JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
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2019
·
IF 3.571
Jia-Nan Yan,Jia-Run Han,Xin-Yu Jiang,Wen-Hui Shang,Wen-Gang Jin,Yi-Nan Du,Hai-Tao Wu
Involvement of DNA in gelation and microstructural properties of scallop (Patinopecten yessoensis) male gonad hydrolysates (SMGHs) and corresponding hybrid gel with κ-carrageenan (SMGHs/κ-C) was studied using DNase pretreatment. Although DNase pretreatment significantly transformed SMGHs from weak gels to liquid, it made SMGHs have a superior synergistic effect on gel formation with κ-C by evidence of 2.7-fold G′ and 1.1-fold melting temperature. However, the relaxation time (T21 and T23), functional groups, and flocculation behavior were comparable between SMGHs/κ-C and SMGHs/DNase/κ-C. Moreover, SMGHs/DNase/κ-C exhibited a denser network with more numerous patches and larger void spaces. These results suggest that DNA contributes to the gel formation of SMGHs whereas restricts more cationic peptides in SMGHs to bind sulfate groups in κ-C during gel formation.
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CHEMOMETRICS AND INTELLIGENT LABORATORY SYSTEMS
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2018
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IF 2.701
Cai-Xia Shi,Qing Liu,Zeng-Ping Chen,Ru-Qin Yu
Exonuclease III assisted target recycling amplification strategy can be used to enhance the sensitivity of mass spectrometry for the detection of short DNA sequences. However, the distribution pattern of DNA fragments produced by exonuclease III assisted target recycling amplification is generally different for samples with different concentrations of the target DNA sequence, which hinders the extraction of both qualitative and quantitative information of the target DNA from mass spectral measurements using traditional univariate or multivariate models. In this contribution, an advanced model was derived based on a reasonable assumption for the qualitative and quantitative analysis of the mass spectral measurements of DNA fragments produced by exonuclease III-assisted target recycling amplification. Experimental results demonstrated that the integration of exonuclease III assisted target recycling amplification, mass spectrometry and the advanced model could achieve sensitive and accurate quantitative results for a target short DNA sequence in complex biological medium with a detection limit of 50 pM and a mean recovery rate within the range of 89.5%–106.7%. More interestingly, the proposed model could unambiguously identify single nucleotide polymorphisms based on the distribution patterns of residual DNA fragments. Therefore, with the aid of the proposed model, mass spectrometry based on exonuclease III assisted recycling amplification has great potential for the reliable, sensitive, selective, and relatively low-cost detection and quantification of short DNA sequences in clinical diagnosis and biomedical research.
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ELECTROANALYSIS
·
2018
·Vol. 30
·期 8
·1723-1733
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IF 2.851
Xiaping Zhu,Yali Yuan,Yun Zhang,Jianping Li,Hongcheng Pan
Three different carbon materials, graphite, graphene and multiwalled carbon nanotubes (MWCNTs), were applied to fabricate carbon paste electrodes and used directly as working electrodes without any further modification in a simple electrochemical system for simultaneous detection of four DNA bases, guanine, adenine, thymine and cytosine. EIS and SEM were used to characterize the formed carbon paste electrodes made from different carbon nanomaterials and silicon oil, respectively. Conditions for bases detection were studied, such as ratio of carbon nanomaterials to silicon oil, types of buffer saline and pH. An unexpected result was discovered that compared with graphite and graphene, MWCNTs in carbon paste electrodes were not able to obtain admirable electrochemical behavior, the possible reason of which was preliminary discussed. Individual and simultaneous detection of four bases were successfully carried out, with acceptable linear ranges and low detection limits. Furthermore, this facile method had admirable reproducibility, stability and acceptable recovery in real urine sample (97.62 % ∼103.36 %), indicating certain practical potential.
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Food Analytical Methods
·
2018
·Vol. 11
·期 11
·3095-3102
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IF 2.245
Wang Hai-Bo,Li Yang,Bai Hong-Yu,Zhang Zi-Ping,Li Yong-Hong,Liu Yan-Ming
In this work, a rapid and label-free fluorescent sensing method has been established for tetracycline (TC) detection by using poly(adenine) (poly A) DNA-templated Au nanoclusters (AuNCs) as fluorescence indicator. The obtained AuNCs exhibited excellent fluorescence intensity and good stability. In the presence of tetracycline, the fluorescence intensity of AuNCs was obviously reduced due to the interactions between the tetracycline and the poly A DNA-templated AuNCs. Under the optimum conditions, the strategy permitted sensitive detection of tetracycline in a linear range from 0.1 to 60 μM and with a limit of detection of 20 nM. In addition, the sensor was successfully applied to determinate the tetracycline content in milk samples. More importantly, it could be easily performed within 10 min at room temperature. Thus, it could provide a rapid, convenient, label-free, and high-sensitive fluorescent platform for tetracycline detection.
