BIOSENSORS & BIOELECTRONICS
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2016
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IF 7.476
Kai Shi,Baoting Dou,Jianmei Yang,Ruo Yuan,Yun Xiang
Specific and sensitive detection of protein biomarkers is of great importance in biomedical and bioanalytical applications. In this work, a dual amplified signal enhancement approach based on the integration of catalytic hairpin assembly (CHA) and terminal deoxynucleotidyl transferase (TdT)-mediated in situ DNA polymerization has been developed for highly sensitive and label-free electrochemical detection of thrombin in human serums. The presence of the target thrombin leads to the unfolding and capture of a significant number of hairpin signal probes with free 3′-OH termini on the sensor electrode . Subsequently, TdT can catalyze the elongation of the signal probes and formation of many G-quadruplex sequence replicates with the presence of dGTP and dATP at a molar ratio of 6:4. These G-quadruplex sequences bind hemin and generate drastically amplified current response for sensitive detection of thrombin in a completely label-free fashion. The sensor shows a linear range of 0.5 pM–10.0 nM and a detection limit of 0.12 pM for thrombin. Moreover, the developed sensor can selectively discriminate the target thrombin against other non-target proteins and can be employed to monitor thrombin in human serum samples.
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JOURNAL OF CHEMICAL TECHNOLOGY AND BIOTECHNOLOGY
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2016
·Vol. 92
·期 4
·819-826
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IF 2.738
Xiao Liang,Ying Ge,Zhenglong Wu,Weidong Qin
BACKGROUND Hg(II) and MeHg(I) are toxic pollutants causing wide concerns. Polyamidoamine-grafted magnetic silica nanoparticles (Fe 3 O 4 -SiO 2 -PAMAMs) were synthesized as beads, on which herring sperm DNA fragments were immobilized as reacting moieties for removal of Hg(II) and MeHg(I) from water matrices. The factors influencing the removal, such as DNA fragments, generation of the polyamidoamine spacers and pH, were studied. Further, the adsorption mechanisms were explored by means of adsorption kinetics and isotherms. RESULTS Assembling DNA fragments on the polyamidoamine-grafted beads promoted sharply the removal of both Hg(II) and MeHg(I). Adsorptions of Hg(II) and MeHg(I) followed pseudo-second-order kinetics; but their adsorption isotherms obeyed Langmuir and Freundlich models, respectively. Under the optimum conditions, the adsorption equilibrium time was approximately 5 min for Hg(II) and 5 s for MeHg(I) with maximum percentage removals of ∼95% and ∼90%, respectively. The adsorbent could be regenerated easily without significant decrease in removal efficiencies. CONCLUSION The Fe 3 O 4 -SiO 2 -PAMAM beads could bind DNA steadily, and the DNA fragments interacted strongly with mercury species. The strategy enabled the water-soluble DNAs to work as efficient removing reagents for rapid and cost-effective removal of Hg(II) and MeHg(I). © 2016 Society of Chemical Industry
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JOURNAL OF COLLOID AND INTERFACE SCIENCE
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2015
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IF 3.368
Linlin Wang,Jing Song,Shaopu Liu,Chenxia Hao,Nianxi Kuang,Youqiu He
Even though various strategies have reported for DNA detection, development of a simple, time-saving and specific fluorescent sensing platform still remains a desired goal. In this work, a quantum dots (QDs) based fluorescent reversible “off–on” mode was developed for sensitively recognition of herring sperm DNA (hsDNA). Firstly, in the “turn off” stage, the fluorescence of glutathione (GSH) capped CdTe QDs could be effectively quenched by ytterbium ion (Yb 3+ ) was due to the occurrence of the electron transfer between Yb 3+ and the photoexcited QDs. And then, in the following “turn on” stage, with the effective binding reaction of Yb 3+ to hsDNA, the fluorescence intensity of GSH-capped CdTe QDs enhanced. Under the optimal conditions, the linear range of fluorescence versus the concentration of hsDNA was 0.010–12 μg/mL, and the detection limit was 3.033 ng/mL. In addition, the reaction mechanism among GSH-capped CdTe QDs, Yb 3+ and hsDNA were investigated by fluorescence spectroscopy, UV–vis spectrophotometry, fluorescence lifetime measurement and viscosity measurements. This analytical fluorescent reversible “off–on” pattern offered a way with good sensitivity and selectivity for the detection of hsDNA.
