specificity by the leader peptide peTrpL in response to antibiotic exposure. Nucleic Acids Res 49:2894-2915.

C. Müller, W. Obermann, N. Karl, H. G. Wendel, G. Taroncher-Oldenburg, S. Pleschka, R. K. Hartmann, A. Grünweller, J. Ziebuhr. 2021. The rocaglate CR-31-B (-) inhibits SARS-CoV-2 replication at non-cytotoxic, low nanomolar concentrations in vitro and ex vivo. Antiviral Res 186:105012.

A. Stukalov, V. Girault, V. Grass, O. Karayel, V. Bergant, C. Urban, D. A. Haas, Y. Huang, L. Oubraham, A. Wang, M. S. Hamad, A. Piras, F. M. Hansen, M. C. Tanzer, I. Paron, L. Zinzula, T. Engleitner, M. Reinecke, T. M. Lavacca, R. Ehmann, R. Wölfel, J. Jores, B. Kuster, U. Protzer, R. Rad, J. Ziebuhr, V. Thiel, P. Scaturro, M. Mann, A. Pichlmair. 2021. Multilevel proteomics reveals host perturbations by SARS-CoV-2 and SARS-CoV. Nature 594:246-252.

G. Taroncher-Oldenburg, C. Müller, W. Obermann, J. Ziebuhr, R. K. Hartmann, A. Grünweller. 2021. Targeting the DEAD-box RNA helicase eIF4A with rocaglates – A pan-antiviral strategy for minimizing the impact of future RNA virus pandemics. Microorganisms 9:540.

P. J. Walker, J. A. Cowley, X. Dong, J. Huang, N. Moody, J. Ziebuhr, I. R. Consortium. 2021. ICTV virus taxonomy profile: Roniviridae. J Gen Virol 102:jgv001514.

A. Welker, C. Kersten, C. Müller, R. Madhugiri, C. Zimmer, P. Müller, R. Zimmermann, S. Hammerschmidt, H. Maus, J. Ziebuhr, C. Sotriffer, T. Schirmeister. 2021. Structure-activity relationships of benzamides and isoindolines designed as SARS-CoV protease inhibitors effective against SARS-CoV-2. ChemMedChem 16:340-354.

A. E. Gorbalenya, S. C. Baker, R. S. Baric, R. J. de Groot, C. Drosten, A. A. Gulyaeva, B. L. Haagmans, C. Lauber, A. M. Leontovich, B. W. Neuman, D. Penzar, L. L. M. Poon, D. V. Samborskiy, I. A. Sidorov, I. Sola, J. Ziebuhr. 2020. The species Severe acute respiratory syndrome-related coronavirus: classifying 2019-nCoV and naming it SARS-CoV-2. Nat Microbiol 5:536-544.

 A. Viehweger, S. Krautwurst, K. Lamkiewicz, R. Madhugiri, J. Ziebuhr, M. Hölzer and M. Marz.
Direct RNA nanopore sequencing of full-length coronavirus genomes provides novel insights into structural variants and enables modification analysis. Genome Res. 2019 Sep;29(9):1545-1554. doi:10.1101/gr.247064.118. Epub 2019 Aug 22. PMID: 31439691 Free PMC article.

J. Tvarogová, R. Madhugiri, G. Bylapudi, LJ. Ferguson, N. Karl and J. Ziebuhr. 2019. Identification and characterization of a human coronavirus 229E nonstructural protein 8-associated RNA 3'-terminal adenylyltransferase activity. J. Virol. 93:e00291-19.

M. Kanitz, S. Blanck, A. Heine, AA. Gulyaeva, AE. Gorbalenya, J. Ziebuhr and WE. Diederich. 2019. Structural basis for catalysis and substrate specificity of a 3C-like cysteine protease from a mosquito mesonivirus. Virology 533:21-33.

H. Melior, S. Li, R. Madhugiri, M. Stötzel, S. Azarderakhsh, S. Barth-Weber, K. Baumgardt, J. Ziebuhr and E. Evguenieva-Hackenberg. 2019. Transcription attenuation-derived small RNA rnTrpL regulates tryptophan biosynthesis gene expression in trans. Nucleic Acids Res. 47:6396-6410.

