ACS Applied Materials & Interfaces
·
2018
·
IF 8.097
Qian Zhao,Jiafang Piao,Weipan Peng,Yang Wang,Bo Zhang,Xiaoqun Gong,Jin Chang
Identifying the microRNA (miRNA) expression level can provide critical information for early diagnosis of cancers or monitoring the cancer therapeutic efficacy. This paper focused on a kind of gold-nanoparticle-coated polystyrene microbeads (PS@Au microspheres)-based DNA probe as miRNA capture and duplex-specific nuclease (DSN) signal amplification platform based on an RGB value readout for detection of miRNAs. In virtue of the outstanding selectivity and simple experimental operation, 5′-fluorochrome-labeled molecular beacons (MBs) were immobilized on PS@Au microspheres via their 3′-thiol, in the wake of the fluorescence quenching by nanoparticle surface energy transfer (NSET). Target miRNAs were captured by the PS@Au microspheres-based DNA probe through DNA/RNA hybridization. DSN enzyme subsequently selectively cleaved the DNA to recycle the target miRNA and release of fluorophores, thereby triggering the signal amplification with more free fluorophores. The RGB value measurement enabled a detection limit of 50 fM, almost 4 orders of magnitude lower than PS@Au microspheres-based DNA probe detection without DSN. Meanwhile, by different encoding of dyes, miRNA-21 and miRNA-10b were simultaneously detected in the same sample. Considering the ability for quantitation, high sensitivity, and convenient merits, the PS@Au microspheres-based DNA probe and DSN signal amplification platform supplied valuable information for early diagnosis of cancers.
研究领域:
生物化学
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分子生物学
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医学诊断
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DOI
PubMed
高影响因子
JOURNAL OF COLLOID AND INTERFACE SCIENCE
·
2015
·
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.
研究领域:
生物化学
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分析化学
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DOI
PubMed
高影响因子
FOOD CHEMISTRY
·
2024
·
IF 8.5
Yongfu Pu,Zhijia Gu,Toine F.H. Bovee,Ying Yang,Yu Ying,Maokang Li,Xiaodi Hong
A novel superparamagnetic photonic crystal DNA probe (Fe 3 O 4 @SiO 2 @amino@DNA SPC) was developed to enable rapid visual detection of Hg 2+ . This unique photonic crystal (PC) was synthesized by combining superparamagnetic nanospheres with DNA probes. The DNA probe, rich in thymine (T), detects mercury ions through base mismatch, resulting in the formation of T–Hg 2+ –T loop hairpin structures. With the binding of Hg 2+ to the probe attached to superparamagnetic nanospheres, the PC structure assembled by these nanospheres, formed by the magnetic field, was changed. This change enhanced the reflection intensity; it could be quantified using a fiber optic spectrometer and was visible to the naked eye. The Fe 3 O 4 @SiO 2 @amino@DNA SPC, specific to Hg 2+ , exhibited a reflection peak at 679 nm, which intensified with increasing Hg 2+ concentration. The reflection intensity increased by 132.58 a.u., and the PC color shifted from red to yellow as the Hg 2+ concentration increased from 0.1 μg/L to 1 mg/L.
研究领域:
材料科学
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分析化学
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环境科学
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DOI
PubMed
高影响因子
Foods
·
2024
·Vol. 13
·期 12
·1878
·
IF 4.7
Yushi Wei,Dan Zhang,Junhui Pan,Deming Gong,Guowen Zhang
Indole-3-propionic acid (IPA) is a plant growth regulator with good specificity and long action. IPA may be harmful to human health because of its accumulation in vegetables and fruits. Therefore, in this study, the properties of the interaction between calf thymus DNA (ctDNA) and IPA were systematically explored using multispectroscopic and computational modeling approaches. Analysis of fluorescence spectra showed that IPA binding to ctDNA to spontaneously form a complex was mainly driven by hydrogen bonds and hydrophobic interaction. DNA melting analysis, viscosity analysis, DNA cleavage study, and circular dichroism measurement revealed the groove binding of IPA to ctDNA and showed that the binding did not significantly change ctDNA confirmation. Furthermore, molecular docking found that IPA attached in the A-T rich minor groove region of the DNA. Molecular dynamics simulation showed that DNA and IPA formed a stable complex and IPA caused slight fluctuations for the residues at the binding site. Gel electrophoresis experiments showed that IPA did not significantly disrupt the DNA structure. These findings may provide useful information on the potential toxicological effects and environmental risk assessments of IPA residue in food at the molecular level.