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ACTA BIOCHIMICA ET BIOPHYSICA SINICA
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2018
·Vol. 50
·期 6
·567-578
·
IF 2.224
Zhang Yingying,Cong Linhai,He Jiayan,Wang Yu,Zou Yingying,Yang Zhihong,Hu Yuexin,Zhang Shiwen,He Xiaoguang
Hypopharyngeal carcinoma (HC) is one of the most malignant tumors in the upper aerodigestive tract. Currently, there are no effective treatments for HC. Gold nanoparticles (AuNPs) are a promising tool that can be used for plasmonic photothermal therapy (PPTT), which refers to the use of electromagnetic radiation, most often in near infrared (NIR) region, for the treatment of various medical conditions including cancer. AuNPs have been proved to be a promising tool for NIR spectroscopy-mediated photothermal therapies. In this study, we chemically conjugated AuNPs with a monoclonal antibody (mAb) targeting the epidermal growth factor receptor (EGFR), a cell-surface receptor that is overexpressed in many cancers. We then assessed the effect of NIR photothermal treatment with the EGFRmAb–AuNPs in FaDu HC cells. Our data showed that nanoparticle conjugation with the EGFRmAb improved the specific targeting towards FaDu cells and reduced cytotoxicity towards normal (293 T) cells which do not overexpress the EGFR. A significant amount of our EGFRmAb-conjugated AuNPs could enter the nucleus. Moreover, the expression levels of double strand DNA break repair proteins, including p-ATR, p-CHK1, and p-CHK2 were increased following AuNPs treatment, indicating the presence of DNA damage. These findings suggest that the AuNPs can potentially disrupt genome integrity and induce apoptosis. In addition, EGFRmAb–AuNPs+NIR could induce FaDu cell apoptosis, accompanied by the inhibition of the PI3K/AKT/mTOR pathway and stimulation of DNA damage response. Based on these data, PPTT using the EGFRmAb–AuNPs could be a new promising treatment for HC.
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ACS Applied Materials & Interfaces
·
2018
·
IF 8.097
Jing Li,Jiantao Yu,Yishun Huang,Haoran Zhao,Leilei Tian
Oligonucleotide-stabilized silver nanoclusters (AgNCs) show promising applications in bioimaging and bio-/chemo-sensing. However, their unsatisfactory photostability limits their practical applications. In this work, fluorescent AgNCs were synthesized in situ in a DNA hydrogel, consisting of cross-linked enzymatically amplified polymeric DNAs with cytosine-rich sequences in the presence of Ag+. The fluorescence property of the resultant AgNCs was optimized by a rational design of the DNA sequences to cover a broad spectrum with comparable green and red emissions. Under the protection of the DNA hydrogel, the AgNCs showed significantly improved photostability in an ambient oxygen environment, as well as low cytotoxicity even at a high concentration. Therefore, these properties show the rolling-circle-amplification-stabilized AgNCs to be a promising possible fluorescent probe for the detection of reactive oxygen/nitrogen species (ROS/RNS) in live cells because red-emitting species are susceptible to oxidation and consequently convert to green-emitting species. Finally, the as-prepared AgNCs were demonstrated to be a sensitive and specific probe for cellular imaging and the monitoring of ROS/RNS levels, which broadens the applications of AgNCs and provides a new tool for related biological investigations.
