Cu-DNAzyme facilitates highly sensitive immunoassay

Shan, Zhi; Lyu, Mingsheng; Curry, Dennis E.; Oakley, David; Oakes, Ken D.; Zhang, Xu

doi:10.1016/j.cclet.2019.05.037

Cited by 12 publications

(8 citation statements)

References 34 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…DNAzymes or catalytic DNAs were developed to replace protein enzymes and ribozymes in practical applications due to a higher chemical stability and lower cost of DNA [1–6] . In particular, RNA‐cleaving DNAzymes have been actively exploited in biosensors for the detection of metal ions, which are required as cofactors to induce substrate cleavage [7–11] . Nevertheless, compared to natural ribonucleases, the catalytic activity of most DNAzymes is lower.…”

Section: Figurementioning

confidence: 99%

Modulation of DNAzyme Activity via Butanol Dehydration

Zandieh

Liu

2021

Chemistry An Asian Journal

View full text Add to dashboard Cite

Understanding the activity of biomolecules in cosolvent systems is important for catalysis, separation and developing biosensors. The majority of previously studied solvents are either phase separated with water or miscible with water. Butanol was recently used to extract water for the conjugation of DNA to gold nanoparticles. In this work, the effect of butanol on the activity of a few RNA‐cleaving DNAzymes was studied. A 130‐fold improvement in sensitivity for the Na+‐specific EtNa DNAzyme was observed, and butanol also improved the activity of another Na+‐specific DNAzyme, NaA43T by a few folds. However, when divalent metal ions were used for both EtNa and 17E DNAzymes, the activity was inhibited. A main driven force for enhanced DNAzyme activity is the concentration effect due to butanol dehydration. This study provides insights into the interplay between DNA, metal ions and organic solvents, and such an understanding might be useful for developing sensitive biosensors.

show abstract

Section: Figurementioning

confidence: 99%

Modulation of DNAzyme Activity via Butanol Dehydration

Zandieh

Liu

2021

Chemistry An Asian Journal

View full text Add to dashboard Cite

show abstract

“…Metal ions are indispensable for DNAzyme catalysis [6,19–23] . DNA is highly negatively charged and metal ions can stabilize various secondary structures of DNA [24–26] .…”

Section: Introductionmentioning

confidence: 99%

“…[15,18] Metal ions are indispensable for DNAzyme catalysis. [6,[19][20][21][22][23] DNA is highly negatively charged and metal ions can stabilize various secondary structures of DNA. [24][25][26] Metal binding takes place at both the phosphate backbone and various nucleobases.…”

Section: Introductionmentioning

confidence: 99%

Zn²⁺‐Dependent DNAzymes: From Solution Chemistry to Analytical, Materials and Therapeutic Applications

2020

View full text Add to dashboard Cite

Since 1994, deoxyribozymes or DNAzymes have been in vitro selected to catalyze various types of reactions. Metal ions play a critical role in DNAzyme catalysis, and Zn2+ is a very important one among them. Zn2+ has good biocompatibility and can be used for intracellular applications. Chemically, Zn2+ is a Lewis acid and it can bind to both the phosphate backbone and the nucleobases of DNA. Zn2+ undergoes hydrolysis even at neutral pH, and the partially hydrolyzed polynuclear complexes can affect the interactions with DNA. These features have made Zn2+ a unique cofactor for DNAzyme reactions. This review summarizes Zn2+‐dependent DNAzymes with an emphasis on RNA‐/DNA‐cleaving reactions. A key feature is the sharp Zn2+ concentration and pH‐dependent activity for many of the DNAzymes. The applications of these DNAzymes as biosensors for Zn2+, as therapeutic agents to cleave intracellular RNA, and as chemical biology tools to manipulate DNA are discussed. Future studies can focus on the selection of new DNAzymes with improved performance and detailed biochemical characterizations to understand the role of Zn2+, which can facilitate practical applications of Zn2+‐dependent DNAzymes.

show abstract

“…[1] To date, a diverse range of DNAzymes have been isolated to catalyze various chemical and biological transformations from DNA/RNA cleavage, ligation and phosphorylation to porphyrin metalation and peroxidation. [2][3][4][5][6][7][8][9] Since most natural DNA molecules are double-stranded, no catalytic activities are expected from them, and DNAzymes have so far only been isolated from in vitro selections.…”

Section: Introductionmentioning

confidence: 99%

In vitro Selection of Chemically Modified DNAzymes

Huang

Liu

2020

ChemistryOpen

View full text Add to dashboard Cite

DNAzymes are in vitro selected DNA oligonucleotides with catalytic activities. RNA cleavage is one of the most extensively studied DNAzyme reactions. To expand the chemical functionality of DNA, various chemical modifications have been made during and after selection. In this review, we summarize examples of RNA‐cleaving DNAzymes and focus on those modifications introduced during in vitro selection. By incorporating various modified nucleotides via polymerase chain reaction (PCR) or primer extension, a few DNAzymes were obtained that can be specifically activated by metal ions such as Zn2+ and Hg2+. In addition, some modifications were introduced to mimic RNase A that can cleave RNA substrates in the absence of divalent metal ions. In addition, single modifications at the fixed regions of DNA libraries, especially at the cleavage junctions, have been tested, and examples of DNAzymes with phosphorothioate and histidine‐glycine modified tertiary amine were successfully obtained specific for Cu2+, Cd2+, Zn2+, and Ni2+. Labeling fluorophore/quencher pair right next to the cleavage junction was also used to obtain signaling DNAzymes for detecting various metal ions and cells. Furthermore, we reviewed work on the cleavage of 2′‐5′ linked RNA and L‐RNA substrates. Finally, applications of these modified DNAzymes as biosensors, RNases, and biochemical probes are briefly described with a few future research opportunities outlined at the end.

show abstract

Cu-DNAzyme facilitates highly sensitive immunoassay

Cited by 12 publications

References 34 publications

Modulation of DNAzyme Activity via Butanol Dehydration

Modulation of DNAzyme Activity via Butanol Dehydration

Zn²⁺‐Dependent DNAzymes: From Solution Chemistry to Analytical, Materials and Therapeutic Applications

In vitro Selection of Chemically Modified DNAzymes

Contact Info

Product

Resources

About

Cu-DNAzyme facilitates highly sensitive immunoassay

Cited by 12 publications

References 34 publications

Modulation of DNAzyme Activity via Butanol Dehydration

Modulation of DNAzyme Activity via Butanol Dehydration

Zn2+‐Dependent DNAzymes: From Solution Chemistry to Analytical, Materials and Therapeutic Applications

In vitro Selection of Chemically Modified DNAzymes

Contact Info

Product

Resources

About

Zn²⁺‐Dependent DNAzymes: From Solution Chemistry to Analytical, Materials and Therapeutic Applications