CHEMICAL ENGINEERING JOURNAL
·
2024
·
IF 13.3
Haibo Zhang,Lizhi Li,Gangfu Chen,Nancheng Yin,Jiangao Guo,Xinrui Ni,Yixin Liu,Ke Wu,Weikun Guan,Cheng Zhang,Xiaochun Wu,Shi Wenkai,Qingfeng Xing,Dongsheng Guo
The existence of Antibiotic Resistance Genes (ARGs) in diverse everyday environments, such as animal agriculture, natural surroundings, and waste products, presents potential threats to both human health and food safety. Herein, metagenomic sequencing technique was employed to investigate the impact of two zinc-based nanoparticles , Graphene Oxide-modified Zinc Oxide (GOnZnO) and Microorganism-mediated Zinc Oxide (Micro-ZnO), on the microbial community , ARGs, and DNA replication. The results showed that both GOnZnO and Micro-ZnO significantly reduced zinc levels in animal manure when compared to the control group of nano zinc oxide (nZnO). The order of ARGs copy numbers was nZnO > GOnZnO > Micro-ZnO, with a significant difference between the GOnZnO and Micro-ZnO groups. Additionally, the expression levels of various DNA replication genes, including DNA polymerase III holoenzyme , dnaB , dnaG , RNeseH , polA , and Lig , were significantly lower in the GOnZnO group compared to the nZnO group. The Micro-ZnO group exhibited even lower expression levels of these genes compared to the GOnZnO group. In contrast, GOnZnO and Micro-ZnO had no significant impact on archaeal DNA replication pathway-related genes. Specifically, the expression of RNASEH1 was significantly higher in the Micro-ZnO group compared to the GOnZnO and nZnO groups. Co-occurrence network analysis revealed changes in ARGs driven by bacterial and eukaryotic DNA replication and microbial community dynamics. However, there was no correlation observed between ARGs and archaeal DNA replication genes. Overall, these findings add to the existing literature regarding the application of GOnZnO and Micro-ZnO as potential agents for reducing ARGs pollution.
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TALANTA
·
2024
·
IF 5.6
Lin-Ge Chen,Jiajun Li,Lu Sun,Hai-Bo Wang
Herein, a sensitive ratiometric and split-type fluorescent sensing platform has been constructed for DNA detection based on one signal precursor and two fluorescent signal indicators. In this assay, o -phenylenediamine (OPD) was selected as the signal precursor. On one hand, Cu 2+ can oxidize OPD to produce 2, 3-diaminophenazine (DAP), which with an emission peak at 555 nm. On the other hand, ascorbic acid (AA) could react with Cu 2+ to generate dehydroascorbic acid (DHAA), which could further react with OPD to form 3-(1, 2-dihydroxy ethyl)furo[3, 4- b ]quinoxalin-1 (3H)-on (DFQ) with a strong emission peak at 420 nm. As a result, the formation of DAP was inhibited, and leading to the decrease of fluorescence intensity at 555 nm. Alkaline phosphatase (ALP) could catalyze the substrate l-ascorbic acid-2-phosphate (AA2P) to produce AA in situ. Inspired by the successful use of ALP as a biocatalytic marker in bioassay, a split-type ratiometric fluorescent assay has been designed for DNA detection by using H1N1 DNA as the target model. It was realized for ratiometric fluorescent determination of H1N1 in a linear ranging from 50 pM to 1.5 nM with a limit of detection of 10 pM. The novel strategy could reduce the mutual interferences between the biomolecular recognition system and the fluorescence signal conversion system, which improving the accuracy of detection and effectively reducing the background signal. Furthermore, the strategy provided a promising platform for biomarkers detection in the fields of ratiometric fluorescent biosensors and bioanalysis .
