RSC Advances
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2017
·Vol. 7
·期 40
·24628-24632
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IF 3.108
Jiaona Xu,Chunying Wei
A novel, label-free fluorescence detection method was proposed for the formation of the G-quadruplex DNAs based on placing two DNA-Ag NCs together to light-up fluorescence. Herein, we designed two tailored DNA sequences noted as target DNA (abbreviated as T-DNA) and complementary DNA (abbreviated as C-DNA), respectively. T-DNA contains two cytosine-rich sequences at the 3′- and 5′-end responsible for Ag NCs synthesis, together with the guanine-rich (G-rich) DNA sequence in the middle segment. C-DNA was designed completely complementary to the G-rich segment of the T-DNA. Provided that the middle G-rich oligonucleotide of T-DNA folds into G-quadruplex in the presence of monovalent cations, the located at 3′ and 5′ terminuses two darkish DNA-Ag NCs approximate, leading to the enhanced fluorescence signal readout. Upon addition of the C-DNA, the G-quadruplex structure is unfolded and the two DNA-Ag NCs are separated, then the fluorescence signal is quenched. On the contrary, when the G-rich oligonucleotide with mutational bases failed to form the G-quadruplex, the fluorescence signal decreased clearly. This design allowed specific and general detection of the formation of diverse G-quadruplexes with easy operation and low cost. We believed that the proposed approach laid a foundation for the researchers in bioimaging, pharmacology, diagnostics, and other fields.
研究领域:
生物化学
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分子生物学
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分析化学
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高影响因子
SENSORS AND ACTUATORS B-CHEMICAL
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2017
·
IF 5.401
Xiao Fang Zhang,Na Li,Yu Ling,Li Tang,Nian Bing Li,Hong Qun Luo
As one of the DNA damage repair enzymes, uracil-DNA glycosylase (UDG) plays an important role in maintaining genomic integrity. By linked bridge hybridizing-induced split G-quadruplex (SQ), we demonstrate here the construction of a simple and sensitive DNA machine for the detection of UDG activity. The satisfactory split G-quadruplex sequences (SQS) were successfully selected to be the ingredients of SQ formation. In this work, UDG recognized and removed the uracil bases from the stem of hairpin DNA (HP). And then, HP with a low melting temperature hybridized with designed SQS, forming a three-way DNA structure with an SQ. With the addition of Thioflavin T, a dramatical enhancement of fluorescence intensity was presented due to the G-quadruplex/Thioflavin T complex formation. The detection limit was as low as 7.8 × 10 −3 U/mL. And we also successfully investigated the performance of UDG activity in the HeLa cell lysate. This optical DNA machine with the merits of being simple, rapid, and economical was flexibly suitable for not only active UDG assay but also diverse target detection by adjusting the recognition region of the HP.
研究领域:
生物化学
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分子生物学
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分析化学
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DOI
高影响因子
ACS Sensors
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2025
·
IF 9.1
Huihui Chen,Yuhan He,Qijie Wang,Xinyao Yi,Jianxiu Wang
Ultraviolet (UV) irradiation can destroy hydrogen bonds, leading to DNA deformation or destruction. Triplex DNA is produced by combining Watson–Crick and Hoogsteen base pairing under certain conditions. The UV-induced damage of target DNA may influence the triplex DNA formation; thus, a simple and sensitive surface plasmon resonance (SPR) assay of the DNA damage process was proposed. The experimental conditions for forming the triplex DNA were explored, and the stability comparison between duplex and triplex DNA was performed. The triplex DNA possessed higher stability under acidic pH and sufficient Mg2+, and the sequence length could remarkably influence its stability. By derivatization of the triplex structure with two biotin tags, the incorporation of streptavidin resulted in amplified SPR signals. However, UV-induced damage of biotinylated target DNA attenuated the triplex DNA formation, and smaller SPR signals were attained. The SPR signals were inversely and linearly dependent on the UV irradiation doses that represented the photodamage levels in the range of 0.117–1.75 kJ/m2, and the detection limit was estimated to be 0.039 kJ/m2. Through the competitive assay, UV-induced damage of unbiotinylated target DNA can also be detected. The proposed method serves as a viable means for the detection of UV-induced DNA damage based on the triplex DNA structure.
