CEMCE Publications 2022

Publications 2022

• Cherkashchenko, L., Rausalu, K., Basu, S., Alphey, L. and Merits, A. (2022). Expression of alphavirus nonstructural protein 2 (nsP2) in mosquito cells inhibits viral RNA replication in both a protease activity-dependent and -independent manner. Viruses. 14, 1327. https://doi.org/10.3390/v14061327.
• Wang, S. and Merits, A. (2022). G3BP/Rin-binding motifs inserted into flexible regions of nsP2 support RNA replication of chikungunya virus. Journal of Virology, 96(21): e0127822. doi: 10.1128/jvi.01278-22.
• Lello, L.S., Miilimäe, A., Cherkashchenko, L., Omler, A., Skilton, R., Ireland, R., Ulaeto, D. and Merits, A (2022). Activity, template preference and compatibility of components of RNA replicase of eastern equine encephalitis virus. Journal of Virology, DOI 10.1128/jvi.01368-22 (in press).
• Brodiazhenko, T., Turnbull, K.J., Wu, K.J.Y., Takada, H., Tresco, B.I.C., Tenson, T., Myers, A.G., Hauryliuk, V. (2022). Synthetic oxepanoprolinamide iboxamycin is active against Listeria monocytogenes despite the intrinsic resistance mediated by VgaL/Lmo0919 ABCF ATPase. JAC Antimicrob Resist. doi: 10.1093/jacamr/dlac061.
• Hinnu, M., Putrinš, M., Kogermann, K., Bumann, D., Tenson, T. (2022). Making Antimicrobial Susceptibility Testing More Physiologically Relevant with Bicarbonate? Antimicrob Agents Chemother. doi: 10.1128/aac.02412-21. Epub 2022 Apr 18.PMID: 35435706.
• Kurata, T., Saha, C.K., Buttress, J.A., Mets, T., Brodiazhenko, T., Turnbull, K.J., Awoyomi, O.F., Oliveira, S.R.A., Jimmy, S., Ernits, K., Delannoy, M., Persson, K., Tenson, T., Strahl, H., Hauryliuk, V., Atkinson, G.C. (2022). A hyperpromiscuous antitoxin protein domain for the neutralization of diverse toxin domains. Proc Natl Acad Sci U S A. doi: 10.1073/pnas.2102212119.PMID: 35121656.
• Safdari, H.A., Kasvandik, S., Polte, C., Ignatova, Z., Tenson, T., Wilson, D.N. (2022). Structure of Escherichia coli heat shock protein Hsp15 in complex with the ribosomal 50S subunit bearing peptidyl-tRNA. Nucleic Acids Res. 2022 Nov 12:gkac1035. doi: 10.1093/nar/gkac1035.
• Kasari, M., Kasari, V., Kärmas, M., Jõers, A. (2022). Decoupling Growth and Production by Removing the Origin of Replication from a Bacterial Chromosome. ACS Synth Biol. 2022 Aug 19;11(8):2610-2622. doi: 10.1021/acssynbio.1c00618.
• Tamman, H., Ernits, K., Roghanian, M., Ainelo, A., Julius, C., Perrier, A., Talavera, A., Ainelo, H., Dugauquier, R., Zedek, S., Thureau, A., Pérez, J., Lima-Mendez, G., Hallez, R., Atkinson, GC., Hauryliuk, V., Garcia-Pino, A. (2022). Structure of SpoT reveals evolutionary tuning of catalysis via conformational constraint. Nat Chem Biol. 2022 Dec 5. doi: 10.1038/s41589-022-01198-x.
• Zhang, T., Tamman, H., Coppieters ‘t Wallant K., Kurata, T., LeRoux, M., Srikant, S., Brodiazhenko, T., Cepauskas, A., Talavera, A., Martens, C., Atkinson, G.C., Hauryliuk, V., Garcia-Pino, A., Laub, M.T. (2022). Direct activation of a bacterial innate immune system by a viral capsid protein. Nature. 2022 Dec;612(7938):132-140. doi: 10.1038/s41586-022-05444-z.
