Nucleic Acid <i>i-</i>Motif Structures in Analytical Chemistry

Alba, Joan Josep; Sadurní, Anna; Gargallo, Raimundo

doi:10.1080/10408347.2016.1143347

Cited by 59 publications

(45 citation statements)

References 81 publications

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“…The particular features of i-motif structures have inspired the design of nanotechnological systems for analytical and biomedical purposes ( 8–10 ). Many of these devices are based on the structural transitions that i-motif-forming oligonucleotides experience as a result of pH variations.…”

Section: Some Applications Of I-motif Structuresmentioning

confidence: 99%

“…These examples provide evidence of the compatibility of i-motif structures with the intracellular environment and highlight their potential as building blocks for nanobiotechnological applications. Indeed, some other i-motif-based nanodevices such as biosensors or drug release platforms have already been developed and serve as proof of principle for their application in vivo ( 8 , 9 , 131 ).…”

Section: Some Applications Of I-motif Structuresmentioning

confidence: 99%

“…In this review we focus on structural aspects of i-motif formation and recent studies that describe the possible role of i-motifs in cell biology. We will not extensively review the current uses of i-motif structures in nanotechnological applications, but we will provide a brief summary and refer the reader to excellent reviews on this subject ( 8–10 ).…”

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

i-Motif DNA: structural features and significance to cell biology

Assi

Garavís

González

et al. 2018

Nucleic Acids Research

327

292

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The i-motif represents a paradigmatic example of the wide structural versatility of nucleic acids. In remarkable contrast to duplex DNA, i-motifs are four-stranded DNA structures held together by hemi- protonated and intercalated cytosine base pairs (C:C+). First observed 25 years ago, and considered by many as a mere structural oddity, interest in and discussion on the biological role of i-motifs have grown dramatically in recent years. In this review we focus on structural aspects of i-motif formation, the factors leading to its stabilization and recent studies describing the possible role of i-motifs in fundamental biological processes.

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Section: Some Applications Of I-motif Structuresmentioning

confidence: 99%

Section: Some Applications Of I-motif Structuresmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

i-Motif DNA: structural features and significance to cell biology

Assi

Garavís

González

et al. 2018

Nucleic Acids Research

327

292

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“…Because of the potential applications of i‐motif structures, there is increasing interest in designing modified‐cytosine derivatives capable of forming stable i‐motifs, particularly at near‐neutral pH . One of the first modifications was the backbone‐modified derivative PNA .…”

Section: Discussionmentioning

confidence: 99%

Stabilization of Telomeric I‐Motif Structures by (2′S)‐2′‐Deoxy‐2′‐C‐Methylcytidine Residues

et al. 2017

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G-quadruplexes and i-motifs are tetraplex structures present in telomeres and the promoter regions of oncogenes. The possibility of producing nanodevices with pH-sensitive functions has triggered interest in modified oligonucleotides with improved structural properties. We synthesized C-rich oligonucleotides carrying conformationally restricted (2'S)-2'-deoxy-2'-C-methyl-cytidine units. The effect of this modified nucleoside on the stability of intramolecular i-motifs from the vertebrate telomere was investigated by UV, CD, and NMR spectroscopy. The replacement of selected positions of the C-core with C-modified residues induced the formation of stable intercalated tetraplexes at near-neutral pH. This study demonstrates the possibility of enhancing the stability of the i-motif by chemical modification.

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“…Advances in practical applications of IMs (mainly as elements of pH probes, hydrogels or nanomachines) have been summarized in several elegant reviews [ [14] , [15] , [16] , [17] , [18] ]. Notable recent examples of IM-based molecular tools and nanomachines include programmable i -switches, proton-sensitive ionic channels combined with chemical oscillators, containers for drug delivery and pH-controlled drug release, among others [ [19] , [20] , [21] , [22] , [23] ].…”

Section: Introductionmentioning

confidence: 99%

DNA i-Motifs With Guanidino-i-Clamp Residues: The Counterplay Between Kinetics and Thermodynamics and Implications for the Design of pH Sensors

Цветков

Zatsepin

Turaev

et al. 2019

Computational and Structural Biotechnology Journal

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I-motif structures, adopted by cytosine-rich DNA strands, have attracted considerable interest as possible regulatory elements in genomes. Applied science exploits the advantages of i -motif stabilization under acidic conditions: i -motif-based pH sensors and other biocompatible nanodevices are being developed. Two key characteristics of i -motifs as core elements of nanodevices, i.e. , their stability under physiological conditions and folding/unfolding rates, still need to be improved. We have previously reported a phenoxazine derivative ( i -clamp) that enhances the thermal stability of the i -motif and shifts the pH transition point closer to physiological values. Here, we performed i -clamp guanidinylation to further explore the prospects of clamp-like modifications in i -motif fine-tuning. Based on molecular modeling data, we concluded that clamp guanidinylation facilitated interstrand interactions in an i- motif core and ultimately stabilized the i -motif structure. We tested the effects of guanidino- i- clamp insertions on the thermal stabilities of genomic and model i- motifs. We also investigated the folding/unfolding kinetics of native and modified i -motifs under moderate, physiologically relevant pH alterations. We demonstrated fast folding/unfolding of native genomic and model i -motifs in response to pH stimuli. This finding supports the concept of i -motifs as possible genomic regulatory elements and encourages the future design of rapid-response pH probes based on such structures. Incorporation of guanidino- i -clamp residues at/near the 5′-terminus of i -motifs dramatically decreased the apparent unfolding rates and increased the thermal stabilities of the structures. This counterplay between the effects of modifications on i -motif stability and their effects on kinetics should be taken into account in the design of pH sensors.

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Nucleic Acid i-Motif Structures in Analytical Chemistry

Cited by 59 publications

References 81 publications

i-Motif DNA: structural features and significance to cell biology

i-Motif DNA: structural features and significance to cell biology

Stabilization of Telomeric I‐Motif Structures by (2′S)‐2′‐Deoxy‐2′‐C‐Methylcytidine Residues

DNA i-Motifs With Guanidino-i-Clamp Residues: The Counterplay Between Kinetics and Thermodynamics and Implications for the Design of pH Sensors

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