研究领域:
生物化学
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分子生物学
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DOI
PubMed
高影响因子
Journal of Materials Chemistry B
·
2019
·Vol. 7
·期 16
·2608-2612
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IF 5.047
Xiaoyi Ma,Peng Miao
DNA tetrahedron-modified silver nanoparticles (AgNPs) were achieved via amino-silver chemistry for the first time and were applied as a colorimetric biosensor for detecting HIV-related DNA. Target DNA initiated strand displacement polymerization and nicking endonuclease-aided cycles were involved to link DNA tetrahedron-modified AgNPs, reporting colorimetric responses. This developed method showed excellent specificity and sensitivity. A wide linear range from 1 to 15 000 nM was achieved with a limit of detection of 0.84 nM. Moreover, it was successfully applied to determine DNA in blood serum samples.
研究领域:
纳米技术
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生物传感
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分子诊断
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分析化学
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产品关联
DOI
PubMed
高影响因子
BIOSENSORS & BIOELECTRONICS
·
2018
·
IF 8.173
Kun Wang,Meng-Qi He,Fu-Heng Zhai,Jin Wang,Rong-Huan He,Yong-Liang Yu
DNA can be modified to function as a scaffold for the construction of a DNA nanomachine, which can then be used in analytical applications if the DNA nanomachine can be triggered by the presence of a diagnostic DNA or some other analyte. We herein propose a novel and powerful DNA nanomachine that can detect DNA via combining the tandem strand displacement reactions and a DNA walker. Three different DNA sensing platforms are described, where the whole DNA machine was constructed on a gold electrode (GE). This cascade multiple amplification strategy exhibited an excellent sensitivity. Under optimal conditions, the electrochemical sensor could achieve a detection limit of 36 fM with a linear range from 50 to 500 fM. In particular, the electrochemical sensor could easily distinguish the base mutations. More interestingly, the DNA nanomachine could be used to construct analog AND and OR logic gates . We demonstrate that electrochemical signals generated from the different input combinations can be used to distinguish multiple target DNAs. The practical applicability of the present biosensor is demonstrated by the detection of target DNA in human serum with satisfactory results, which holds great potential for a future application in clinical diagnosis.
研究领域:
生物化学
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纳米技术
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分析化学
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分子生物学
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DOI
PubMed
高影响因子
MOLECULES
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2022
·Vol. 27
·期 10
·3046
·
IF 4.927
Jiayi Qian,Ruotong Liu,Ningzhi Liu,Chanling Yuan,Qiong Wu,Yanhua Chen,Weijun Tan,Wenjie Mei
A series of arene Ru(II) complexes, [(η6-MeC6H5)Ru(L)Cl]Cl, (L=o-ClPIP,1;m-ClPIP,2andp-ClPIP,3) (o-ClPIP=2-(2-chlorophenyl)imidazo[4,5-f][1,10]phenanthroline;m-ClPIP=2-(3-chlorophenyl)imidazo[4,5-f][1,10]phenanthroline;p-ClPIP=2-(4-chlorophenyl)imidazo[4,5-f][1,10]phenanthroline) was synthesized and investigated as a potential apoptosis inducer in chemotherapy. Spectroscopy and molecular docking simulations show that1exhibits moderated binding affinity toKRASG-quadruplex DNA by groove mode. Further, in vitro studies reveal that1displays inhibitory activity against MCF-7 growth with IC50= 3.7 ± 0.2 μM. Flow cytometric analysis, comet assay, and immunofluorescence confirm that1can induce the apoptosis of MCF-7 cells and G0/G1 phase arrest through DNA damage. In summary, the prepared arene Ru(II) complexes can be developed as a promising candidate for targeting G-quadruplex structure to induce the apoptosis of breast cancer cells via binding and stabilizingKRASG-quadruplex conformation on oncogene promoter.Keywords:arene ruthenium complex;KRASG-quadruplex DNA;breast cancer;apoptosis;DNA damage
研究领域:
药理学
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肿瘤学
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分子生物学
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DOI
PubMed
高影响因子
ANALYTICA CHIMICA ACTA
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2014
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IF 4.517
Yunlei Zhou,Bingchen Li,Mo Wang,Zhiqing Yang,Huanshun Yin,Shiyun Ai
A novel electrochemical method is developed for detection of DNA demethylation and assay of DNA demethylase activity. This method is constructed by hybridizing the probe with biotin tagged hemi-methylated complementary DNA and further capturing streptavidin tagged alkaline phosphatase (SA-ALP) to catalyze the hydrolysis reaction of p -nitrophenyl phosphate. The hydrolysate of p -nitrophenol (PNP) is then used as electrochemical probe for detecting DNA demethylation and assaying the activity of DNA demethylase. Demethylation of target DNA initiates a degradation reaction of the double-stranded DNA (dsDNA) by restriction endonuclease of BstUI. It makes the failed immobilization of ALP, resulting in a decreased electrochemical oxidation signal of PNP. Through the change of this electrochemical signal, the DNA demethylation is identified and the activity of DNA demethylase is analyzed with low detection limit of 1.3 ng mL −1 . This method shows the advantages of simple operation, cheap and miniaturized instrument, high selectivity. Thus, it provides a useful platform for detecting DNA demethylation, analyzing demethylase activity and screening inhibited drug.