• Koller, T.O., Turnbull, K.J., Vaitkevicius, K., Crowe-McAuliffe, C., Roghanian, M., Bulvas, O., Nakamoto, J.A., Kurata, T., Julius, C., Atkinson, G.C., Johansson, J., Hauryliuk, V., Wilson, D.N. (2022). Structural basis for HflXr-mediated antibiotic resistance in Listeria monocytogenes. Nucleic Acids Res. 2022 Oct 28;50(19):11285-11300.
• Takada, H., Mandell, Z.F., Yakhnin, H., Glazyrina, A., Chiba, S., Kurata, T., Wu, K.J.Y., Tresco, B.I.C., Myers, A.G., Aktinson, G.C., Babitzke, P., Hauryliuk, V. (2022). Expression of Bacillus subtilis ABCF antibiotic resistance factor VmlR is regulated by RNA polymerase pausing, transcription attenuation, translation attenuation and (p)ppGpp. Nucleic Acids Res. 2022 Jun 24;50(11):6174-6189. doi: 10.1093/nar/gkac497.
• Crowe-McAuliffe, C., Murina, V., Turnbull, K.J., Huch, S., Kasari, M., Takada, H., Nersisyan, L., Sundsfjord, A., Hegstad, K., Atkinson, G.C., Pelechano, V., Wilson, D.N., Hauryliuk, V. (2022). Structural basis for PoxtA-mediated resistance to phenicol and oxazolidinone antibiotics. Nat Commun. 2022 Apr 6;13(1):1860.
• Oja, M., Sild, S., Piir, G., Maran, U. (2022). Intrinsic Aqueous Solubility: Mechanistically Transparent Data-Driven Modeling of Drug Substances. Pharmaceutics, 14 (10), 2248. DOI: 10.3390/pharmaceutics14102248.
• Hunt, K.E., Garcia-Sosa, A.T., Shalima, T., Maran, U., Vilu, R., Kanger, T. (2022). Synthesis of 6 ‘-galactosyllactose, a deviant human milk oligosaccharide, with the aid of Candida antarctica lipase-B. Organic & Biomolecular Chemistry, 20, 4724−4735. DOI: 10.1039/d2ob00550f.
• Toots, K.M., Sild, S., Leis, J., Acree, W.E., Maran, U. (2022). Machine Learning Quantitative Structure–Property Relationships as a Function of Ionic Liquid Cations for the Gas-Ionic Liquid Partition Coefficient of Hydrocarbons. International Journal of Molecular Sciences, 23 (14), 7534. DOI: 10.3390/ijms23147534.
• Kosimov, A., Yusibova, G., Aruvali, J., Paiste, P., Kaarik, M., Leis, J., Kikas, A., Kisand, V., Smits, K., Kongi, N. (2022). Liquid-assisted grinding/compression: a facile mechanosynthetic route for the production of high-performing Co-N-C electrocatalyst materials. Green Chemistry, 24, 305−314.
  DOI: http://dx.doi.org/10.1039/D1GC03433B .
• Lilloja, J., Kibena-Põldsepp, E., Sarapuu, A.; Käärik, M.; Kozlova, J.; Paiste, P., Kikas, A., Treshchalov, A., Leis, J., Tamm, A., Kisand, V., Holdcroft, S., Tammeveski, K. (2022). Transition metal and nitrogen-doped mesoporous carbons as cathode catalysts for anion-exchange membrane fuel cells. Applied Catalysis B Environmental, 306, 121113. DOI: http://dx.doi.org/10.1016/j.apcatb.2022.121113 .
• Sokka, A., Mooste, M., Marandi, M., Käärik, M., Kozlova, J., Kikas, A., Kisand, V., Treshchalov, A., Tamm, A., Leis, J., Holdcroft, S., Tammeveski, K. (2022). Polypyrrole and polythiophene modified carbon nanotube-based cathode catalysts for anion exchange membrane fuel cell. ChemElectroChem, 9 (7), e202200161.
  DOI: http://dx.doi.org/10.1002/celc.202200161.
• Ávila-Bolívar, B., Cepitis, R., Alam, M., Assafrei, J-M., Ping, K., Aruväli, J., Kikas, A., Kisand, V., Vlassov, S., Käärik, M., Leis, J., Ivaništštev, V., Starkov, P., Montiel, V., Solla-Gullón, J., Kongi, N. (2022). CO2 reduction to formate on an affordable bismuth metal-organic framework based catalyst. Journal of CO2 Utilization, 59, 101937. DOI: http://dx.doi.org/10.1016/j.jcou.2022.101937 .
