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Volumetric Properties of the Nucleoside Thymidine in Aqueous Solution at T = 298.15 K and p = (10 to 100) MPa

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Abstract

Sound speeds have been measured for aqueous solutions of the nucleoside thymidine at T = 298.15 K and at the pressures p = (10, 20, 40, 60, 80, and 100) MPa. The partial molar volumes at infinite dilution, \( V_{2}^{\text{o}} \), the partial molar isentropic compressions at infinite dilution, \( K_{S,2}^{\text{o}} \), and the partial molar isothermal compressions at infinite dilution, \( K_{T,2}^{\text{o}} \) \( \{ K_{T,2}^{\text{o}} = - (\partial V_{2}^{\text{o}} /\partial p)_{T} \} \), have been derived from the sound speeds at elevated pressures using methods described in our previous work. The \( V_{2}^{\text{o}} \) and \( K_{T,2}^{\text{o}} \) results were rationalized in terms of the likely interactions between thymidine and the aqueous solvent. The \( V_{2}^{\text{o}} \) results were also compared with those calculated using the revised Helgeson–Kirkham–Flowers (HKF) equation of state.

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References

  1. Robertson, M.P., Joyce, G.F.: The origins of the RNA world. Cold Spring Harbor Perspect. Biol. 4, a003608 (2012)

    Article  Google Scholar 

  2. Dworkin, J.P., Lazcano, A., Miller, S.L.: The roads to and from the RNA world. J. Theor. Biol. 222, 127–134 (2003)

    Article  CAS  Google Scholar 

  3. Bartel, D.P., Unrau, P.J.: Constructing an RNA world. Trends Cell Biol. 9, M9–M13 (1999)

    Article  CAS  Google Scholar 

  4. Joyce, G.F.: The antiquity of RNA-based evolution. Nature 418, 214–221 (2002)

    Article  CAS  Google Scholar 

  5. Cech, T.R.: The RNA worlds in context. Cold Spring Harbor Perspect. Biol. 4, a006742 (2012)

    Article  Google Scholar 

  6. Kawamura, K.: Drawbacks of the ancient RNA-based life-like system under primitive earth conditions. Biochimie 94, 1441–1450 (2012)

    Article  CAS  Google Scholar 

  7. Francis, B.R.: An alternative to the RNA world hypothesis. Trends Evol. Biol. 3, 2–11 (2011)

    Article  CAS  Google Scholar 

  8. Powner, M.W., Sutherland, J.D., Szostak, J.W.: Chemoselective multicomponent one-pot assembly of purine precursors in water. J. Am. Chem. Soc. 132, 16677–16688 (2010); erratum in J. Am. Chem. Soc. 133, 4149–4150 (2011)

    Article  CAS  Google Scholar 

  9. Powner, M.W., Gerland, B., Sutherland, J.D.: Synthesis of activated pyrimidine ribonucleotides in prebiotically plausible conditions. Nature 459, 239–242 (2009)

    Article  CAS  Google Scholar 

  10. Bowler, F.R., Chan, C.K.W., Duffy, C.D., Gerland, B., Islam, S., Powner, M.W., Sutherland, J.D., Xu, J.: Prebiotically plausible oligoribonucleotide ligation facilitated by chemoselective acetylation. Nature Chem. 5, 383–389 (2013)

    Article  CAS  Google Scholar 

  11. Levy, M., Miller, S.L.: The stability of the RNA bases: implications for the origin of life. Proc. Natl. Acad. Sci. USA 95, 7933–7938 (1998)

    Article  CAS  Google Scholar 

  12. Moulton, V., Gardner, P.P., Pointon, R.F., Creamer, L.K., Jameson, G.B., Penny, D.: RNA folding argues against a hot-start origin of life. J. Mol. Evol. 51, 416–421 (2000)

    CAS  Google Scholar 

  13. Bada, J.L.: How life began on earth: a status report. Earth Planet Sci. Lett. 226, 1–15 (2004)

    Article  CAS  Google Scholar 

  14. Bernhardt, H.S., Tate, W.P.: Primordial soup or vinaigrette: did the RNA world evolve at acidic pH? Biol. Direct 7, 4 (2012)

    Article  CAS  Google Scholar 

  15. Hedwig, G.R., Høgseth, E., Høiland, H.: Volumetric properties of the glycyl group of proteins in aqueous solution at high pressures. Phys. Chem. Chem. Phys. 10, 884–897 (2008)

    Article  CAS  Google Scholar 

  16. Hedwig, G.R., Høgseth, E., Høiland, H.: Volumetric properties of the nucleosides adenosine, cytidine, and uridine in aqueous solution at T = 298.15 K and p = (10 to 120 MPa). J. Chem. Thermodyn. 61, 117–125 (2013)