研究领域:
生物化学
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分子生物学
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分析化学
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DOI
PubMed
高影响因子
SENSORS AND ACTUATORS B-CHEMICAL
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2015
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IF 4.097
Songling Li,Weiwei Qiu,Xuan Zhang,Jiancong Ni,Feng Gao,Qingxiang Wang
An ultrasensitive electrochemical DNA biosensor has been developed based on the assembly of highly conductive gold nanoparticles (AuNPs) on the free terminal of hairpin-structured probe DNA . The hairpin probe DNA was first immobilized on a gold electrode surface through Au S bond. Then the thioglycolic acid (TGA) was grafted on the 3′-end of hairpin DNA via the carboxylic-amino condensation reaction . Followed by, the AuNPs were further attached through reaction with the thiol-group of TGA. Thus, a highly conductive biointerface with ultralow charge-transfer resistance was obtained. Quantitative analysis exhibited that the target DNA could be detected over the range from 1.0 × 10 −17 to 1.0 × 10 −11 M. The detection limit was estimated to be 1.7 × 10 −18 M. Also the biosensor showed good hybridization selectivity , stability and regeneration ability.
研究领域:
生物化学
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纳米生物学
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分析化学
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产品关联
DOI
高影响因子
JOURNAL OF MOLECULAR STRUCTURE
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2011
·
IF 1.599
Xian-Lan Hong,Hong Li,Cui-Hong Peng
A new Ru(II) complex [Ru(dmb) 2 (pdta)](ClO 4 ) 2 ( 1 ) (dmb = 4,4′-dimethyl-2,2′-bipyridine, pdta = 3-(pyridine-2-yl)-as-triazino [5,6-f]-acenaphthylene) was synthesized and characterized by elemental analysis (EA), ES–MS, 1 H NMR, UV–Vis and CV. The DNA-binding properties of complex 1 were investigated by absorption titration, thermal denaturation , viscosity measurement and photoactivated cleavage. The DNA-binding constant was determined to be 2.37 ± 0.14 × 10 5 M −1 ( s = 1.90 ± 0.04) by electronic absorption titration, indicating that complex 1 interacts with DNA through intercalative mode. The redox peak potentials of this complex in CV were rationally assigned with the frontier molecular orbital stereographs resulting from the density functional theory (DFT) calculation. The photoactivated cleavage and cleavage mechanism of plasmid pBR322 DNA in the presence of complex 1 and various inhibitors were studied. The experiment for detecting the formation of singlet oxygen photo-sensitized by complex 1 was carried out, and the antioxidant activity of the Ru-complex and the ligand pdta against hydroxyl radical was also investigated.
研究领域:
无机化学
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生物化学
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分子生物学
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DOI
高影响因子
SENSORS AND ACTUATORS B-CHEMICAL
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2018
·
IF 5.667
Xiao Fang Zhang,Na Li,Yu Ling,Nian Bing Li,Hong Qun Luo
Since uracil-DNA glycosylase (UDG) is closely related to some human diseases, monitoring and detection of UDG activity have great significance in its clinic diagnosis and functional study. Here we demonstrate a sensitive cascade multi-amplification fluorescence strategy for the active UDG assay with the help of exonuclease III (Exo III). Under the cleavage reaction of UDG, the double-stranded DNA containing peculiar uracil bases separated into two dissociative single-stranded DNA, which separately hybridized with two cyclic hairpin probes to launch the Exo III-assisted dual cycles. The hairpin DNA modified with fluorophore and quenching group was employed as the signal probe. After the dual cycles, countless same short DNA fragments were generated to hybridize with signal probes, initiating a new Exo III-assisted cyclic amplification and releasing numerous single-stranded DNA which carried only fluorophores. Thus, the fluorescence intensity of the detection system was enhanced. This study obtained the detection limit as low as 2.4 × 10 −4 U/mL for detecting the UDG activity. And it performed satisfactory selectivity and well practical applicability by analysis of the HeLa cell lysate, providing a potential method for clinic diagnosis and functional study of UDG activity.