• Palm, I., Kibena-Põldsepp, E., Mooste, M., Kozlova, J., Käärik, M., Kikas, A., Treshchalov, A., Leis, J., Kisand, V., Tamm, A., Holdcroft, S., Atanassov, P., Tammeveski, K. (2022). Nitrogen and phosphorus dual-doped silicon carbide-derived carbon/carbon nanotube composite for the anion-exchange membrane fuel cell cathode. ACS Applied Energy Materials, 5 (3), 2949−2958. DOI: http://dx.doi.org/10.1021/acsaem.1c03627 .
• Veske, K., Sarapuu, A., Käärik, M., Kikas, A., Kisand, V., Piirsoo, H.-M., Treshchalov, A., Leis, J., Tamm, A., Tammeveski, K. (2022). Cobalt-Containing Nitrogen-Doped Carbon Materials Derived from Saccharides as Efficient Electrocatalysts for Oxygen Reduction Reaction. Catalysts, 12 (5), 568.
  DOI: http://dx.doi.org/10.3390/catal12050568.
• Juvanen, S., Sarapuu, A., Mooste, M., Käärik, M., Mäeorg, U., Kikas, A., Kisand, V., Kozlova, J., Treshchalov, A., Aruväli, J., Leis, J., Tamm, A., Tammeveski, K. (2022). Electroreduction of oxygen on iron- and cobalt-containing nitrogen-doped carbon catalysts prepared from the rapeseed press cake. Journal of Electroanalytical Chemistry, 920, 116599. DOI: http://dx.doi.org/10.1016/j.jelechem.2022.116599.
• Käärik, M., Arulepp, M., Kozlova, J., Aruväli, J., Mäeorg, U., Kikas, A., Kisand, V., Tamm, A., Leis, J. (2022). Effect of partial oxidation and repolarization of TiC-derived nanoporous carbon electrodes on supercapacitor performance using a pH-neutral aqueous electrolyte. Journal of Solid State Electrochemistry, 26 (11), 2365−2378. DOI: http://dx.doi.org/10.1007/s10008-022-05253-4 .
• Kumar, Y., Kibena-Põldsepp, E., Mooste, M., Kozlova, J., Kikas, A., Aruväli, J., Käärik, M., Kisand, V., Leis, J., Tamm, A., Holdcroft, S., Zagal, J.H., Tammeveski, K. (2022). Iron and nickel phthalocyanine-modified nanocarbon materials as cathode catalysts for anion-exchange membrane fuel cells and zinc-air batteries. ChemElectroChem, 9 (20), e202200717. DOI: http://dx.doi.org/10.1002/celc.202200717.
• Kisand, K., Sarapuu, A., Douglin, J.C., Kikas, A., Treshchalov, A., Käärik, M., Piirsoo, H.-M., Paiste, P., Aruväli, J., Leis, J., Kisand, V., Tamm, A., Dekel, D.R., Tammeveski, K. (2022). Templated nitrogen-, iron-, and cobalt-doped mesoporous nanocarbon derived from an alkylresorcinol mixture for anion-exchange membrane fuel cell application. ACS Catalysis, 12 (22), 14050−14061. DOI: http://dx.doi.org/10.1021/acscatal.2c03683.
• Alov, P., Al Sharif, M., Aluani, D., Chegaev, K., Dinic, J., Divac Rankov, A., Fernandes. M.X., Fusi, F., García-Sosa, AT., Juvonen, R., Kondeva-Burdina, M., Padrón, JM., Pajeva, I., Pencheva, T., Puerta, A., Raunio, H., Riganti, C., Tsakovska, I., Tzankova, V., Yordanov, Y., Saponara, S. (2022). A comprehensive evaluation of Sdox, a promising H2S-releasing doxorubicin for the treatment of chemoresistant tumors. Frontiers in Pharmacology, 13, 831791. DOI: https://dx.doi.org/10.3389/fphar.2022.831791.
