DNAzyme-based biosensors and nanodevices

Gong, Liang; Zhao, Zilong; Lv, Yifan; Huan, Shuangyan; Fu, Ting; Zhang, Xiaobing; Shen, Guo‐Li; Yu, Ru‐Qin

doi:10.1039/c4cc06855f

Cited by 269 publications

(159 citation statements)

References 131 publications

(100 reference statements)

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“…The formation of proximity-dependent DNAzyme further produced a CL readout by DNAzyme catalyzed lumino-H 2 O 2 system. 47,48 Obviously, the CL signal depended on the simultaneous presence of two targets, thus it could define as an AND logic gate (Scheme 1B). 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 The CHA played an essential role in the AND logic gate operation and could be specially characterized with SPR at a thiolated-capture probe modified gold chip ( Figure 3A).…”

Section: Cha-actuated Formation Of Proximity-dependent Dnazymementioning

confidence: 99%

Catalytic Hairpin Assembly Actuated DNA Nanotweezer for Logic Gate Building and Sensitive Enzyme-Free Biosensing of MicroRNAs

Cheng

et al. 2016

Anal. Chem.

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A target-switched DNA nanotweezer is designed for AND logic gate operation and enzyme-free detection of microRNAs (miRNAs) by catalytic hairpin assembly (CHA) and proximity-dependent DNAzyme formation. The double crossover motif-based nanotweezer consists of an arched structure as the set strand for target inputs and two split G-rich DNAs at the termini of two arms for signal output. Upon a CHA, a small amount of binary target inputs can switch numerous open nanotweezers to a closed state, which leads to the formation of proximity-dependent DNAzyme in the presence of hemin to produce a highly sensitive biosensing system. The binary target inputs can be used for successful building of AND logic gate, which is validated by polyacrylamide gel electrophoresis, surface plasmon resonance and the biosensing signal. The developed biosensing system shows a linear response of the output chemiluminescence signal to input binary miRNAs with a detection limit of 30 fM. It can be used for miRNAs analysis in complex sample matrix. This system provides a simple and reusable platform for logic gate operation and enzyme-free, highly sensitive, and specific multianalysis of miRNAs.

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Section: Cha-actuated Formation Of Proximity-dependent Dnazymementioning

confidence: 99%

Catalytic Hairpin Assembly Actuated DNA Nanotweezer for Logic Gate Building and Sensitive Enzyme-Free Biosensing of MicroRNAs

Cheng

et al. 2016

Anal. Chem.

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“…This concept was used by Liu and co-workers (2013) to design DNA hemin-G-quadruplex-DNAzyme-based walkers which allow the chemiluminescence, chemiluminescence resonance energy transfer (CRET), electrochemical, or photoelectrochemical transduction of the switchable states of the different DNA machines. Besides that, the DNA exhibited a unique feature of being easy to code which enables them to be used in the computational operation and logic gates (Gong L. et al, 2015). Development of nanoscale memory devices is another interesting application of biomolecule-nanoparticle conjugates.…”

Section: Biosensors and Bioelectronicsmentioning

confidence: 99%

Nanoparticles Carrying Biological Molecules: Recent Advances and Applications

Saallah

Lenggoro

2018

KONA

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In the past few decades, enormous advances have been achieved in the field of particle technology and the trend has been shifted from macro to micro and recently to the nanoscale. Integration of nanotechnology and biotechnology has paved the way to the development of biological nanoparticles, derived from biomolecules, and biomolecule-nanoparticle conjugates for numerous applications. This review provides an overview of various types of biological nanoparticles and the methods of their fabrication with primary emphasis on the drying methods, particularly on the newly emerging technique, the electrospraying. Recent advances in the integration of biomolecules with nanoparticles in the past five years to present are also discussed. Finally, the application of the biomolecule-nanoparticle conjugates in various fields including medicals and pharmaceuticals, biosensors and bioelectronics, foods, and agricultures are also highlighted.

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“…18 Deoxyribozymes have been identified to have many kinds of catalytic activity, with substrates that include other oligonucleotides, small molecules, and peptides. 19 Here, we sought to identify pSer lyase deoxyribozymes, i.e., DNA catalysts that specifically eliminate phosphate from pSer, forming Dha (Figure 1). We identified two new deoxyribozymes and found them to perform multiple turnovers with the model hexapeptide that was used during selection.…”

mentioning

confidence: 99%

Phosphoserine Lyase Deoxyribozymes: DNA-Catalyzed Formation of Dehydroalanine Residues in Peptides

2015

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Dehydroalanine (Dha) is a nonproteinogenic electrophilic amino acid that is a synthetic intermediate or product in the biosynthesis of several bioactive cyclic peptides such as lantibiotics, thiopeptides, and microcystins. Dha also enables labeling of proteins and synthesis of post-translationally modified proteins and their analogues. However, current chemical approaches to introducing Dha into peptides have substantial limitations. Using in vitro selection, here we show that DNA can catalyze Zn2+ or Zn2+/Mn2+-dependent formation of Dha from phosphoserine (pSer), i.e., exhibit pSer lyase activity, a fundamentally new DNA-catalyzed reaction. Two new pSer lyase deoxyribozymes, named Dha-forming deoxyribozymes 1 and 2 (DhaDz1 and DhaDz2), each function with multiple turnover on the model hexapeptide substrate that was used during selection. Using DhaDz1, we generated Dha from pSer within an unrelated linear 13-mer peptide. Subsequent base-promoted intramolecular cyclization of homocysteine into Dha formed a stable cystathionine (thioether) analogue of the complement inhibitor compstatin. These findings establish the fundamental catalytic ability of DNA to eliminate phosphate from pSer to form Dha and suggest that with further development, pSer lyase deoxyribozymes will have broad practical utility for site-specific enzymatic synthesis of Dha from pSer in peptide substrates.

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DNAzyme-based biosensors and nanodevices

Cited by 269 publications

References 131 publications

Catalytic Hairpin Assembly Actuated DNA Nanotweezer for Logic Gate Building and Sensitive Enzyme-Free Biosensing of MicroRNAs

Catalytic Hairpin Assembly Actuated DNA Nanotweezer for Logic Gate Building and Sensitive Enzyme-Free Biosensing of MicroRNAs

Nanoparticles Carrying Biological Molecules: Recent Advances and Applications

Phosphoserine Lyase Deoxyribozymes: DNA-Catalyzed Formation of Dehydroalanine Residues in Peptides

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