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Elżbieta Sochacka's Research Group

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ORCID: https://orcid.org/0000-0003-3240-1143

Publications

Different Oxidation Pathways of 2-Selenouracil and 2-Thiouracil, Natural Components of Transfer RNA.

Kulik, K., Sadowska, K., Wielgus, E., Pacholczyk-Sienicka, B., Sochacka, E., Nawrot, B. Int. J. Mol. Sci. 2020, 21(17), 5956.

Synthesis of Nucleobase-Modified RNA Oligonucleotides by Post-Synthetic Approach.

Bartosik, K., Debiec, K., Czarnecka, A., Sochacka, E., Leszczynska, G. Molecules 2020, 25(15), 3344

C5-Substituted 2-Selenouridines Ensure Efficient Base Pairing with Guanosine; Consequences for Reading the NNG-3' Synonymous mRNA Codons.

Leszczynska, G., Cypryk, M., Gostynski, B., Sadowska, K., Herman. P., Bujacz, G., Lodyga-Chuscinska, E., Sochacka, E., Nawrot, B. Int. J. Mol. Sci. 2020, 21(8), 2882.

Chemical Synthesis of Oligoribonucleotide (ASL of tRNA ^Lys T. brucei) Containing a Recently Discovered Cyclic Form of 2-Methylthio-N 6 -threonylcarbamoyladenosine (ms²ct⁶A).

Debiec, K., Matuszewski, M., Podskoczyj, K., Leszczynska, G., Sochacka, E. E. Chem. Eur. J. . 2019, 25(58), 13309-13317.

Nano LC-MS using capillary columns enables accurate quantification of modified ribonucleosides at low femtomol levels.

Sarin, LP., Kienast, SD., Leufken, J., Ross, RL., Dziergowska, A., Debiec, K., Sochacka, E., Limbach, PA., Fufezan, C., Drexler, HCA., Leidel, SA. RNA 2018, 24(10), 1403-1417.

Escherichia coli tRNA 2-selenouridine synthase (SeIU) converts S2U-RNA to Se2U-RNA via S-geranylated-i ntermediate.

Sierant, M., Leszczynska, G., Sadowska, K., Komar, P., Radzikowska-Cieciura, E., Sochacka, E., Nawrot, B. FEBS Lett. 2018, 592(13), 2248-2258.

Cytochromec Catalyzes the Hydrogen Peroxide-Assisted Oxidative Desulfuration of 2-Thiouridines in Transfer RNAs.

Sierant, M., Kulik, K., Sochacka, E., Szewczyk, R., Sobczak, M., Nawrot, B. Chembiochem 2018, 19(7), 687-695.

Efficient conversion of N⁶-threonylcarbamoyladenosine (t⁶A) into a tRNA native hydantoin cyclic form (ct⁶A) performed at nucleoside and oligoribonucleotide levels

Matuszewski, M., Debiec, K., Sochacka, E. Chem. Commun. 2017, 53(56), 7945-7948.

Reaction of S-geranyl-2-thiouracil modified oligonucleotides with alkyl amines leads to the N2-alkyl isocytosine derivatives.

Leszczynska, G., Sadowska, K., Sierant, M., Sobczak, M., Nawrot, B., Sochacka, E. Org. Biomol. Chem. 2017, 15(25), 5332-5336.

C5-substituents of uridines and 2-thiouridines present at the wobble position of tRNA determine the formation of their keto-enol or zwitterionic forms - a factor important for accuracy of reading of guanosine at the 3 '-end of the mRNA codons.

Sochacka, E., Lodyga-Chruscinska, E., Pawlak, J., Cypryk, M., Bartos, P., Ebenryter-Olbinska, K., Leszczynska, G., Nawrot, B. Nucleic Acids Res. 2017, 45(8), 4825-4836.

Identification of 2-methylthio cyclic N⁶-threonylcarbamoyladenosine (ms²ct⁶A) as a novel RNA modification at position 37 of tRNAs.