• Porosk, L., Nebogatova, J., Härk,H.H., Vunk, B., Arukuusk, P., Toots, U.,Ustav, M., Langel; Ü., Kurrikoff, K., “Predicting Transiently Expressed Protein Yields: Comparison of Transfection Methods in CHO and HEK293” Pharmaceutics 2022, 14(9), 1949.
• Cerrato, C.P., Langel, Ü. “An update on cell-penetrating peptides with intracellular organelle targeting.” Expert Opin Drug Deliv. 2022 Feb;19(2):133-146. doi: 10.1080/17425247.2022.2034784. Epub 2022 Feb 8. PMID: 35086398.
• Kurrikoff, K., Teesalu, T. Editorial on Special Issue “Precision Delivery of Drugs and Imaging Agents with Peptides”.Pharmaceutics. 2022 Feb 23;14(3):486. doi: 10.3390/pharmaceutics14030486. PMID: 35335863.
• Kurrikoff, K., Vunk, B., Langel, Ü. “Tissue Analysis of Lung-Targeted Delivery of siRNA and Plasmid DNA.” Methods Mol Biol. 2022;2383:547-553. doi: 10.1007/978-1-0716-1752-6_34. PMID: 34766312.
• Arukuusk, P., Härk, H.H., Langel, Ü. “Utilization of Cell-Penetrating Peptides for In Vivo Delivery of Bioactive Cargo: The Effect of Nanoparticle Formulation.” Methods Mol Biol. 2022;2383:247-253. doi: 10.1007/978-1-0716-1752-6_16. PMID: 34766294
• Porosk, L., Nebogatova, J., Gaidutšik, I., Langel, Ü. “Endpoint and Kinetic Approaches for Assessing Transfection Efficacy in Mammalian Cell Culture.” Methods Mol Biol. 2022;2383:529-545. doi: 10.1007/978-1-0716-1752-6_33. PMID: 34766311.
• Barghi, B.; Jürisoo, M.; Volokhova, M.; Seinberg, L.; Reile, I.; Mikli, V.; Niidu, A. (2022). Process Optimization for Catalytic Oxidation of Dibenzothiophene over UiO-66-NH2 by Using Response Surface Methodology. ACS Omega, 7 (19), 16288−16297. DOI: 10.1021/acsomega.1c05965.
• Dalidovich, T.; Nallaparaju, J. V.; Shalima, T.; Aav, R.; Kananovich, D. G. (2022). Mechanochemical Nucleophilic Substitution of Alcohols via Isouronium Intermediates. ChemSusChem, 15, e202102286. DOI: 10.1002/cssc.202102286.
• Hunt, K. E.; Garcia-Sosa, A. T.; Shalima, T.; Maran, U.; Vilu, R.; Kanger, T. (2022). Synthesis of 6 ‘-galactosyllactose, a deviant human milk oligosaccharide, with the aid of Candida antarctica lipase-B. Organic & Biomolecular Chemistry, 20, 4724−4735. DOI: 10.1039/d2ob00550f.
• Kooli, A.; Wesenberg, L.; Beslać, M.; Krech, An.; Lopp, M.; Noёl, T.; Ošeka, M. (2022). Electrochemical Hydroxylation of Electron‐Rich Arenes in Continuous‐Flow. European Journal of Organic Chemistry. DOI: 10.1002/ejoc.202200011.
• Kriis, K.; Martõnov, H.; Miller, A.; Erkman, K.; Järving, I.; Kaasik, M.; Kanger, T. (2022). Multifunctional Catalysts in the Asymmetric Mannich Reaction of Malononitrile with N-Phosphinoylimines: Coactivation by Halogen Bonding versus Hydrogen Bonding. The Journal of Organic Chemistry, 87 (11), 7422−7435. DOI: 10.1021/acs.joc.2c00674.
• Kriis, K. Martõnov, H.; Miller, A.; Erkman, K.; Järving, I.; Kaasik, M.; Kanger, T. (2022). Synthesis of 6 ‘-galactosyllactose, a deviant human milk oligosaccharide, with the aid of Candida antarctica lipase-B. Organic & Biomolecular Chemistry, 20, 4724−4735. DOI: 10.1039/d2ob00550f.
