The melting curves of calf thymus-DNA are buffer specific

Mura, Monica; Carucci, Cristina; Marincola, Flaminia Cesare; Monduzzi, Maura; Parsons, Drew F.; Salis, Andrea

doi:10.1016/j.jcis.2022.10.018

Cited by 4 publications

(5 citation statements)

References 77 publications

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“…From QCM data, with no added salt and in the presence of K + , Na + or Li + DNA adsorption follows the specific buffer trend: citrate > phosphate > Tris > HEPES. A similar order was found for the intermolecular interactions among proteins [21], lysozyme adsorption on mesoporous silica [76], and as well with DNA thermal stability [29].…”

Section: Discussionsupporting

confidence: 73%

“…Similar observations were made in other systems as, for example, pH measurements [19] or the electrophoretic mobility of lysozyme [20]. More recently, "specific buffer effects" have been investigated in more detail and new interesting results have emerged [21][22][23][24][25][26][27][28][29]. All these findings put serious doubts on the validity and predictive capacity of the basic theories of strong (Debye-Hückel) and weak (Henderson-Hasselbalch) electrolytes [30].…”

Section: Introductionsupporting

confidence: 53%

“…On the contrary, zwitterionic HEPES buffer could not work through this mechanism. In summary, this work goes beyond previous works regarding buffer effects on lipid bilayers [33,34,77] or DNA [29], examining for the first time simultaneous specific cation and buffer effects on DNA-SLB interactions. A suitable choice of strong (KCl) and weak (citrate or phosphate) electrolytes at physiological pH can maximize DNA-SLB interactions.…”

Section: Discussionmentioning

confidence: 95%

See 2 more Smart Citations

Cation and buffer specific effects on the DNA-lipid interaction

Mura

Humphreys

Gilbert

et al. 2023

Colloids and Surfaces B: Biointerfaces

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Section: Discussionsupporting

confidence: 73%

Section: Introductionsupporting

confidence: 53%

Section: Discussionmentioning

confidence: 95%

See 1 more Smart Citation

Cation and buffer specific effects on the DNA-lipid interaction

Mura

Humphreys

Gilbert

et al. 2023

Colloids and Surfaces B: Biointerfaces

Self Cite

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“…The same thermal stability enhancement hierarchy was observed in all cases (Table S1). A recent report has summarized the effects of different buffers on DNA melting and developed a theoretical model to explain how buffers alone can have an impact on the DNA stability. Buffer ion effects on DNA stability/melting can be impacted by their valency, electrostatic interactions, and ionic dispersion forces, and different buffers can also differentially affect solution properties, such as viscosity.…”

Section: Resultsmentioning

confidence: 99%

Thermodynamics of d(GGGGCCCC) Binding to Neomycin-Class Aminoglycosides

Conner,

Fuller,

Kellish

et al. 2023

Biochemistry

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DNA adopts a number of conformations that can affect its binding to other macromolecules. The conformations (A, B, Z) can be sequence-and/or solution-dependent. While AT-rich DNA sequences generally adopt a Canonical Bform structure, GC-rich sequences are more promiscuous. Recognition of GC-rich nucleic acids by small molecules has been much more challenging than the recognition of AT-rich duplexes. Spectrophotometric and calorimetric techniques were used to characterize the binding of neomycin-class aminoglycosides to a GCrich DNA duplex, G 4 C 4 , in various ionic and pH conditions. Our results reveal that binding enhances the thermal stability of G 4 C 4 , with thermal enhancement decreasing with increasing pH and/or Na + concentration. Although G 4 C 4 bound to aminoglycosides demonstrated a mixed A-and B-form conformation, circular dichroism studies indicate that binding induces a conformational shift toward Aform DNA. Isothermal titration calorimetry studies reveal that aminoglycoside binding to G 4 C 4 is linked to the uptake of protons at pH = 7.0 and that this uptake is pH-dependent. Increased pH and/or Na + concentration results in a decrease in G 4 C 4 affinity for the aminoglycosides. The binding affinities of the aminoglycosides follow the expected hierarchy: neomycin > paromomycin > ribostamycin. The salt dependence of DNA binding affinities of aminoglycosides is consistent with at least two drug NH 3 + groups participating in electrostatic interactions with G 4 C 4 . These studies further embellish our understanding of the many factors facilitating recognition of GC-rich DNA structures as guided by their optimum charge and shape complementarity for small-molecule amino sugars.

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“…Changes in the structure of the DNA molecules led to changes in their conformation and physical properties (absorption and melting point). The DNA melting temperature (T m ) is defined as the temperature at which half of the double-helical DNA structure is unfolded to two individual strands [ 27 ]. On one hand, strong intercalation can stabilize the double helix of DNA, resulting in a 5–10 °C increase in T m .…”

Section: Resultsmentioning

confidence: 99%

Aggregation, Cytotoxicity and DNA Binding in a Series of Calix[4]arene Amphiphile Containing Aminotriazole Groups

et al. 2023

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The present work focuses on the study of the aggregation and complexing properties of calixarenes as potential DNA condensation agents for gene delivery. In the current study, 1,4-triazole derivatives of calix[4]arenes 7 and 8 containing monoammonium fragments were synthesized. The synthesized compound’s structure was characterized by using various spectroscopic techniques (FTIR, HRESI MS, ¹H NMR and ¹³C NMR). The interactions between a series of calix[4]arene-containing aminotriazole groups (triazole-containing macrocycles with diethylenetriammonium fragments (3 and 4) and triazole-containing macrocycles with monoammonium fragments (7 and 8)) and calf thymus DNA were carried out via UV absorption, fluorescence spectroscopy, dynamic light scattering and zeta potential measurements. The role of the binding forces of calixarene–DNA complexes was analyzed. Photophysical and morphological studies revealed the interaction of the calixarenes 3, 4 and 8 with ct-DNA, which transformed the fibrous structure of ct-DNA to completely condensed compact structures that are 50 nm in diameter. The cytotoxic properties of calixarenes 3, 4, 7 and 8 against cancerous cells (MCF7, PC-3) as well as a healthy cell line (HSF) were investigated. Compound 4 was found to have the highest toxic effect on MCF7 breast adenocarcinoma (IC50 3.3 μM).

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The melting curves of calf thymus-DNA are buffer specific

Cited by 4 publications

References 77 publications

Cation and buffer specific effects on the DNA-lipid interaction

Cation and buffer specific effects on the DNA-lipid interaction

Thermodynamics of d(GGGGCCCC) Binding to Neomycin-Class Aminoglycosides

Aggregation, Cytotoxicity and DNA Binding in a Series of Calix[4]arene Amphiphile Containing Aminotriazole Groups

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