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MICROCHEMICAL JOURNAL
·
2025
·
IF 5.1
Tingting Bai,Yanjia Liu,Ling Jian,Zhien Liu,Longxin Xu,Zhongwen Liu,Daohong Wu
β-lactoglobulin (β-Lg) is the most allergenic allergen in milk and can affect the health of infants and young children seriously. Detecting β-Lg in food products is an urgent requirement. The coordination of Cu(II) with single-strand DNA as metalloenzyme was used to catalyze TMB (3, 3′, 5, 5′-tetramethylbenzidine)-H 2 O 2 reaction to generate electrochemistry signal. Firstly, DNA 1 self-assembly on the electrode and hybridized with DNA 2 to form DNA 1 /DNA 2 double-stranded complex. Secondly, β-Lg combined with DNA 2 (aptamer) which partially complementary with DNA 1 via target-ligand interaction, β-Lg/DNA 2 complex formed and released, DNA-Cu(II)-AuNPs nanocomposites as catalysis for TMB-H 2 O 2 reaction was introduced subsequently. Thus, AuNPs coated with DNA-metalloenzyme as target-responsive and signal-amplification material for β-Lg detection was obtained. The detection limit of 1.69 pg/mL and linear range of 0.01—100 ng/mL was obtained. This aptasensor exhibits excellent selectivity for interfering ingredients, even if their concentration is 1000 times that of β-Lg. The recovery of standard addition experiment at three levels for four kinds of foods is in the range of 84.50–93.70 %, and RSD of 4.23–11.58 % was obtained. More importantly, β-Lg content detected in another six kinds of food products is consistent with β-Lg content reported which indicated good accuracy was obtained. In a word, this aptasensor exhibits prominent sensitivity, selectivity, accuracy, stability and repeatability which should be provided a universal substitution combination strategy for food allergens detection in future.
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MICROCHIMICA ACTA
·
2025
·Vol. 192
·期 8
·1-11
·
IF 5.3
Sun Lu,Xu Qian-Yue,Wang Hai-Bo
Being enlightened by Fenton-like reaction, a novel chemically driven redox-cycling system has been developed without the participation of additional reducing agents. In this chemically driven cycling system, terephthalic acid (TA) was selected as fluorescence substrate to trap the generated hydroxyl radicals (·OH) to produce 2-hydroxyterephthalic acid (TAOH), which possessed high fluorescence intensity. On one hand, Cu + triggered a Fenton-like reaction with H 2 O 2 to yield Cu 2+ and ·OH. But on the other hand, the generated Cu 2+ could react with H 2 O 2 to produce Cu + and O 2 ·− (further converted into ·OH). The regenerated Cu + could take turns reacting with H 2 O 2 to produce more ·OH and form more TAOH. As a result, a kind of chemical redox-cycling signal amplification reaction was touched off. On the basis of copper based metal–organic frameworks (Cu-MOFs) and signal amplified strategy, a magnetic separated-mode fluorescent biosensor was designed for the sensitive determination of DNA. The method allowed ultrasensitive detection of target DNA H1N1 with a linear range from 5 pM to 10 nM, and with a limit of detection of 2 pM. This magnetic separated-type system could effectively minimize the background signals by reducing the mutual interferences between nucleic acids hybridization and fluorescence signal conversion. Graphical
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ANALYTICA CHIMICA ACTA
·
2024
·
IF 5.7
Chen-Yu Xue,Ya-Hong Liu,Yue Yu,Ying Liu,Ying-Lin Zhou,Xin-Xiang Zhang
The apurinic/apyrimidinic (AP) site is an important intermediate in the DNA base excision repair (BER) pathway, having the potential of being a biomarker for DNA damage. AP sites could lead to the stalling of polymerases, the misincorporation of bases and DNA strand breaks, which might affect physiological function of cells. However, the abundance of AP sites in genomic DNA is very low (less than 2 AP sites/10 6 nts), which requires a sensitive and accurate method to meet its detection requirements. Here, we described an ultrasensitive quantification method based on a hydrazine- s -triazine reagent (i-Pr 2 N) labeling for AP sites combining with high-performance liquid chromatography-tandem mass spectrometry (HPLC-MS/MS). The limit of detection reached an ultralow level (40 amol), realizing the most sensitive MS-based quantification for the AP site. To guarantee the accuracy of the quantitative results, the labeling reaction was carried out directly on DNA strands instead of labeling after DNA enzymatic digestion to reduce artifacts that might be produced during the enzymatic process of DNA strands. And selective detection was realized by MS to avoid introducing the false-positive signals from other aldehyde species, which could also react with i-Pr 2 N. Genomic DNA samples from different mammalian cell lines were successfully analyzed using this method. There were 0.4–0.8 AP sites per 10 6 nucleotides, and the values would increase 16.1 and 2.75 times when cells were treated with genotoxic substances methyl methanesulfonate and 5-fluorouracil, respectively. This method has good potential in the analysis of a small number of cell samples and clinical samples, is expected to be useful for evaluating the damage level of DNA bases, the genotoxicity of compounds and the drug resistance of cancer cells, and provides a new tool for cell function research and clinical precise treatment.