    Article  CAS  Google Scholar 

  17. Tewari, Y.B., Klein, R., Vaudin, M.D., Goldberg, R.N.: Saturation molalities and standard molar enthalpies of solution of adenosine(cr), guanosine·2H2O(cr), inosine(cr), and xanthosine·2H2O(cr) in H2O(l). J. Chem. Thermodyn. 35, 1681–1702 (2003)

    Article  CAS  Google Scholar 

  18. Jühling, F., Möri, M., Hartmann, R.K., Sprinzl, M., Stadler, P.F., Pütz, J.: tRNAdb 2009: compilation of tRNA sequences and tRNA genes. Nucl. Acids Res. 37, D159–D162 (2009)

    Article  Google Scholar 

  19. Hedwig, G.R., Jameson, G.B., Høiland, H.: The partial molar heat capacity, expansion, isentropic, and isothermal compressions of thymidine in aqueous solution at T = 298.15 K. J. Chem. Thermodyn. 43, 1936–1941 (2011)

    Article  CAS  Google Scholar 

  20. Blandamer, M.J., Davis, M.I., Douhéret, G., Reis, J.C.R.: Apparent molar isentropic compressions and expansions of solutions. Chem. Soc. Rev. 30, 8–15 (2001)

    Article  CAS  Google Scholar 

  21. Desnoyers, J.E., Philip, P.R.: Isothermal compressibilities of aqueous solutions of tetraalkylammonium bromides. Can. J. Chem. 50, 1094–1096 (1972)

    Article  CAS  Google Scholar 

  22. McGlashan, M.L.: Chemical Thermodynamics, p. 90. Academic Press, London (1979)

    Google Scholar 

  23. Povey, M.J.W.: Ultrasonic Techniques for Fluids Characterization, p. 26. Academic Press, London (1997)

    Google Scholar 

  24. Stimson, H.F.: Heat units and temperature scales for calorimetry. Am. J. Phys. 23, 614–622 (1955)

    Article  CAS  Google Scholar 

  25. Del Grosso, V.A., Mader, C.W.: Speed of sound in pure water. J. Acoust. Soc. Am. 52, 1442–1446 (1972)

    Article  Google Scholar 

  26. Kell, G.S.: Precise representation of volume properties of water at one atmosphere. J. Chem. Eng. Data 12, 66–69 (1967)

    Article  CAS  Google Scholar 

  27. Kell, G.S.: Density, thermal expansivity, and compressibility of liquid water from 0 to 150 °C: correlations and tables for atmospheric pressure and saturation reviewed and expressed on 1968 temperature scale. J. Chem. Eng. Data 20, 97–105 (1975)

    Article  CAS  Google Scholar 

  28. Bevington, P.R.: Data Reduction and Error Analysis for the Physical Sciences. McGraw-Hill, New York (1969)

    Google Scholar 

  29. Chen, C.-T., Millero, F.J.: Reevaluation of Wilson’s sound-speed measurements for pure water. J. Acoust. Soc. Am. 60, 1270–1273 (1976)

    Article  Google Scholar 

  30. Chen, C.-T., Fine, R.A., Millero, F.J.: The equation of state of pure water determined from sound speeds. J. Chem. Phys. 66, 2142–2144 (1977)

    Article  CAS  Google Scholar 

  31. Hedwig, G.R.: Thermodynamic properties of peptide solutions 3. Partial molar volumes and partial molar heat capacities of some tripeptides in aqueous solution. J. Solution Chem. 17, 383–397 (1988)

    Article  CAS  Google Scholar 

  32. Harned, H.S., Owen, B.B.: The Physical Chemistry of Electrolyte Solutions. Chap. 8, 3rd edn. Reinhold, New York (1958)

    Google Scholar 

  33. Hedwig, G.R., Høiland, H.: Thermodynamic properties of peptide solutions: 7. Partial molar isentropic pressure coefficients of some dipeptides in aqueous solution. J. Solution Chem. 20, 1113–1127 (1991)

    Article  CAS  Google Scholar 

  34. Lo Surdo, A., Shin, C., Millero, F.J.: The apparent molal volume and adiabatic compressibility of some organic solutes in water at 25 °C. J. Chem. Eng. Data 23, 197–201 (1978)

    Article  CAS  Google Scholar 

  35. Sakurai, M., Nakamura, K., Nitta, K., Takenaka, N.: Sound velocities and apparent molar adiabatic compressions of alcohols in dilute aqueous solutions. J. Chem. Eng. Data 40, 301–310 (1995)

