Evaluation of interaction between imidazolium-based chloride ionic liquids and calf thymus DNA

Liu, Huijun; Dong, Ying; Wu, Ji; Chen, Caidong; Liu, Dingdong; Du, Sheng

doi:10.1016/j.scitotenv.2016.05.087

Cited by 14 publications

(21 citation statements)

References 44 publications

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“…The opposite behavior of [Ch][Pro] than [Ch][Gly], [Ch][Ala], [Ch][Leu] and other aliphatic chain CAAILs could be due to different interaction patterns within ILs as explained by Gontrani et al 34,35,39 These DNA melting results cannot be attributed to groove binding only; rather, the possibility of other modes of noncovalent bindings are expected. 8…”

Section: Resultsmentioning

confidence: 99%

“…3−7 In addition, DNA bestows the suitable condition for protein synthesis. 8 Nucleic acids are not stable in aqueous solutions at room temperature for long periods (months) due to degradation of nucleobases and inherent chemical instability. 9−11 DNA in aqueous solutions denatures easily at non-physiological temperature, pH, and ionic strength, and small volumes of aqueous solutions at high temperature under open air condition undergo evaporation causing constraint to the DNA storage.…”

Section: Introductionmentioning

confidence: 99%

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Critical Assessment of the Interaction between DNA and Choline Amino Acid Ionic Liquids: Evidences of Multimodal Binding and Stability Enhancement

et al. 2018

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Long-term storage and stability of DNA is of paramount importance in biomedical applications. Ever since the emergence of ionic liquids (ILs) as alternate green solvents to aqueous and organic solvents, their exploration for the extraction and application of DNA need conscientious understanding of the binding characteristics and molecular interactions between IL and DNA. Choline amino acid ILs (CAAILs) in this regard seem to be promising due to their non-cytotoxic, completely biobased and environment-friendly nature. To unravel the key factors for the strength and binding mechanism of CAAILs with DNA, various spectroscopic techniques, molecular docking, and molecular dynamics simulations were employed in this work. UV–Vis spectra indicate multimodal binding of CAAILs with DNA, whereas dye displacement studies through fluorescence emission confirm the intrusion of IL molecules into the minor groove of DNA. Circular dichorism spectra show that DNA retains its native B-conformation in CAAILs. Both isothermal titration calorimetry and molecular docking studies provide an estimate of the binding affinity of DNA with CAAILs ≈ 4 kcal/mol. The heterogeneity in binding modes of CAAIL-DNA system with evolution of time was established by molecular dynamics simulations. Choline cation while approaching DNA first binds at surface through electrostatic interactions, whereas a stronger binding at minor groove occurs via van der Waals and hydrophobic interactions irrespective of anions considered in this study. We hope this result can encourage and guide the researchers in designing new bio-ILs for biomolecular studies in future.

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Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Critical Assessment of the Interaction between DNA and Choline Amino Acid Ionic Liquids: Evidences of Multimodal Binding and Stability Enhancement

et al. 2018

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“…Combining these two, several articles have been published describing the interaction of DNA with imidazolium, morpholinium, etc. based ILs [21][22][23][24][25][26][27][28][29]. For example, Liu and co-workers studied the impact of alkyl chain length present on imidazolium-based ILs [23] towards ct-DNA through extensive photophysical methods.…”

Section: Introductionmentioning

confidence: 99%

Interaction studies of cholinium-based ionic liquids with calf thymus DNA: Spectrophotometric and computational methods

Haque

Khan

Hassan

et al. 2017

Journal of Molecular Liquids

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“…A number of other publications have reported on the effect of various classes of ILs and deep eutectic solvents (DES) on the solvation properties, stability and packing of DNA [16][17][18][19] using both experimental and theoretical techniques. Several studies suggest that ionic liquids with cations based on imidazolium are good co-solvents able to improve the long-term and thermal stability of DNA [20][21][22][23][24]. The molecular mechanism of the interaction between this class of ILs and DNA has been extensively investigated by different authors [20][21][22][23][24] but there is not a fully agreement on the driving forces that dominate the binding mechanism.…”

Section: Introductionmentioning

confidence: 99%

Base-specific pre-melting and melting transitions of DNA in presence of ionic liquids probed by synchrotron-based UV resonance Raman scattering

Bottari

Catalini²,

Foggi

et al. 2021

Journal of Molecular Liquids

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Hydrated ionic liquids (ILs) have been identified as solvent media able to enhance the structural stability of deoxyribonucleic acid (DNA). In this work, we investigate the molecular interaction between imidazolium-based ILs and DNA during its thermal unfolding pathway, by exploiting synchrotron-based UV Resonance Raman scattering (UVRR) experiments. This technique gives a selective focus on the thermal responses of specific nucleobases in the structure of DNA providing the experimental sensitivity to both cooperative and local structural changes occurring along the complex unfolding process of DNA. UVRR measurements probe two distinct temperature-dependent phenomena occurring in the DNA double-helix, i.e. a non-cooperative pre-melting mainly involving adenine bases and a cooperative melting transition primarily localized on guanine tracts. The analysis of Raman spectra reveals that both the cation and anion of the ionic liquids strongly interact with the structure of DNA, thus affecting the melting process but not perturbing the pre-melting transition that precedes the complete separation of the strands of DNA. Overall these results suggest that the dominant interaction occurs between the imidazolium cation and the bases of guanine and thymine in the structure of DNA, in agreement with previous results of molecular dynamics simulations.

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Evaluation of interaction between imidazolium-based chloride ionic liquids and calf thymus DNA

Cited by 14 publications

References 44 publications

Critical Assessment of the Interaction between DNA and Choline Amino Acid Ionic Liquids: Evidences of Multimodal Binding and Stability Enhancement

Critical Assessment of the Interaction between DNA and Choline Amino Acid Ionic Liquids: Evidences of Multimodal Binding and Stability Enhancement

Interaction studies of cholinium-based ionic liquids with calf thymus DNA: Spectrophotometric and computational methods

Base-specific pre-melting and melting transitions of DNA in presence of ionic liquids probed by synchrotron-based UV resonance Raman scattering

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