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ANALYTICAL AND BIOANALYTICAL CHEMISTRY
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2013
·Vol. 405
·期 8
·2435-2442
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IF 3.659
Wang Xiaoli,Wang Hailin
A variety of environmental pollutants may cause abnormal DNA methylation, which further disturb gene expression. In this work, we developed a rapid and sensitive method for the characterization and identification of the epigenotoxicity of environmental pollutants in terms of DNA methylation. The method combines in vitro inhibition reactions of a model DNA methyltransferase (DNMT) with rapid and sensitive capillary electrophoresis–laser-induced fluorescence (CE-LIF) immunoassays. This method was first assessed using two known DNMT inhibitors, (–)-epigallocatechin-3-gallate and RG108, and then applied to epigenotoxic evaluation of four aldehydes and six benzo-1,4-quinones. It was found that all these electrophilic chemicals could inhibit DNMT activity, probably due to their interactions with the active sites of DNMT. Interestingly, benzo-1,4-quinones displayed more inhibitory effects on DNMT activity than aldehydes. Among the tested six benzo-1,4-quinones, halogenated benzo-1,4-quinone showed higher inhibitory activity than non-halogenated p -benzo-1,4-quinone. Owing to its speed and sensitivity, our method will be potentially applicable for fast epigenotoxic screening of environmental pollutants and mechanistic study of environmental epigenetics.
Epigenotoxicity evaluation of environmental pollutants
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SENSORS AND ACTUATORS B-CHEMICAL
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2012
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IF 3.898
Zhengqing Liu,Shaopu Liu,Xiaodan Wang,Pingping Li,Youqiu He
We have developed a novel biosensor for the rapid determination of double-strand (ds) DNA based on the photoinduced electron transfer (PET) from glutathione (GSH) capped CdTe quantum dots (QDs) to praseodymium(III)–rutin (Pr 3+ –rutin) complex. The biosensor was based on a fluorescence “OFF–ON” mode. To provide the platform for dsDNA detection, the Pr 3+ –rutin complex was first employed as an effective fluorescence quencher to QDs through PET. Because of its strong binding affinity with Pr 3+ –rutin complex, dsDNA can break up the low fluoresced ionic ensemble, set free the luminescent QDs. Thus, the recognition of dsDNA by Pr 3+ –rutin complex can be realized through the restoration of QDs fluorescence. The relative recovered fluorescence intensity is directly proportional to the concentration of herring sperm (hs) DNA between 0.0874 μg mL −1 and 20 μg mL −1 , and the detection limit (3 δ / K ) is 0.0262 μg mL −1 . The entire experimental process does not require any chemical modification and coupling of CdTe QDs and dsDNA, greatly simplifying the experimental process. Some possible reaction mechanisms are discussed.
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BIOSENSORS & BIOELECTRONICS
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2015
·
IF 6.409
Yizhen Yang,Feng Gao,Xili Cai,Xiaoning Yuan,Suyu He,Fei Gao,Hongxu Guo,Qingxiang Wang
A versatile nanocomposite containing β-cyclodextrin and graphene (CD–GR) was prepared through a simple chemical reduction method. The characterization experiments show that the nanocomposite remains the flake-like morphology of GR, but its solubility and stability in aqueous solution are greatly improved. Then the nanocomposite was modified at glassy carbon electrode (GCE) surface, and was used as a functional matrix for the covalent immobilization of probe DNA using 2,4,6-trichloro-1,3,5-triazine (TCT) as the crosslinker . Due to the synergetic effect of large surface area of GR and rich hydroxyl of CD, the probe density for the developed biosensor was determined to as high as 3.82×10 13 molecules cm − 2 . Meanwhile, the biosensor shows high hybridization efficiency and hybridization kinetic. When the biosensor was applied for the impedance-based hybridization test, a wide linear range from 1.0×10 −16 to 1.0×10 −12 M and an ultralow detection limit of 3.4×10 −17 M were achieved. The biosensor also displays excellent stability, selectivity , and reproducibility.