Kang, B., Miyauchi, K., Matuszewski, M., D'Almeida, GS., Rubio, MAT., Alfonzo, JD., Inoue, K., Sakaguchi, Y., Suzuki, T., Sochacka, E., Suzuki, T. Nucleic Acids Res. 2017, 45(4), 2124-2136.

A hydantoin isoform of cyclic N6-threonylcarbamoyladenosine (ct6A) is present in tRNAs.

Matuszewski, M., Wojciechowski, J., Miyauchi, K., Gdaniec, Z., Wolf, WM., Suzuki, T., Sochacka, E, Nucleic Acids Res. 2017, 4(4), 2137-2149.

Post-synthetic conversion of 5-pivaloyloxymethyluridine present in a support-bound RNA oligomer into biologically relevant derivatives of 5-methyluridine.

Bartosik, K., Sochacka, E., Leszczynska, G. Org. Biomol. Chem. 2017, 15(9), 2097-2103.

S-Geranyl-2-thiouridine wobble nucleosides of bacterial tRNAs; chemical and enzymatic synthesis of S-geranylated-RNAs and their physicochemical characterization.

Sierant, M., Leszczynska, G., Sadowska, K., Dziergowska, A., Rozanski, M., Sochacka, E., Nawrot, B., Nucleic Acids Res. 2016, 44(22), 10986-10998.

Nucleoside modifications in the regulation of gene expression: focus on tRNA.

Duechler, M., Leszczynska, G., Sochacka, E., Nawrot, B, Cell Mol Life Sci. 2016, 73(16), 3075-3095.

MS/MS analysis as a tool for oxidative stress biomarker identification and profiling.

Szewczyk, R., Slaba, M., Sobon, A., Bernat, P., Rozalska, S., Sierant, M., Sochacka, E., Nawrot, B., Dlugonski, J. NEW BIOTECHNOLOGY 2016, 33, S22-S22.

S-Geranylated 2-Thiouridines of Bacterial tRNAs: Chemical Synthesis and Physicochemical Properties.

Leszczynska, G., Sadowska, K., Bartos, P., Nawrot, B., Sochacka, E. Eur. J. Org. Chem. 2016, 21, 3482-3485.

The influence of the C5 substituent on the 2-thiouridine desulfuration pathway and the conformational analysis of the resulting 4-pyrimidinone products.

Bartos, P., Ebenryter-Olbinska, K., Sochacka, E., Nawrot, B. Bioorg. Med. Chem. 2015, 23(17), 5587-5594.

DNA binding and cleavage studies of copper(II) complexes with 2'-deoxyadenosine modified histidine moiety.

Borowska, J., Sierant, M., Sochacka, E., Sanna, D., Lodyga-Chruscinska, E. J. Biol. Inorg. Chem. 2015, 20(6), 989-1004.

An efficient approach for conversion of 5-substituted 2-thiouridines built in RNA oligomers into corresponding desulfured 4-pyrimidinone products.

Chwialkowska, A., Wielgus, E., Leszczynska, G., Sobczak, M., Mikolajczyk, B., Sochacka, E., Nawrot, B. Bioorg. Med. Chem. Lett. 2015, 25(16), 3100-3104.

2-Thiouracil deprived of thiocarbonyl function preferentially base pairs with guanine rather than adenine in RNA and DNA duplexes.

Sochacka, E., Szczepanowski, RH., Cypryk, M., Sobczak, M., Janicka, M., Kraszewska, K., Bartos, P., Chwialkowska, A., Nawrot, B. Nucleic Acids Res. 2015, 43(5), 2499-2512.

Contribution of dihydrouridine in folding of the D-arm in tRNA.

Dyubankova, N., Sochacka, E., Kraszewska, K.,Nawrot, B., Herdewijn, P., Lescrinier, E.,Org. Biomol. Chem., 2015, 13(17),4960-4966.