• Kõllo, M., Rõuk, K. Lopp, M. (2022) Synthesis of 2-(S)-[(4-methylphenyl)sulfinyl]-2-cyclo penten-1-one, a D-ring precursor of 9,11-secosterols. Proceedings of Estonian Academy of Sciences, 71(4), 307–313. DPI/10.3176/proc.2022.4.0
• Sharma, M.; Hussain, S.; Shalima, T.;Aav, R.;Bhat^, R. (2022). Valorization of seabuckthorn pomace to obtain bioactive carotenoids: An innovative approach of using green extraction techniques (ultrasonic and microwave-assisted extractions) synergized with green solvents (edible oils). Industrial Crops and Products, 2022, 175, 114257. DOI: 10.1016/j.indcorp.2021.114257.
• Sihtmae, M.; Silm, E.; Kriis, K.; Kahru, A.; Kanger, T. (2022). Aminocatalysts are More Environmentally Friendly than Hydrogen-Bonding Catalysts. ChemSusChem, ARTN e202201045. DOI: 10.1002/cssc.202201045.
• Silm, E.; Järving, I.; Kanger, T. (2022). Asymmetric organocatalytic Michael addition of cyclopentane-1,2-dione to alkylidene oxindole. Beilstein Journal of Organic Chemistry, 18, 167−173. DOI: 10.3762/bjoc.18.18.
• Šakarašvili, M.; Ustrnul, L.; Suut, E.; Nallaparaju, J. V.; Mishra, K. A.; Konrad, N.; Adamson, J.; Borovkov, V.; Aav, R. (2022). Self-Assembly of Chiral Cyclohexanohemicucurbit[n]urils with Bis(Zn Porphyrin): Size, Shape, and Time-Dependent Binding. 2022, Molecules, 27 (3), 937. DOI: 10.3390/molecules27030937.
• Kurg, K., Planken, A., Kurg, R. “Proteomic and Biochemical Analysis of Extracellular Vesicles Isolated from Blood Serum of Patients with Melanoma” Separations, 9 (4), 86. DOI: 10.3390/separations9040086.
• Takahashi, Y., Bosmans, K.C., Hsu, P.-K., Paul, K., Seitz, C., Yeh, C.-Y., Wang, Y.-S., Yarmolinsky, D., Sierla, M., Vahisalu, T., McCammon, J. A., Kangasjärvi, J., Zhang, L., Kollist, H., Trac, T., Schroeder, J. (2022) Stomatal CO2/bicarbonate sensor consists of two interacting proteiin kinases, Raf-like HT1 and non-kinase-activity activity requiring MPK12/MPK4. Science Advances, 8, 49, eabq6161.
• Bacete, L; Schulz, J; Engelsdorf, T; Bartosova, Z; Vaahtera, L; Yan, GQ; Gerhold, JM; Ticha, T; Ovstebo, C; Gigli-Bisceglia, N; Johannessen-Starheim, S; Margueritat, J; Kollist, H; Dehoux, T; McAdam, SAM; Hamann, T. (2022) THESEUS1 modulates cell wall stiffness and abscisic acid production in Arabidopsis thaliana. PNAS, 119: e2119258119.
• Faustova, I., Örd, M., Kiselev, V., Fedorenko, D., Borovko, I., Macs, D., Pääbo, K., Lõoke, M., Loog, M „A synthetic biology approach reveals diverse and dynamic CDK response profiles via sisu phosphorylation of NLS-NES modules“ Science Advances, 8 (33). DOI: 10.1126/sciadv.abp8992.
• Philip, J., Ord, M., Silva, A., Singh, S., Diffley, J.,F.X., Remus, D., Loog, M., Ikui, A.E.„Cdc6 is sequentially regulated by PP2A-Cdc55, Cdc14, and Sic1 for origin licensing in S. Cerevisiae“. eLife, 11, ARTN e74437. DOI: 10.7554/eLife.74437.sa2.
• Asfaha, J.B., Örd, M., Carlson, C.R., Faustova, I., Loog, M.,. Morgan, D.O. „Multisite phosphorylation by Cdk1 initiates delayed negative feedback to control mitotic transcription“. Current Biology, 32 (1), 256−263. DOI: 10.1016/j.cub.2021.11.001.