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JOURNAL OF ALLOYS AND COMPOUNDS
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2015
·
IF 2.999
Yanqin Yang,Mengmeng Kang,Shaoming Fang,Minghua Wang,Linghao He,Xiaozhong Feng,Jihong Zhao,Zhihong Zhang,Hongzhong Zhang
It is highly desirable and a popular topic in scientific research to develop a highly sensitive and selective detection and quantitative analysis method of determining trace silver ions (Ag + ) in aqueous media since Ag + ions are recognized as one of the most hazardous metal pollutants. Three-dimensional graphene oxide (3D-GO) was decorated with Fe 3 O 4 to form nanocomposites of Fe 3 O 4 @3D-GO, which were further used as electrode materials in an electrochemical DNA sensor for detecting Ag + . Because of the chemical functionality and porous structure of the developed nanocomposites, single-stranded and cytosine-rich oligonucleotides could be anchored onto their surfaces or interior, followed by selective detection of Ag + through formation of C–Ag + –C complex forms. The results of electrochemical measurement showed that the Fe 3 O 4 @3D-GO nanocomposites exhibits high sensitivity for detecting Ag + with a detection limit of 2.0 pM within the range of 0.01–100 nM Ag + (S/N = 3). The developed electrochemical biosensor based on Fe 3 O 4 @3D-GO exhibits highly selectivity, good repeatability, and stability for detecting Ag + ions. The results of this work demonstrate that Fe 3 O 4 @3D-GO nanocomposites could be used as a promising tool to detect heavy metal ions in water or the environment.
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BIOSENSORS & BIOELECTRONICS
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2014
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IF 6.451
Delun Zheng,Qingxiang Wang,Feng Gao,Qinghua Wang,Weiwei Qiu,Fei Gao
Three CdS materials with different shapes (i.e., irregular, rod-like, and elongated hexagonal-pyramid) were hydrothermally synthesized through controlling the molar ratio of Cd 2+ to thiourea . Electrochemical experiments showed that the elongated hexagonal-pyramid CdS (eh-CdS) modified on glassy carbon electrode (GCE) had the higher electrical conductivity than the other two forms. Then the eh-CdS modified GCE was further modified with a layer of poly-isonicotinic acid (PIA) through electro-polymerization in IA solution to enhance the stability and functionality of the interface. The layer-by-layer modification process was characterized by atomic force microscopy and electrochemistry . Then 5′-amino functionalized DNA was immobilized on the electrode surface through coupling with the carboxylic groups derived from PIA-eh-CdS composite film. The hybridization performance of the developed biosensor was evaluated using methylene blue as redox indicator , and the results showed that the peak currents of methylene blue varied with target concentrations in a wide linear range from 1.0×10 −14 M to 1.0×10 −9 M with a low detection limit of 3.9×10 −15 M. The biosensor also showed high stability and good discrimination ability to the one-base, three-base mismatched and non-complementary sequence.
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SENSORS AND ACTUATORS B-CHEMICAL
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2015
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IF 4.097
Ke-Jing Huang,Hong-Lei Shuai,Ying-Xu Chen
Sensitive detection of ochratoxin A (OTA) plays an important role in the field of food safety control. In this study, we are reporting for the first time an electrochemical biosensor which employs the integration of MoSe 2 nanoflowers , Au nanoparticles (AuNPs), aptamer and the guanine-rich complementary DNA sequence for the sensitive detection of OTA. MoSe 2 nanoflowers are prepared by a simple hydrothermal method and used as a promising sensing platform based on its large surface area. The methylene blue is used as a tracer and a guanine-rich complementary DNA sequence is designed to bind with the unbound OTA aptamer for signal amplification . The aptamer is immobilized on the AuNPs/MoSe 2 modified electrode surface through Au–S interaction. Since OTA can competitively bind with the aptamer due to their high affinity, the presence of OTA will induce the decrease of guanine-rich DNA on the electrode surface , in turn reduces the signal of methylene blue which can specifically adsorb to the guanine units of DNA. The proposed assay shows a good linear relationship within the range of 0.0001–1 nM with a detection limit of 0.08 pM for OTA. The developed biosensor has been applied to determine OTA concentration in wine samples.