Transformation of a wobble 2-thiouridine to 2-selenouridine via S-geranyl-2-thiouridine as a possible cellular pathway.

Bartos, P., Maciaszek, A., Rosinska, A., Sochacka, E., Nawrot, B. Bioorg. Chem, 2014, 56, 49-53.

Efficient synthesis of 2 '-deoxyzebularine and its alpha-anomer by the silyl method of N-glycosylation. Crystal structures and conformational study in solution.

Ebenryter-Olbinska, K., Karolak-Wojciechowska, J., Sochacka, E. Carbohydrate Research 2014, 392, 7-15.

Stability studies on the newly discovered cyclic form of tRNA N⁶-threonylcarbamoyladenosine (ct⁶A).

Matuszewski, M., Sochacka, E. Bioorg. Med. Chem. Lett. 2014, 24(12), 2703-2706.

The possible pathway of oxone-mediated desulfurization of 2-thiouridine.

Bartos, P., Piotrowski, Ł., Nawrot, B., Pratviel, G., Sochacka, E., Coll. Czech. Chem. Commun., Symp. Series, 2014,14, 163-166.

Chemical transformation of 2-thiouridine into 2-selenouridine via newly discovered S-geranyl-2-thiouridine.

Rosińska, A., Maciaszek, A., Bartos, P., Sochacka, E., Nawrot, B., Coll. Czech. Chem. Commun., Symp. Series , 2014,14, 358-359.

Desulfuration of 2-thiouridine with hydrogen peroxide in the physiological pH range 6.6-7.6 is pH-dependent and results in two distinct products.

Sochacka, E., Bartos, P., Kraszewska, K., Nawrot, B. Bioorg. Med. Chem. Lett., 2013, 21, 5803-5805.

tRNA structural and functional changes induced by oxidative stress.

Nawrot, B., Sochacka, E., Duchler, M. Cell. Mol. Life Sci. 2011, 68(24), 4023-4032.

Desulfurization of 2-thiouracil nucleosides: Conformational studies of 4-pyrimidinone nucleosides.

Kraszewska, K., Kaczynska, I., Jankowski, S., Karolak-Wojciechowska, J., Sochacka, E. Bioorg. Med. Chem. 2011, 19(7), 2443-2449.

The 2-thiouridine unit in the RNA strand is desulfured predominantly to 4-pyrimidinone nucleoside under in vitro oxidative stress conditions.

Sochacka, E., Kraszewska, K., Sochacki, M., Sobczak, M., Janicka, M., Nawrot, B, Chem. Commun.2011, 47(17), 4914-4916.

2-Thiozebularine: base modified nucleoside fully constrained in C3 '-endo conformation in solution.

Ebenryter, K., Jankowski, S., Karolak-Wojciechowska, J., Fruzinski, A., Kazmierczak-Baranska, J., Nawrot, B., Sochacka, E. Coll. Czech. Chem. Commun., 2011, 76(9), 1103-1119.

Impact of histidine residue on chelating ability of 2'-deoxyriboadenosine.

Lodyga-Chruscinska, E., Oldziej, S., Sochacka, E., Korzycka, K., Chruscinski, L., Micera, G., Sanna, D., Turek, M., Pawlak, J., J. Inorg. Biochem., 2011, 105(9), 1212-1219.

Specific Silencing of L392V PSEN1 Mutant Allele by RNA Interference.

Sierant, M., Paduszynska, A., Kazmierczak-Baranska, J., Nacmias, B., Sorbi, S., Bagnoli, S., Sochacka, E., Nawrot, B., International Journal of Alzheimer's Disease, 2011, 2011, 809218.

Histamine modified 2 '-deoxyriboadenosine - Potential copper binding site in DNAzymes.

Lodyga-Chruscinska, E., Sochacka, E., Smuga, D., Chruscinski, L., Micera, G., Sanna, D., Turek, M., Gasiorkiewicz, M. J. Inorg. Biochem.2010, 104(5), 570-575.