    Article  CAS  Google Scholar 

  36. Hedwig, G.R., Hinz, H.-J.: Group additivity schemes for the calculation of the partial molar heat capacities and volumes of unfolded proteins in aqueous solution. Biophys. Chem. 100, 239–260 (2003)

    Article  CAS  Google Scholar 

  37. Hedwig, G.R., Jameson, G.B., Høiland, H. (manuscript in preparation)

  38. Lee, A., Chalikian, T.V.: Volumetric characterization of the hydration properties of heterocyclic bases and nucleosides. Biophys. Chem. 92, 209–227 (2001)

    Article  CAS  Google Scholar 

  39. Buckin, V.A., Kankiya, B.I., Kazaryan, R.L.: Hydration of nucleosides in dilute aqueous solutions. Ultrasonic velocity and density measurements. Biophys. Chem. 34, 211–223 (1989)

    Article  CAS  Google Scholar 

  40. Hedwig, G.R.: Thermodynamic properties of peptide solutions 19. Partial molar isothermal compressions at T = 298.15 K of some peptides of sequence Gly-X-Gly in aqueous solution. J. Chem. Thermodyn. 42, 208–212 (2010)

    Article  CAS  Google Scholar 

  41. Hedwig, G.R., Høiland, H.: Partial molar isentropic compressions of some tetra- and pentapeptides in aqueous solution: implications for group additivity schemes for unfolded proteins. J. Solution Chem. 41, 690–701 (2012)

    Article  CAS  Google Scholar 

  42. Chalikian, T.V., Sarvazyan, A.P., Breslauer, K.J.: Hydration and partial molar compressibility of biological compounds. Biophys. Chem. 51, 89–109 (1994)

    Article  CAS  Google Scholar 

  43. Kharakoz, D.P.: Volumetric properties of proteins and their analogues in diluted water solutions. 2. Partial adiabatic compressibilities of amino acids at 15–70 °C. J. Phys. Chem. 95, 5634–5642 (1991)

    Article  CAS  Google Scholar 

  44. Millero, F.J., Lo Surdo, A., Shin, C.: The apparent molal volumes and adiabatic compressibilities of aqueous amino acids at 25 °C. J. Phys. Chem. 82, 784–792 (1978)

    Article  CAS  Google Scholar 

  45. Tanger, J.C., Helgeson, H.C.: Calculation of the thermodynamic and transport properties of aqueous species at high pressures and temperatures: revised equations of state for the standard partial molal properties of ions and electrolytes. Am. J. Sci. 288, 19–98 (1988)

    Article  CAS  Google Scholar 

  46. Shock, E.L., Helgeson, H.C.: Calculation of the thermodynamic and transport properties of aqueous species at high pressures and temperatures: correlation algorithms for ionic species and equation of state predictions to 5 kb and 1000 °C. Geochim. Cosmochim. Acta 52, 2009–2036 (1988)

    Article  CAS  Google Scholar 

  47. Shock, E.L., Oelkers, E.H., Johnson, J.W., Sverjensky, D.A., Helgeson, H.C.: Calculation of the thermodynamic and transport properties of aqueous species at high pressures and temperatures: effective electrostatic radii, dissociation constants and standard partial molal properties to 1000 °C and 5 kbar. J. Chem. Soc. Faraday Trans. 88, 803–826 (1992)

    Article  CAS  Google Scholar 

  48. Shock, E.L., Helgeson, H.C.: Calculation of the thermodynamic and transport properties of aqueous species at high pressures and temperatures: standard partial molal properties of organic species. Geochim. Cosmochim. Acta 54, 915–945 (1990)

    Article  CAS  Google Scholar 

  49. LaRowe, D.E., Helgeson, H.C.: Biomolecules in hydrothermal systems: calculation of the standard molal thermodynamic properties of nucleic-acid bases, nucleosides, and nucleotides at elevated temperatures and pressures. Geochim. Cosmochim. Acta 70, 4680–4724 (2006)

    Article  CAS  Google Scholar 

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Acknowledgments

Two of us (G.R.H., G.B.J.) are grateful for financial assistance from the Marsden Fund (Contract No. 09-MAU-140).

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Correspondence to Gavin R. Hedwig.

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Hedwig, G.R., Jameson, G.B. & Høiland, H. Volumetric Properties of the Nucleoside Thymidine in Aqueous Solution at T = 298.15 K and p = (10 to 100) MPa. J Solution Chem 43, 804–820 (2014). https://doi.org/10.1007/s10953-014-0162-7

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