研究领域:
生物化学
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分子生物学
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计算生物学
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DOI
PubMed
高影响因子
Journal of Analysis and Testing
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2022
·Vol. 6
·期 1
·12-19
·
IF 0
Wang Xin-Yan,Li Yuanfang,Lv Shuzhen,Bi Sai
Herein, a dual-signal electrochemical biosensor has been developed by self-assembly of pH-activatable i-motif probes on magnetic microparticles (MMPs) coupled with DNA walker for signal amplification. In this study, the cytosine (C)-rich single-stranded DNAs are hybridized with DNA initiators to obtain the long-nicked duplexes with repeated units, which are further captured on MMPs to form the magnetic i-motif containers. The resulting duplexes contain abundant G–C base pairs, thus providing extensive binding sites for doxorubicin (DOX). At acidic pH, the C-rich sequences are folded into i-motif structure, resulting in the release of DOX and walker initiators. In this case, the liberated DOX is adsorbed on graphene quantum dots-modified glassy carbon electrode via π–π interaction, while the walker initiators as a moving part can catalyze the hybridization between MB-modified fueler DNA and tracker DNA on electrode, contributing to the generation of dual electrochemical signals induced by MB and DOX. Importantly, the magnetic separation can effectively reduce the background, achieving sensitive biosensing of pH ranging from 4.0 to 7.4 with excellent stability. Moreover, the proposed dual-signal electrochemical biosensor has been successfully applied for accurate monitoring of pH in human serum, which holds great potential in pH-dependent bioassays, especially in ultra-micro analysis for clinical applications.
研究领域:
生物化学
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分析化学
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医学诊断
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DOI
SPECTROCHIMICA ACTA PART A-MOLECULAR AND BIOMOLECULAR SPECTROSCOPY
·
2018
·
IF 2.88
Jie-Hua Shi,Yan-Yue Lou,Kai-Li Zhou,Dong-Qi Pan
As a sulfonylurea herbicide, sulfosulfuron is extensively applied in controlling broad-leaves and weeds in agriculture. It may cause a potential risk for human and herbivores health due to its widely application and residue in crops and fruits. The study of the binding characteristics of calf thymus DNA (ct-DNA) with sulfosulfuron was performed through a series of spectroscopic techniques and computer simulation. The experimental results showed sulfosulfuron interacted with ct-DNA through the groove binding. The negative values of thermodynamic parameter (ΔH 0 , ΔS 0 and ΔG 0 ) revealed that the reaction of sulfosulfuron with DNA could proceed spontaneously, and the hydrogen bonding and van der Waals forces were essential to sulfosulfuron–ct-DNA binding, which was further verified by molecular docking study. Meanwhile, the electrostatic and hydrophobic interactions also played a supporting function for the interaction of sulfosulfuron with ct-DNA. The circular dichroism (CD) results exhibited a minor change in the secondary structure of ct-DNA during interaction process. Moreover, the conformation of sulfosulfuron had the obvious change after binding to DNA, which suggested that the flexibility of sulfosulfuron contributed to stabilizing the sulfosulfuron–ct-DNA complex.
研究领域:
生物化学
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药物化学
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环境科学
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DOI
PubMed
高影响因子
MICROCHEMICAL JOURNAL
·
2024
·
IF 4.9
Xiuhua Zhang,Heqin Liu,Wanrong Hong,Yumin Wang,Jin-Wen Liu,Yingfeng Qin
In this work, a novel fluorescence nanoprobe based on MnO 2 nanosheets and DNAzyme cyclic amplification was developed for label-free detection of GSH. In our design, the DNA@MnO 2 nanoprobe was facilely prepared through the adsorption of DNA probes on the surface of MnO 2 nanosheets. Importantly, MnO 2 nanosheets in the DNA@MnO 2 nanoprobe can act as the recognizer of analytical target GSH. In the presence of GSH, the DNA@MnO 2 nanoprobe are decomposed owing to redox-responsive reaction between GSH and MnO 2 nanosheets, resulting in the generation of abundant Mn 2+ and the desorption of DNA probes. Subsequently, the Mn 2+ -dependent DNAzyme recycling amplification was rapidly initiated and a large number of the blocked G-rich sequences in DNA probes was released. The G-rich sequences were efficiently folded into G-quadruplex structures, which can remarkably light up the fluorescence intensity of thioflavin T (ThT). Experimental data demonstrated that the DNA@MnO 2 nanoprobes for GSH detection have a wide linear range from 0 to 2000 µM. Moreover, this fluorescence sensing strategy was successfully applied for the detection of GSH in complex biological media with satisfying results, providing a simple, facile and cost-efficient nanoplatform for GSH-related clinical disease diagnosis.