RNA-cleaving 10-23 deoxyribozyme with a single amino acid-like functionality operates without metal ion cofactors.

Smuga, D., Majchrzak, K., Sochacka, E., Nawrot, B. NEW JOURNAL OF CHEMISTRY 2010, 34(5), 934-948.

Modulation of silencing activity of siRNAs by chemical modifications.

Kubiak, K., Kazmierczak-Baranska, J., Sochacka, E., Kierzek, R., Janicka, M., Brzuska, K., Nawrot, B. Collection Symposium Series 2008, 10, 264-267.

Acid-base and metal ion binding properties of 2-thiocytidine in aqueous solution.

Brasun J., Matera, A., Sochacka, E., Swiatek-Kozlowska, J., Kozlowski, H., Operschall, B.P., Sigel, H.J., Biol. Inorg. Chem., 2008, 13(5), 663-674.

Novel enamine derivatives of 5,6-dihydro-2 '-deoxyuridine formed in reductive amination of 5-formyl-2 '-deoxyuridine.

Sochacka, E., Smuga, D. Nucleosides Nucleotides & Nucleic Acids 2008, 27(9), 1045-1060.

Effect of base modifications on structure, thermodynamic stability, and gene silencing activity of short interfering RNA.

Sipa, K., Sochacka, E., Kazmierczak-Baranska, J., Maszewska, M., Janicka, M., Nowak, G., Nawrot, B., RNA, 2007, 13(8), 1301-1316.

Uracil ring opening in the reaction of 5-formyl-2'-deoxyuridine with primary alkyl amines.

Sochacka, E., Smuga, D., Tetrahedron Lett., 2007, 48(8), 1363-1367.

Synthesis of modified oligonucleotides for investigation of catalytic activity and substrate specificity of DNAzyme 10-23.

Sochacka, E., Leszczyńska, G., Miskiewicz, A., Frątczak, I., Smuga, D. Ann. Pol. Chem. Soc. 2004, 652-655.

Efficient desulfurization of 2-thiopyrimidine nucleosides to the corresponding 4-pyrimidinone analogues using trans-2-(phenylsulfonyl)-3-phenyloxaziridine.

Sochacka, E., Fratczak, I., Tetrahedron Lett.,2004, 45(36), 6729-6731.

Coordination of thiouridine monophosphates with selected metal ions.

Swiatek-Kozlowska, J., Brasun, J., Dobosz, A., Sochacka, E., Glowacka, A., J. Inorg. Biochem., 2003, 93, 119-124.

Modyfikowane, katalityczne kwasy nukleinowe.

Leszczyńska, G., Sochacka, E., Biotechnologia, 2003, 2(61), 165-181.

Accurate translation of the genetic code depends on tRNA modified nucleosides.

Yarian, C., Townsend, H., Czestkowski, W., Sochacka, E., Malkiewicz, A, Guenther, R., Miskiewicz, A., Agris, P.F., J. Biol. Chem. 2002, 277(19), 16391-16395.

Efficient assessment of modified nucleoside stability under conditions of automated oligonucleotide synthesis: characterization of the oxidation and oxidative desulfurization of 2-thiouridine.

Sochacka, E., Nucleosides Nucleotides Nucleic Acids, 2001, 20, 1871-1879.

Synthesis and properties of uniquely modified oligoribonucleotides: yeast tRNA^Phe fragments with 6-methyluridine and 5,6-dimethyluridine at site-specific positions.

Sochacka, E., Czerwinska, G., Guenther, R., Cain, R., Agris, P., Małkiewicz, A. Nucleosides & Nucleotides 2000, 19(3), 515-522.

Functional anticodon architecture of human tRNA(Lys3) includes disruption of intraloop hydrogen bonding by the naturally occurring amino acid modification, t(6)A.