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ANALYTICAL CHEMISTRY
·
2025
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IF 6.7
Yunshan Zhang,Tuo Huang,Fang Yang,Qianglong Tan,Jing Ye,Xianzhong Feng,Diming Zhang
In recent years, entropy-driven circuit (EDC) dynamic DNA networks have garnered significant attention in nucleic acid detection owing to their simplicity, efficiency, and flexible design. Nevertheless, conventional EDC reactions face a constraint in achieving optimal signal amplification due to a solitary and feeble driving force. To overcome this limitation, we innovatively devised a gold nanoparticle (AuNP) dispersion-enhanced EDC (Au-EDC) approach, pioneering a novel colorimetric signal amplification and output system. The system was harmoniously integrated with the ligase chain reaction (LCR) for precise single nucleotide polymorphism (SNP) genotyping. Specifically, LCR was selectively executed solely on the positive strand of the mutant target (MT), facilitating precise point-to-strand information transduction. Subsequently, the LCR product triggered the Au-EDC cycling reaction, causing the DNA-AuNPs network to progressively disintegrate and release a pronounced colorimetric signal. This strategic design ingeniously harnessed the entropy increase that occurs as AuNPs undergo a transition from aggregated to dispersed states, offering a supplemental impetus for the EDC cycle. The integrated LCR-Au-EDC system excelled in detecting MT at concentrations as low as 320 fM and differentiating pooled samples with mutation frequencies as low as 0.1%. Moreover, the system accurately performed SNP genotyping on the real genomes derived from soybean leaves. Consequently, this study not only develops a colorimetric signal amplification and output sensing system based on EDC reactions but also provides a cost-effective and efficient SNP genotyping tool.
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JOURNAL OF HAZARDOUS MATERIALS
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2024
·
IF 12.2
Ruiwei Xu,Yi Zhang,Yingfeng Gao,Shuyu Jia,Seokho Choi,Yifan Xu,Jicheng Gong
DNA adducts are widely recognized as biomarkers of exposure to environmental carcinogens and associated health effects in toxicological and epidemiological studies. This study presents a targeted and sensitive method for comprehensive DNA adductome analysis using ultra-high-performance liquid chromatography coupled with triple-quadrupole tandem mass spectrometry (UHPLC-QqQ-MS/MS). The method was developed using calf thymus DNA, with careful optimization of mass spectrometric parameters, chromatographic separation conditions, and pretreatment methods. Ultimately, a targeted method was established for 41 DNA adducts, which showed good linearity (R 2 ≥0.992), recovery (80.1–119.4 %), accuracy (81.3–117.8 %), and precision (relative standard deviation <14.2 %). The established method was employed to analyze DNA adducts in peripheral blood cells from pregnant women in Shanxi and Beijing. Up to 23 DNA adducts were successfully detected in samples of varying sizes. From 2 μg of maternal DNA samples, seven specific adducts were identified: 5-methyl-2'-deoxycytidine (5-MedC), 5-hydroxymethyl-2'-deoxycytidine (5-HmdC), N 6 -methyl-2'-deoxyadenosine (N 6 -MedA), 8-hydroxy-2'-deoxyguanosine (8-OHdG), 5-hydroxy-2'-deoxycytidine (5-OHdC), 1,N 6 -etheno-2'-deoxyadenosine (1,N 6 -εdA), and N 2 -methyl-2'-deoxyguanosine (N 2 -MedG). This study reveals that exposure to higher concentrations of ambient air pollutants may elevate the levels of DNA methylation and oxidative damage at different base sites, highlighting the application potential of DNA adducts as sensitive biomarkers of air pollution exposure.
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CELL
·
2024
·
IF 45.5
Tongtong Zhang,Shengjun Tan,Na Tang,Yuanqing Li,Chenze Zhang,Jing Sun,Yanyan Guo,Hui Gao,Yujia Cai,Wen Sun,Chenxin Wang,Liangzheng Fu,Huijing Ma,Yachao Wu,Xiaoxuan Hu,Xuechun Zhang,Peter Gee,Weihua Yan,Yahui Zhao,Qiang Chen,Baocheng Guo,Haoyi Wang,Yong E. Zhang
Experimental studies on DNA transposable elements (TEs) have been limited in scale, leading to a lack of understanding of the factors influencing transposition activity, evolutionary dynamics, and application potential as genome engineering tools. We predicted 130 active DNA TEs from 102 metazoan genomes and evaluated their activity in human cells. We identified 40 active (integration-competent) TEs, surpassing the cumulative number (20) of TEs found previously. With this unified comparative data, we found that the Tc1/ mariner superfamily exhibits elevated activity, potentially explaining their pervasive horizontal transfers. Further functional characterization of TEs revealed additional divergence in features such as insertion bias. Remarkably, in CAR-T therapy for hematological and solid tumors, Mariner2_AG (MAG), the most active DNA TE identified, largely outperformed two widely used vectors, the lentiviral vector and the TE-based vector SB100X. Overall, this study highlights the varied transposition features and evolutionary dynamics of DNA TEs and increases the TE toolbox diversity.
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