研究领域:
分析化学
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纳米技术
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生物医学工程
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生物化学
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产品关联
DOI
高影响因子
FOOD CONTROL
·
2025
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IF 6.3
Xinru Ren,Weiqing Sun,Bowen Li,Yijing Xiao,Xudong Yue,Meili Yang,Qing-ao Pang,Rui Zhu,Zhiqiang Guo,Haiping Zhang,Yu Wang,Su Liu,Jiadong Huang
The detection of pathogenic bacteria plays a crucial role in ensuring food safety and public health. The integration of isothermal amplification technology with the clustered regularly interspaced short palindromic repeats (CRISPR) and CRISPR-associated proteins (Cas) system offers a versatile approach to detecting foodborne pathogens. However, this method is often constrained by the incompatibility of the reaction systems and the lack of control over CRISPR/Cas activity. Here, we demonstrated a fluorescence biosensing strategy based on linear causal-regulated and autocatalysis-driven DNA circuits (termed LC@ADC) for highly sensitive and specific detection of Salmonella Typhimurium ( S. Typhimurium ). The approach of combining hybridization chain reaction (HCR) with DNAzyme-driven CRISPR/Cas12a activation was proposed for the first time, enabling not only one-step cascade signal amplification but also controllable DNA circuits. The LC@ADC strategy is capable of quantifying concentrations of S. Typhimurium ranging from 10 to 1 × 10 5 CFU/mL, with a detection limit as low as 6.53 CFU/mL. Furthermore, the LC@ADC strategy has been successfully employed for the detection of S. Typhimurium in samples of orange juice, chicken, and lake water. Therefore, this strategy provides a novel approach for the high-performance detection of pathogenic bacteria.
研究领域:
分子生物学
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生物技术
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食品安全
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公共卫生
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生物传感器
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微生物学
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产品关联
DOI
高影响因子
SENSORS AND ACTUATORS B-CHEMICAL
·
2016
·
IF 4.758
Chunying Li,Chunying Wei
We have constructed a label-free fluorescent probe using ssDNA-templated silver nanoclusters (Ag NCs), and its quantum yield (QY) was significantly higher (∼29%) compared to traditional water-soluble fluorescent metal nanoclusters. The proposed approach is simple, non-toxic, sensitive, and selective for the detection of mercuric ion (Hg 2+ ). The fluorescence intensity of ssDNA-Ag NCs was quenched significantly in the presence of Hg 2+ , which might be attributed to the strong interactions between them including the dynamic and static quenching mechanisms. Though Ag + induced a moderate interference to Hg 2+ , there was a negligible quenching in the presence of other metal cations. In addition, Hg 2+ could be detected as low as 4.5 nM, within a good linear range from 0 to 150 nM ( R 2 = 0.995). More importantly, this method has also been successfully applied to the detection of Hg 2+ in the real water samples. Thus, the ssDNA-Ag NCs detection system is potentially suitable for Hg 2+ sensing in environmental samples.