I. Durzynska, M. Sauerwald, N. Karl, R. Madhugiri and J. Ziebuhr. 2018. Characterization of a bafinivirus exoribonuclease activity. J. Gen. Virol. 99:1253-1260.

R. Ehmann, C. Kristen-Burmann, B. Bank-Wolf, M. König, C. Herden, T. Hain, HJ. Thiel, J. Ziebuhr and G. Tekes. 2018. Reverse genetics for type I feline coronavirus field isolate to study the molecular pathogenesis of feline infectious peritonitis. MBio 9:e01422-18.

R. Madhugiri, N. Karl, D. Petersen, K. Lamkiewicz, M. Fricke, U. Wend, R. Scheuer, M. Marz and J. Ziebuhr. 2018. Structural and functional conservation of cis-acting RNA elements in coronavirus 5'-terminal genome regions. Virology 517:44-55.

C. Müller, M. Hardt, D. Schwudke, B. W. Neuman, S. Pleschka and J. Ziebuhr. 2018. Inhibition of cytosolic phospholipase A2alpha impairs an early step of coronavirus replication in cell culture. J. Virol. 92:e01463-17.

C. Müller, F. W. Schulte, K. Lange-Grünweller, W. Obermann, R. Madhugiri, S. Pleschka, J. Ziebuhr, R. K. Hartmann and A. Grünweller. 2018. Broad-spectrum antiviral activity of the eIF4A inhibitor silvestrol against corona- and picornaviruses. Antiviral Res. 150:123-129.

D. Florek, R. Ehmann, C. Kristen-Burmann, T. Lemmermeyer, G. Lochnit, J. Ziebuhr, H. J. Thiel, G. Tekes. 2017. Identification and characterization of a Golgi retention signal in feline coronavirus accessory protein 7b. J. Gen. Virol. 98:2017-2029.

E. Kindler, C. Gil-Cruz, J. Spanier, Y. Li, J. Wilhelm, HH. Rabouw, R. Züst, M. Hwang, P. V'Kovski, H. Stalder, S. Marti, M. Habjan, L. Cervantes-Barragan, R. Elliot, N. Karl, C. Gaughan, F. J. van Kuppeveld, RH. Silverman, M. Keller, B. Ludewig, C. C. Bergmann, J. Ziebuhr, SR. Weiss, U. Kalinke and V. Thiel. 2017. Early endonuclease-mediated evasion of RNA sensing ensures efficient coronavirus replication. PLoS Pathog. 13:e1006195.

I. Mejdrová, D. Chalupská, P. Plačková, C. Müller, M. Šála, M. Klíma, A. Baumlová, H. Hřebabecký, E. Procházková, M. Dejmek, D. Strunin, J. Weber, G. Lee, M. Matoušová, H. Mertlíková-Kaiserová, J. Ziebuhr, G. Birkus, E. Boura and R. Nencka. 2017. Rational design of novel highly potent and selective phosphatidylinositol 4-kinase IIIbeta (PI4KB) inhibitors as broad-spectrum antiviral agents and tools for chemical biology. J. Med. Chem. 60:100-118.

M. Poppe, S. Wittig, L. Jurida, M. Bartkuhn, J. Wilhelm, H. Müller, K. Beuerlein, N. Karl, S. Bhuju, J. Ziebuhr, ML. Schmitz and M. Kracht. 2017. The NF-kappaB-dependent and -independent transcriptome and chromatin landscapes of human coronavirus 229E-infected cells. PLoS Pathog. 13:e1006286.

EJ. Snijder, E. Decroly and J. Ziebuhr. 2016. The nonstructural proteins directing coronavirus RNA synthesis and processing. Adv. Virus Res. 96:59-126.

S. Blanck and J. Ziebuhr. 2016. Proteolytic processing of mesonivirus replicase polyproteins by the viral 3C-like protease. J. Gen. Virol. 97:1439-1445.

T. Lemmermeyer, B. Lamp, R. Schneider, J. Ziebuhr, G. Tekes and HJ. Thiel. 2016. Characterization of monoclonal antibodies against feline coronavirus accessory protein 7b. Vet. Microbiol. 184:11-19.