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MICROCHEMICAL JOURNAL
·
2025
·
IF 5.1
Guobin Huang,Weiting Xu,Jinxin Chi,Chenchen Lin,Jiabin Wang,Xucong Lin
Environmental smog pollution induces chronic obstructive pulmonary disease (COPD), and causes the urgent need of timely, safe and quantitative testing for risk assessment. The miRNA-based bioanalysis offers a non-invasive access to rapid COPD screening, while challenges remain in accurately identifying miRNAs from complex matrices. Herein, a novel bionic aptasensor has been pioneered for meeting the specific and sensitive detection of the miR-155 in serum for COPD diagnosis, integrating tetrahedral framework nucleic acid (tFNA) confined affinity recognition and enzyme-free hybridization chain reaction (HCR) amplification strategy. Precision-designed tFNAs were fabricated and hybridized with FAM-labeled cDNAs, enabling dual-mode recognition mechanism including spatially confined aptamer recognition and bionic molecular sieve size-selective action. Proteins and pre-miRNAs were excluded, and the target microRNA-155 was specifically captured. This triggered a structural switch of tFNAs and activated cDNA-mediated HCR, assembling double-stranded DNA and achieving exponential fluorescence enhancement synergistically produced by SYBR Green I (SGI) and FAM. The optimal limit of detection as 53 fM for miRNA-155 was achieved with laser-induced fluorescence (LIF). Applied to COPD diagnosis, the detections of trace miRNA-155 were satisfactory and the recovery yields were ranged in 96.4 ± 5.2 % ∼106.2 ± 2.1 % ( n = 3) in the serum of COPD patients. Smoke-exposed model rats were also analyzed, and the miRNA-155 was achieved with a significant concentration up-regulation to light the COPD. It offers a high-performance protocol for meeting the non-invasive rapid screening of COPD, further providing promising technologies for evaluating safety issues of environmentally induced diseases.
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ANALYST
·
2019
·Vol. 145
·期 2
·445-452
·
IF 4.019
Yanfang Cui,Haiwang Wang,Su Liu,Yu Wang,Jiadong Huang
The self-assembly of plasmonic nanoparticles provides a powerful approach to generate surface-enhanced Raman scattering (SERS), which promotes the actual applications in chemical and biomolecular analyses. Herein, we developed a facile SERS sensing strategy for an ATP assay with a 3-D DNA nanomachine that walks by the Exo III cleavage, leading to the formation of AuNP aggregates, which resulted in the enhancement of the electromagnetic field. Depending on the target-activated Exo III cleavage, the 3-D nanomachine can walk along the 3-D track on the surface of AuNPs and generate self-assembled hot-spots to enhance the SERS signal of a Raman dye, allowing a homogenous assay of the ATP concentration with high sensitivity and reproducibility. Under optimized experimental conditions, the biosensor detected ATP with a widened dynamic range from 1 pM to 1 × 105 pM with a limit of detection of up to 0.29 pM. Hence, the novel strategy provides a useful and practical platform for the SERS assay of ATP with high sensitivity and repeatability. Besides, this platform shows great potential for applications in high-throughput assays for drug screening and clinical diagnostics.
