Extended H-Bonding through Protic Ionic Liquids Facilitates the Growth and Stability of Water Domains in Hydrophobic Environment

Toward Greater DNA Stability by Leveraging the Proton-Donating Ability of Protic Ionic Liquids

Deoxyribonucleic acid (DNA) stability is a prerequisite in many applications, ranging from DNA-based vaccines and data storage to gene therapy. However, the strategies to enhance DNA stability are limited, and the underlying mechanisms are poorly understood. Ionic liquids (ILs), molten salts of organic cations and organic/inorganic anions, are showing tremendous prospects in myriads of applications. With a judicious choice of constituent ions, the protic nature of ILs can be tuned. In this work, we investigate the relative stability of full-length genomic DNA in aqueous IL solutions of increasing protic nature. Our experimental measurements show that the protic ionic liquids (PILs) enhance the DNA melting temperature significantly while unaltering its native B-conformation. Molecular dynamics simulations and quantum mechanical calculation results suggest that the intramolecular Watson-Crick H-bonding in DNA remains unaffected and, in addition, the PILs induce stronger H-bonding networks in solution through their ability to make multiple intermolecular H-bonds with the nucleobases and among its constituent ions, thus aiding greater DNA stability. The detailed understanding obtained from this study could bring about the much-awaited breakthrough in improved DNA stability for its sustained use in the aforesaid applications!

Structural Transitions at the Water/Oil Interface by Ionic-Liquid-like Surfactant, 1-Butyl-3-methylimidazolium Dioctyl Sulfosuccinate: Measurements and Mechanism

Reverse micelle (RM) aggregates have a wide range of applications in various areas of science and technology. A continuous demand exists to replace interfacial surfactant molecules with various nonconventional amphiphiles. Ionic liquid (IL)-like surfactants (IL-surf's) constitute a class of such molecules that are being researched extensively. Here, we have formulated several water/IL-surf/oil microemulsions by optimizing the core droplet size with varying oil phases. The best composition of water/[BMIM][AOT]/IPM ([BMIM][AOT]: 1-butyl-3-methylimidazolium dioctyl sulfosuccinate; IPM: isopropyl myristate) was then analyzed in detail through experimental and computer simulations. Our results from DLS measurements suggest a structural transition from spherical aggregates in the parent water/[Na][AOT]/IPM solution to cylindrical droplets in the IL-surf-based system. The Raman and ATR-FTIR spectral analysis suggest a variation in the microstructure of the water/oil interface due to the differential interaction of the counterions with AOT headgroups and water. Molecular dynamics simulation results provided the direct image of the interface showing a structured versus uneven water/oil interface in [Na][AOT] versus [BMIM][AOT] RMs, where the larger [BMIM] cations weakly bind with the AOT headgroups due to their low charge density. Finally, an application of this IL-surf-based formulation was tested by carrying out a Heck cross-coupling reaction that showed significantly higher yield under milder reaction conditions.

Effects of Ionic Liquids on Aqueous Urea Solutions: Insights into the Ionic Liquid-Assisted Protein Renaturation

Ionic liquids (ILs) are designer solvents that find wide applications in various areas. Recently, ILs have been shown to induce the refolding of certain proteins that were previously denatured under the treatment of urea. A molecular-level understanding of the counteracting mechanism of ILs on urea-induced protein denaturation remains elusive. In this study, we employ atomistic molecular dynamics simulations to investigate the ternary urea-water-IL solution in comparison to the aqueous urea solution to understand how the presence of ILs can modulate the structure, energetics, and dynamics of urea-water solutions. Our results show that the ions of the IL used, ethylammonium nitrate (EAN), interact strongly with urea and disrupt the urea aggregates that were known to stabilize the unfolded state of the proteins. Results also suggest a disruption in urea-water interaction that releases more free water molecules in solution. We subsequently strengthened these findings by simulating a model peptide in the absence and presence of EAN, which showed broken versus intact secondary structure in urea solution. Analyses show that these changes were accomplished by the added IL, which enforced a gradual displacement of urea from the peptide surface by water. We propose that the ILs facilitate protein renaturation by breaking down the urea aggregates and increasing the amount of free water molecules around the protein.