R. Madhugiri, M. Fricke, M. Marz and J. Ziebuhr. 2016. Coronavirus cis-acting RNA elements. Adv. Virus Res. 96:127-163

D. Mühlbauer, J. Dzieciolowski, M. Hardt, A. Hocke, K. L. Schierhorn, A. Mostafa, C. Müller, C. Wisskirchen, S. Herold, T. Wolff, J. Ziebuhr and S. Pleschka. 2015. Influenza virus-induced caspase-dependent enlargement of nuclear pores promotes nuclear export of viral ribonucleoprotein complexes. J. Virol. 89:6009-6021.

S. Blanck, A. Stinn, L. Tsiklauri, F. Zirkel, S. Junglen and J. Ziebuhr. 2014. Characterization of an alphamesonivirus 3C-like protease defines a special group of nidovirus main proteases. J. Virol. 88:13747-13758.

R. Madhugiri, M. Fricke, M. Marz and J. Ziebuhr. 2014. RNA structure analysis of alphacoronavirus terminal genome regions. Virus Res. 194:76-89.

A. Paasche, A. Zipper, S. Schäfer, J. Ziebuhr, T. Schirmeister and B. Engels. 2014. Evidence for substrate binding-induced zwitterion formation in the catalytic Cys-His dyad of the SARS-CoV main protease. Biochemistry 53:5930-5946.

M. Habjan, P. Hubel, L. Lacerda, C. Benda, C. Holze, C. H. Eberl, A. Mann, E. Kindler, C. Gil-Cruz, J. Ziebuhr, V. Thiel and A. Pichlmair. 2013. Sequestration by IFIT1 impairs translation of 2'O-unmethylated capped RNA. PLoS Pathog. 9:e1003663.

RJ. de Groot, SC. Baker, RS. Baric, CS. Brown, C. Drosten, L. Enjuanes, RA. Fouchier, M. Galiano, AE. Gorbalenya, ZA. Memish, S. Perlman, LL. Poon, EJ. Snijder, GM. Stephens, PC. Woo, AM. Zaki, M. Zambon and J. Ziebuhr. 2013. Middle East respiratory syndrome coronavirus (MERS-CoV): announcement of the Coronavirus Study Group. J. Virol. 87:7790-7792.

F. Zirkel, H. Roth, A. Kurth, C. Drosten, J. Ziebuhr and S. Junglen. 2013. Identification and characterization of genetically divergent members of the newly established family Mesoniviridae. J. Virol. 87:6346-6358.

C. Lauber, J. Ziebuhr, S. Junglen, C. Drosten, F. Zirkel, PT. Nga, K. Morita, EJ. Snijder and AE. Gorbalenya. 2012. Mesoniviridae: a proposed new family in the order Nidovirales formed by a single species of mosquito-borne viruses. Arch. Virol. 157:1623-1628.

L. Zhao, BK. Jha, A. Wu, R. Elliott, J. Ziebuhr, AE. Gorbalenya, RH. Silverman and SR. Weiss. 2012. Antagonism of the interferon-induced OAS-RNase L pathway by murine coronavirus ns2 protein is required for virus replication and liver pathology. Cell Host Microbe 11:607-616.

R. Züst, L. Cervantes-Barragan, M. Habjan, R. Maier, B. W. Neuman, J. Ziebuhr, KJ. Szretter, SC. Baker, W. Barchet, MS. Diamond, SG. Siddell, B. Ludewig and V. Thiel. 2011. Ribose 2'-O-methylation provides a molecular signature for the distinction of self and non-self mRNA dependent on the RNA sensor Mda5. Nature Immunol. 12:137-43.

F. Zirkel, A. Kurth, PL. Quan, T. Briese, H. Ellerbrok, G. Pauli, FH. Leendertz, WI. Lipkin, J. Ziebuhr, C. Drosten and S. Junglen. 2011. An insect nidovirus emerging from a primary tropical rainforest. MBio 2:e00077-11.

R. Ulferts, TC. Mettenleiter and J. Ziebuhr. 2011. Characterization of bafinivirus main protease autoprocessing activities. J. Virol. 85:1348-59.