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ANALYTICAL SCIENCES
·
2015
·Vol. 31
·期 7
·669-675
·
IF 1.394
Yan Kai,Zhu Yuhan,Cheng Ling,Zhang Jingdong
A novel photoelectrochemical strategy for the sensitive determination of p-nitrophenol (PNP) was developed using a glassy carbon electrode (GCE) modified with CdSe quantum dots (QDs) and DNA composite film (CdSe-DNA/GCE). Various surface analytical techniques, including X-ray diffraction (XRD), transmission electron microscopy (TEM) and scanning electron microscopy (SEM), were employed to characterize the synthesized CdSe QDs and CdSe-DNA modified electrode. The interfacial behaviors of the modified electrodes were analyzed by electrochemical impedance spectroscopy (EIS), and the interaction between PNP and DNA was studied by UV-visible spectrometry. Due to the PNP-DNA interaction, CdSe-DNA/GCE exhibited a sensitive photocurrent response toward PNP under visible-light irradiation. The influencing factors, such as the concentration of DNA used for fabricating CdSe-DNA/GCE and the bias potential applied in the photoelectrochemical measurement, were investigated. Under the optimized conditions, the photocurrent on CdSe- DNA/GCE was linearly increased with the PNP concentration from 0.7 to 50 μmol L −1 , with a detection limit (3 S/N ) of 0.27 μmol L −1 . The proposed photoelectrochemical strategy was successfully applied to monitoring the degradation of PNP.
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MEASUREMENT
·
2025
·
IF 5.6
Xu-guang Hu,Zhan-kun Li,Ju-wei Zhang,Xi-xin Wang,Xiao-ming Chen,Yong Zhao
A label-free fiber-optic optofluidic biosensor integrated into microfluidic chip based on vernier effect is proposed for the specific and high-sensitivity detection of DNA molecules, which is made up of a Michelson interferometer (MI) and a Fabry Perot interferometer (FPI) in parallel. The MI is prepared by a single-hole dual-core micro-structured fiber (MOF) with a suspended core attached to the hole serving as the sensing arm, and used as the sensing element. A micropore is etched directly above the microchannel of MI as the fluid inlet by femtosecond laser processing, and integrated into the microfluidic chip for sample replacement. The detection volume is only nanoliters and the sample can be quickly replaced within seconds. The experimental findings indicate that the proposed optofluidic sensor shows a high refractive index (RI) sensitivity of −8791 nm/RIU and has an ultra-low detection limit of 7.45 × 10 −6 RIU within the range of 1.3328–1.3370. By immobilizing probe DNA (pDNA) molecules on the suspended core through surface functionalization, the optofluidic sensor enables label-free detection of 1 μM complementary DNA (cDNA) solution and shows excellent specificity. The proposed fiber optofluidic biosensor has great development prospects in ultra-low volume and high-sensitivity detection of biomolecules.
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ACS Omega
·
2025
·
IF 4.3
Luyu Lan,Zhipeng Yang,Meijin Lan
Maintenance hemodialysis (MHD) is currently one of the treatments for uremia, but vascular calcification is the most common complication in MHD patients. Research has shown that peripheral blood microRNA-21 is abnormally expressed in uremic patients with vascular calcification. Therefore, it is necessary to detect miRNAs with sensitivity and specificity for early screening of uremia patients with vascular calcification complications. In this work, a light-activated DNA biosensor was constructed by using a catalytic hairpin assembly (CHA) signal amplification strategy and upconversion nanoparticles (UCNPs) for sensitive and specific determination of miRNA-21. A light-activated DNA hairpin (H1) was modified on the superficial layer of the UCNPs to trigger the analyte miRNA. In the presence of both NIR light and miRNA, H1 can hybridize with another DNA hairpin (H2) labeled with BHQ-2 and Cy5 at its two terminals, enabling fluorescence from “OFF” to “ON”. Furthermore, the released analyte miRNA triggers catalytic assembly, establishing an NIR-activated CHA amplification system. The constructed biosensor was used to detect miRNA-21, with a low detection limit (LOD) of 0.25 nM. Additionally, this biosensor can detect miRNA-21 in serum samples, with recoveries ranging from 96.7%–102.0%, suggesting that the current work provides an opportunity to develop NIR-activated signal amplification platforms for sensitive miRNA detection in biological samples.