Stuart, J. W., Gdaniec, Z., Guenther, R., Marszalek, M., Sochacka, E., Malkiewicz, A., Agris, P. F., BIOCHEMISTRY, 2000, 39(44), 13396-13404.

Modified nucleoside dependent Watson-Crick and wobble codon binding by tRNA(UUU)(Lys) species.

Yarian, C., Marszalek, M., Sochacka, E., Malkiewicz, A., Guenther, R., Miskiewicz, A., Agris, P.F., Biochemistry, 2000, 39(44), 13390-13395.

Modified constructs of the tRNA T Psi C domain to probe substrate conformational requirements of m(1)A(58) and m(5)U(54) tRNA methyltransferases.

Sengupta, R., Vainauskas, S., Yarian, C., Sochacka, E., Malkiewicz, A., Guenther, R.H., Koshlap, K.M., Agris, P.F., Nucleic Acids Res., 2000, 28(6), 1374-1380.

Role of modified nucleosides of yeast tRNA(Phe) in ribosomal binding.

Ashraf, S.S., Guenther, R.H., Ansari, G., Malkiewicz, A., Sochacka, E., Agris, P.F., Cell Biochem. Biophys., 2000, 33(3), 241-252.

Structural and functional roles of the N1- and N3-protons of Yat tRNA’s position 39.

Yarian, C. S., Basti, M. M., Cain, R. J., Ansari, G., Guenther, R., Sochacka, E., Czerwińska, G., Małkiewicz, A., Agris, P. F. Nucleic Acids Res.1999, 27 (17), 3543-3549.

Thermodynamic conribution of nucleoside modifications to yeast tRNA^Phe anticodon stem loop analogs.

Agris, P. F., Guenther, R., Sochacka, E., Newman, W., Czerwinska, G., Liu, G., Ye, W., Malkiewicz, A. Acta Biochem. Pol. 1999, 46(1), 163 -172.

A distinctive RNA fold: The solution structure of an analogue of the yeast tRNA(Phe) T psi C domain.

Koshlap, K.M., Guenther, R., Sochacka, E., Malkiewicz, A., Agris P.F., Biochemistry,1999, 38(27), 8647-8656.

The uridine in "U-turn": Contributions to tRNA-ribosomal binding.

Ashraf, S.S.,Ansari, G., Guenther, R., Sochacka, E., Malkiewicz, A., Agris, P.F., RNA,1999, 5(4), 503-511.

Single atom modification (O → S) of tRNA confers ribosome binding.

Ashraf, S.S., Sochacka, E., Cain, R. Guenther, R., Malkiewicz, A., Agris, P.F., RNA, 1999, 5(2), 188-194.

The chemical synthesis of E-coli tRNA(Lys) anticodon loop fragment and its analogues.

Sochacka, E., Nucleosides & Nucleotides, 1998, 17, 327-338.

Unconventional structure of tRNA(Lys)SUU anticodon explains tRNA's role in bacterial and mammalian ribosomal frameshifting and primer selection by HIV-1.

Agris, P.F., Guenther, R., Ingram, P.C., Basti, M.M., Stuart, J.W.,Sochacka, E., Malkiewicz, A., RNA, 1997, 3(4), 420-428.

Role of sulfur site in metal binding to thiopurine and thiopyrimidine nucleosides.

Kowalik-Jankowska, T., Varnagy, K., Swiatek-Kozlowska, J., Jon, A., Sovago, I., Sochacka, E.,Malkiewicz, A., Spychala, J., Kozlowski, H., J. Inorg. Biochem.,1997, 65(4),257-262.

Ribosome binding of DNA analogs of tRNA requires base modifications and supports the "extended anticodon".

Dao, V., Guenther, R., Malkiewicz, A., Nawrot, B., Sochacka, E., Kraszewski, A., Jankowska, J., Everett, K., Agris, P.F., Proc. Natl. Acad. Sci. U. S. A., 1994, 91(6), 2125-2129.