研究领域:
生物化学
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分子生物学
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临床诊断
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产品关联
DOI
高影响因子
JOURNAL OF ARCHAEOLOGICAL SCIENCE
·
2025
·
IF 2.5
Qian Wu,Hailiang Yang,Yang Zhou,Xiaojing Kang,Liping Bao,Zvezdana Dode,Bingjian Zhang,Yulan Hu
The utilization of leather products dates back to the Upper Paleolithic era, serving diverse aspects of human life and production. Species identification of archaeological leather artifacts provides material evidence for understanding the development of ancient pastoralism and technological levels, while also informing critical decisions in conservation material selection and the reconstruction of historical craftsmanship. Archaeological leathers uncovered worldwide exhibit considerable diversity. However, due to complex burial environments, the epidermal structures of these artifacts are often damaged or entirely lost, making them unidentifiable through traditional morphological methods. Contamination and complex sample matrices impair the biomolecular specificity of existing techniques, limiting taxonomic resolution. DNA analysis has thus provided a novel pathway for species identification of leather artifacts. DNA barcoding represents a prevalent methodology within this domain. Unlike previous DNA barcoding studies that required preliminary identification of relic sources to design specific primers—often leading to sample waste—this study introduces a novel technique that uses only one pair of universal primers to identify unknown species in a single experiment. Moreover, it enables the identification of mixed samples via second-generation sequencing. Specifically, we designed a pair of universal primers based on DNA mini-barcoding and meta-barcoding concepts, allowing accurate species-level identification of 11 historical leather specimens from different periods and preservation conditions. Notably, this method requires only minimal sample input, as little as 1 mg per artifact. This study attempts to identify historical leathers from five different species using a single pair of primers in one experiment. The proposed "DNA mini-barcode and DNA meta-barcode technologies" enable highly efficient analysis, reducing sample consumption compared to traditional DNA techniques that rely on screening multiple primers for unknown samples. Furthermore, it enhances taxonomic resolution from the genus to the species level. This approach holds great promise for the species identification of historical leather artifacts.
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DOI
高影响因子
Biosensors-Basel
·
2021
·Vol. 11
·期 11
·451
·
IF 5.519
Ping Ouyang,Chenxin Fang,Jialun Han,Jingjing Zhang,Yuxing Yang,Yang Qing,Yubing Chen,Wenyan Shang,Jie Du
The qualitative and quantitative determination of marker protein is of great significance in the life sciences and in medicine. Here, we developed an electrochemical DNA biosensor for protein detection based on DNA self-assembly and the terminal protecting effects of small-molecule-linked DNA. This strategy is demonstrated using the small molecule biotin and its receptor protein streptavidin (SA). We immobilized DNA with a designed structure and sequence on the surface of the gold electrode, and we named it M1-Biotin DNA. M1-Biotin DNA selectively combines with SA to generate M1-Biotin-SA DNA and protects M1-Biotin DNA from digestion by EXO III; therefore, M1-Biotin DNA remains intact on the electrode surface. M1-Biotin-SA DNA was modified with methylene blue (MB); the MB reporter molecule is located near the surface of the gold electrode, which generates a substantial electrochemical signal during the detection of SA. Through this strategy, we can exploit the presence or absence of an electrochemical signal to provide qualitative target protein determination as well as the strength of the electrochemical signal to quantitatively analyze the target protein concentration. This strategy has been proven to be used for the quantitative analysis of the interaction between biotin and streptavidin (SA). Under optimal conditions, the detection limit of the proposed biosensor is as low as 18.8 pM, and the linear range is from 0.5 nM to 5 μM, showing high sensitivity. The detection ability of this DNA biosensor in complex serum samples has also been studied. At the same time, we detected the folate receptor (FR) to confirm that this strategy can be used to detect other proteins. Therefore, this electrochemical DNA biosensor provides a sensitive, low-cost, and fast target protein detection platform, which may provide a reliable and powerful tool for early disease diagnosis.Keywords:terminal protection;electrochemical DNA biosensor;streptavidin;Exonuclease III;small-molecule-linked DNA
研究领域:
生物技术
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分析化学
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生物化学
·
分子生物学
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产品关联
DOI
PubMed
高影响因子
危险品化学品经营许可证（带存储）