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ANALYTICAL CHEMISTRY
·
2025
·
IF 6.7
Jinai Chen,Yujiao Wei,Liming Wang,Leyi Chen,Shengnan He,Honglin Liu
We present a digital surface-enhanced Raman spectroscopy (SERS) platform enabling enzyme- and amplification-free single-molecule DNA detection through Poisson distribution-driven quantification and geometrically optimized plasmonic nanostructures. Utilizing high-throughput UV lithography, we fabricated large-area nanopillar arrays (1.5 × 1.5 cm) with tunable heights (500–1300 nm) and periodicities (4–10 μm), addressing key limitations in conventional SERS methods via three innovations: (1) dynamic hotspot generation: Target DNA induces plasmonic dimerization between functionalized gold nanoprobes and Au-capped nanopillars, creating spatially resolved SERS enhancement (1326 cm–1 DTNB signal), (2) digital counting algorithms: Compensate Raman intensity variations by quantifying activated pillars as discrete molecular events, and (3) geometric confinement: Spatial confinement effects enabling statistically robust single-molecule occupancy. This platform achieved 10 fM sensitivity for Diaporthe spp. DNA detection, outperforming PCR-electrophoresis (1 pM) by 2 orders of magnitude. Applied to presymptomatic kiwifruit diagnosis, the system identified pathogen DNA in asymptomatic samples prior to visual symptom development, validated by characteristic DTNB peaks (1326 cm–1) absent in negative controls. The modular design permits multiplexed detection through probe diversification, while the absence of enzymatic steps enables field-deployable operation. By integrating single-molecule statistics with plasmonic signal amplification, this work establishes a robust framework for precision molecular diagnostics, demonstrating transformative potential for agricultural pathogen surveillance and low-abundance biomarker analysis. The technology’s batch-producible nanopillar architecture and digital quantification strategy overcome longstanding reproducibility challenges in SERS-based detection, positioning it as a versatile tool for next-generation biosensing applications.
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TALANTA
·
2025
·
IF 6.1
Zhihui Zeng,Zihan Yan,Hao Jiang,Anyi Li,Junyuan Yang,Xuefei Lv
Prostate cancer is one of the most common malignancies worldwide and a leading cause of cancer-related death in men. MicroRNAs (miRNAs) have emerged as promising and highly specific biomarkers for its detection. However, conventional miRNA-based biosensors face challenges of limited specificity, high false positives in single-target assays, and inadequate sensitivity. Here we developed an integrated pre-amplified DNA logic gate platform with cascaded signal amplification (IPL-CAFS-PCmi) for catalytic fluorogenic sensing of prostate cancer miRNAs. The system uses an AND-gate architecture, combining rolling circle amplification (RCA) for pre amplification, hybridization chain reaction (HCR) for signal enhancement and HCR-assembled multi-component nucleic acid enzymes (MNAzymes) for final cleavage-based amplification. The platform achieved detection limits of 2.21 fM for miR-141 and 2.66 fM for miR-375, with excellent specificity in discriminating single-base mismatches. In diluted human serum, recovery rates ranged from 98.51% to 99.16%, demonstrating strong robustness. By integrating RCA with HCR-mediated MNAzyme assembly in a programmable DNA logic framework, this design provides multi-level cascade amplification at room temperature, significantly improving both sensitivity and specificity. The platform thus represents a versatile tool with strong potential for precision oncology, clinical diagnostics, and point-of-care testing.
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