研究领域:
生物化学
·
环境科学
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分析化学
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DOI
高影响因子
JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE
·
2018
·Vol. 99
·期 6
·3192-3202
·
IF 2.379
Zhisheng Zhou,Xing Hu,Guowen Zhang,Rui Wang,Deming Gong
BACKGROUND 5-Hydroxymethyl-2-furaldehyde (5-HMF), a by-product of the Maillard reaction, usually present in fried and baked food, may cause potential harm to the human body. Here, the interaction between 5-HMF and calf thymus DNA (ctDNA) under physiological buffer (pH 7.4) was studied using multi-spectroscopic methods combined with multivariate curve resolution–alternating least squares (MCR-ALS) chemometrics and molecular simulation techniques. RESULTS The concentration profiles and pure spectra of the three components (5-HMF, ctDNA and 5-HMF–ctDNA complex) were extracted from highly overlapping spectra using MCR-ALS analysis, which verified the formation of 5-HMF–ctDNA complex. The binding constant being of the order of 10 3 L mol −1 at four temperatures (292, 298, 304 and 310 K) indicated a weak affinity in the binding of 5-HMF to ctDNA. The binding interaction was mainly driven by hydrogen bonds and van der Waals forces. Viscosity analysis, melting assay, ionic strength effect and competitive fluorescence studies ascertained that 5-HMF bound to ctDNA through groove binding, and it tended to bind to guanine–cytosine rich region of ctDNA which was characterized using Fourier transform infrared spectra and molecular docking. Circular dichroism spectral analysis and DNA cleavage assays indicated that the ctDNA conformation was altered from B to A form and 5-HMF caused DNA damage at higher concentration. CONCLUSIONS The results suggested that 5-HMF bound to ctDNA through groove binding and caused DNA damage. This research may contribute to understand the binding mechanism of 5-HMF to ctDNA and to the assessment of the toxicological effect of 5-HMF in biological processes. © 2018 Society of Chemical Industry
研究领域:
化学
·
生物化学
·
毒理学
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分子生物学
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DOI
PubMed
高影响因子
CELL BIOLOGY INTERNATIONAL
·
2022
·Vol. 46
·期 11
·1900-1914
·
IF 4.473
Bin Xie,Feng Peng,Fengping He,Yixing Cheng,Jiangtao Cheng,Zhibing Zhou,Wei Mao
Ras-association domain family 1A (RASSF1A) is one of the most methylated genes in lung cancer (LC). We investigate whether the high DNA methylation level of RASSF1A can relieve the resistance of RASSF1A to LC by inhibiting RASSF1A's transcription factor binding to RASSF1A. RASSF1A expression in tissues and cells was tested utilizing quantitative real-time polymerase chain reaction (qRT-PCR), and Western blot. RASSF1A expression and RASSF1A methylation level in LC cells exposed to 5-Aza-dc were assessed by qRT-PCR and quantitative methylation-specific PCR. The association between CTCF and RASSF1A was assessed using hTFtarget, ChIP, and luciferase reporter gene analysis. The effects of 5-Aza-dc, CTCF, and RASSF1A on cell biological behaviors and epithelial-mesenchymal transition (EMT)-related markers were assessed by cell function experiments and Western blot. Moreover, we constructed the xenograft tumor and pulmonary nodule metastasis models, and assessed tumor volume and weight. RASSF1A expression and pulmonary nodule metastasis were tested utilizing qRT-PCR, Western blot, and H&E staining. RASSF1A was under-expressed in LC tissues and cells. 5-Aza-dc enhanced RASSF1A level and weakened RASSF1A methylation level in LC cells. RASSF1A silencing neutralized 5-Aza-dc-mediated repressing effects on LC cell biological function and EMT. The loss of CTCF binding to RASSF1A in LC cells was associated with DNA methylation. The effect of 5-Aza-dc on RASSF1A level, LC cell malignant behaviors, and EMT-related factors were strengthened by CTCF upregulation. RASSF1A overexpression suppressed LC tumor growth and pulmonary nodule metastasis in vivo. DNA methylation blocked the modulation of RASSF1A expression by CTCF and relieved the resistance of RASSF1A to LC.
研究领域:
癌症生物学
·
分子生物学
·
表观遗传学
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DOI
PubMed
高影响因子
Nanoscale
·
2012
·Vol. 5
·期 2
·744-752
·
IF 5.914
Qian Wan,Lisi Xie,Lin Gao,Zhiyong Wang,Xiang Nan,Hulong Lei,Xiaojing Long,Zhi-Ying Chen,Cheng-Yi He,Gang Liu,Xin Liu,Bensheng Qiu
As a versatile gene vector, minicircle DNA (mcDNA) has a great potential for gene therapy. However, some serious challenges remain, such as to effectively deliver mcDNA into targeted cells/tissues and to non-invasively monitor the delivery of the mcDNA. Superparamagnetic iron oxide (SPIO) nanoparticles have been extensively used for both drug/gene delivery and diagnosis. In this study, an MRI visible gene delivery system was developed with a core of SPIO nanocrystals and a shell of biodegradable stearic acid-modified low molecular weight polyethyleneimine (Stearic–LWPEI) via self-assembly. The Stearic–LWPEI–SPIO nanoparticles possess a controlled clustering structure, narrow size distribution and ultrasensitive imaging capacity. Furthermore, the nanoparticle can effectively bind with mcDNA and protect it from enzymatic degradation. In conclusion, the nanoparticle shows synergistic advantages in the effective transfection of mcDNA and non-invasive MRI of gene delivery.
研究领域:
生物医学工程
·
分子生物学
·
影像医学
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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）