R. Ulferts and J. Ziebuhr. 2011. Nidovirus ribonucleases: structures and functions in viral replication. RNA. Biol. 8:295-304.

R. Ulferts, I. Imbert, B. Canard, and J. Ziebuhr. 2010. Expression and functions of SARS coronavirus replicative proteins, p. 75-98. In S. K. Lal (ed.), Molecular biology of the SARS-Coronavirus. Springer, Berlin & Heidelberg.

DD. Nedialkova, R. Ulferts, E. van den Born, C. Lauber, AE. Gorbalenya, J. Ziebuhr and EJ. Snijder. 2009. Biochemical characterization of arterivirus nonstructural protein 11 reveals the nidovirus-wide conservation of a replicative endoribonuclease. J. Virol. 83:5671-82.

J. Ziebuhr 2008. Coronavirus replicative proteins, p. 65-81. In S. Perlman, T. Gallagher and EJ. Snijder (ed.), Nidoviruses. ASM Press, Washington, DC.

J. Ziebuhr, B. Schelle, N. Karl, E. Minskaia, S. Bayer, SG. Siddell, A. E. Gorbalenya and V. Thiel. 2007. Human coronavirus 229E papain-like proteases have overlapping specificities but distinct functions in viral replication. J. Virol. 81:3922-32.

H. Schütze, R. Ulferts, B. Schelle, S. Bayer, H. Granzow, B. Hoffmann, TC. Mettenleiter and J. Ziebuhr. 2006. Characterization of White bream virus reveals a novel genetic cluster of nidoviruses. J. Virol. 80:11598-609.

S. Ricagno, M. P. Egloff, R. Ulferts, B. Coutard, D. Nurizzo, V. Campanacci, C. Cambillau, J. Ziebuhr and B. Canard. 2006. Crystal structure and mechanistic determinants of SARS coronavirus nonstructural protein 15 define an endoribonuclease family. Proc. Natl. Acad. Sci. USA 103:11892-7.

E. Minskaia, T. Hertzig, AE. Gorbalenya, V. Campanacci, C. Cambillau, B. Canard and J. Ziebuhr. 2006. Discovery of an RNA virus 3'-5' exoribonuclease that is critically involved in coronavirus RNA synthesis. Proc. Natl. Acad. Sci. USA 103:5108-13.

A. Putics, W. Filipowicz, J. Hall, A. E. Gorbalenya and J. Ziebuhr. 2005. ADP-ribose-1"-monophosphatase: a conserved coronavirus enzyme that is dispensable for viral replication in tissue culture. J Virol 79:12721-31.

A. Seybert, CC. Posthuma, LC. van Dinten, EJ. Snijder, AE. Gorbalenya and J. Ziebuhr. 2005. A complex zinc finger controls the enzymatic activities of nidovirus helicases. J. Virol. 79:696-704.

J. Ziebuhr 2004. Molecular biology of severe acute respiratory syndrome coronavirus. Curr. Opin. Microbiol. 7:412-9.

KA. Ivanov, V. Thiel, J. C. Dobbe, Y. van der Meer, EJ. Snijder and J. Ziebuhr. 2004. Multiple enzymatic activities associated with severe acute respiratory syndrome coronavirus helicase. J. Virol. 78:5619-32.

KA. Ivanov, T. Hertzig, M. Rozanov, S. Bayer, V. Thiel, AE. Gorbalenya and J. Ziebuhr. 2004. Major genetic marker of nidoviruses encodes a replicative endoribonuclease. Proc. Natl. Acad. Sci. USA 101:12694-9.

V. Thiel, KA. Ivanov, A. Putics, T. Hertzig, B. Schelle, S. Bayer, B. Weissbrich, EJ. Snijder, H. Rabenau, H. W. Doerr, AE. Gorbalenya and J. Ziebuhr. 2003. Mechanisms and enzymes involved in SARS coronavirus genome expression. J. Gen. Virol. 84:2305-15.

K. Anand, J. Ziebuhr, P. Wadhwani, JR. Mesters and R. Hilgenfeld. 2003. Coronavirus main proteinase (3CLpro) structure: basis for design of anti-SARS drugs. Science 300:1763-7.