Aminoacyl-tRNA synthetase and U54 methyltransferase recognize conformations of the yeast tRNA(Phe) anticodon and T stem/loop domain.

Guenther, R.H., Bakal, R.S., Forrest, B., Chen, Y., Sengupta, R., Nawrot, B. Sochacka, E., Jankowska, J.,Kraszewski, A., Malkiewicz, A., Agris, P.F., Biochimie, 1994,76(12), 1143-1151.

Presence and coding properties of 2'-O-methyl-5-carbamoylmethyluridine (ncm5Um) in the wobble position of the anticodon of tRNA(Leu) (UAA) from brewer’s yeast.*

Glasser, A.L., Eladlouni, C., Keith, G., Sochacka, E., Malkiewicz, A., Santos, M., Tuite, M.F., Desgres, J., FEBS Lett., 1992, 314(3), 381-385.

Chemistry and structure of modified uridine dinucleosides are determined by thiolation.

Smith, W.S., Sierzputowska-Gracz, H., Sochacka, E., Malkiewicz, A., Agris, P.F., J. Am. Chem. Soc. 1992, 114(21), 7989-7997.

The tRNA “wobble position” uridines. IV. The synthesis of 2’-O-methyl- 5-methoxycarbonylmethyluridine and its derivatives.

Sochacka, E., Małkiewicz, A., Nucleosides & Nucleotides, 1990, 9, 793-802.

Synthesis of 1-methyl-5-(3-azido-2,3-dideoxy-beta-D-erythro-pentofuranosyl)uracil and 1-methyl-5-(3-azido-2,3-dideoxy-2-fluoro-beta-D-arabinofuranosyl)uracil. The C-nucleoside isostere of 3'-azido-3'-deoxythymidine and its 2'-"up"-fluoro analogue.

Sochacka, E., Nawrot, B., Pankiewicz, K.W., Watanabe, K.A., J. Med. Chem., 1990, 33(7), 1995-1999.

Nucleosides. CXLVIII. Synthesis of 6-(beta-D-ribofuranosyl)picolinamide. A novel C-nucleoside from D-ribonolactone.

Kabat, M.M., Pankiewicz, K.W., Sochacka, E., Watanabe, K.A., Chem. Pharm. Bull., 1988, 36(2), 634-640.

The synthesis of tRNA sup (UGA) anticodons with the 2-thiouridine derivatives as the 'first letter'.

Małkiewicz, A.J., Nawrot, B., Sochacka, E., Nucleic Acids Symp Ser., 1987, 97-100.

Studies directed toward the synthesis of 2'-deoxy-2'-substituted arabino nucleosides.

Pankiewicz, K.W., Nawrot, B., Sochacka, E., Watanabe, K.A., Nucleic Acids Symp. Ser., 1987, 257-260.

Transformation of some tRNA "wobble uridines" to their 2-thioanalogues.

Małkiewicz, A.J., Nawrot, B., Sochacka, E., Z. Naturforsch., 1987,42b, 360-366.

The modified nucleosides from the „wobble position” of tRNAs. The synthesis of 5-carboxymethylaminomethyluridine and 5-carboxymethylaminomethyl-2-thiouridine.

Malkiewicz, A.J., Sochacka, E., Sayed Ahmed, A.F., Yassin, S.,Tetrahedron Lett., 1983, 24, 5395-5398.

The protected derivatives of 5-methylaminomethyl-2-thiouridine and 5-carbomethoxymethyl-2-thiouridine as components for the oligonucleotide synthesis.

Malkiewicz, A.J., Sochacka, E.,Tetrahedron Lett., 1983, 24, 5397-5390.

Formation of the [b+41]+. ion in the mass spectra of 2-thiouridines.

Sochacki, M., Sochacka, E., Małkiewicz, A., Biomed Mass Spectrom. 1980, 7(6),257-258.