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Journal of Materials Chemistry B
·
2019
·Vol. 7
·期 23
·3661-3669
·
IF 5.047
Dan Ou,Duanping Sun,Xiangan Lin,Zhixian Liang,Yongsheng Zhong,Zuanguang Chen
Developing highly sensitive and selective detection strategies for biomarkers is beneficial for fundamental research and disease diagnosis. Herein, we constructed a sandwich-type electrochemical aptasensor to detect the breast cancer cell biomarker Human Epidermal Growth Factor Receptor 2 (HER2). The aptasensor was a combination of tetrahedral DNA nanostructures (TDNs)–aptamer as recognition probes and flower-like nanozymes/horseradish peroxidase (HRP) as signal nanoprobes. In the process of assembling the biosensor, the TDN–aptamer 1 as a bio-recognition element was immobilized on the gold electrode (GE) surface for capturing the biomarker HER2. The nanozyme Mn3O4 was decorated by Pd@Pt nanozymes which were linked by the aptamer 2 and natural enzyme HRP. The designed Mn3O4/Pd@Pt/HRP nanoprobe (nanoprobe 1) was used to amplify the biosensor signal via catalyzing the oxidation of hydroquinone (HQ) with hydrogen peroxide (H2O2). After binding HER2, an aptamer–protein–nanoprobe sandwich system was fabricated on the GE surface. Lastly, a Pd@Pt/HRP/complementary DNA (cDNA) nanoprobe (nanoprobe 2) was added on the surface of nanoprobe 1 through DNA hybridization of aptamer 2 and cDNA to form a dendritic DNA nanostructure to further amplify the signal significantly. The results indicate that the aptasensor shows a broad linear response from 0.1 to 100.0 ng mL−1 and the low detection limit is 0.08 ng mL−1. The designed approach holds great potential for the construction of various aptasensors for the effective and convenient detection of different biomarkers.
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Theranostics
·
2018
·
IF 8.537
Shulian Bai,Bangtian Xu,Yongcan Guo,Juhui Qiu,Wen Yu,Guoming Xie
While detection of microRNA with or without signal amplification is highly informative, nanosensors with high specificity for cell-specific RNA detection are rare. Methods: In this study, a tetrahedral DNA nanostructure (TDN) with a specific function was combined with gold nanoparticles (Au-NP) possessing fluorescence quenching effects and a large surface area to fabricate a fluorescence resonance energy transfer based nanosensor (Au-TDNN). The presence of miR-21 (target) can separate the fluorescent dye-labeled detection probe on Au-TDNNs from Au-NPs, which separates the donor and acceptor, thus inducing an intensive fluorescence signal. High specificity for discerning point mutation targets was achieved by rationally designing the nucleic acid strand displacement reaction to occur spontaneously with ΔG 0 ≈ 0 based on thermodynamic parameters; under this condition, slight thermodynamic changes caused by base mismatch exert significant effects on hybridization yield. Results: Chemically synthesized DNA of three single-base-changed analogues of target, let-7d, and miR-200b were tested. A discrimination factor (DF) of 15.4 was produced by the expected detection probe on Au-NPs for proximal single-base mismatch. As the control group, the DF produced by an ordinary detection probe on Au-NPs only reached 2.4. The feasibility of the proposed strategy was also confirmed using hepatocyte cancer cells (HepG2). Conclusion: This improved nanosensor opens a new avenue for the specific and easy detection of microRNA in live cells.
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JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY
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2015
·
IF 2.96
Yan-Qing Wang,Hong-Mei Zhang
Bisphenol A and its analogues have carcinogenic potentials and toxicities. However, there are lacks of studies elucidating gene toxic interactions of bisphenols with DNA. In this work, the binding modes of five bisphenol compounds with calf thymus DNA were characterized. The multi-spectroscopic experimental results indicated that the fluorescence quenching of bisphenols by calf thymus DNA point to groove binding. The ultraviolet visible and circular dichroism spectral data displayed that bisphenols partly induced conformational changes of calf thymus DNA. In addition, the binding constants of bisphenol A, diphenolic acid, bisphenol AF, bisphenol AP, bisphenol fluorine with calf thymus DNA obtained from fluorescence emission spectra were 1.09 × 10 4 , 3.65 × 10 4 , 4.46 × 10 4 , 1.69 × 10 4 , 4.49 × 10 4 L mol −1 at 298.15 K, which indicated that the multi-noncovalent binding forces were involved in the binding processes. In silico investigations indicated that DNA has the preferable binding sites binding with bisphenols by minor groove binding and electrons transfer from DNA bases to bisphenols occurred. In addition, the structural differences of these five bisphenols partly affected the binding ability of them with DNA.
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TALANTA
·
2015
·
IF 3.545
Xiaoqian Yu,Yingying Sheng,Yanjun Zhao,Aiping Fan
Bromophenol red, known as chemical indicator, was found to act as a novel potent signal enhancer of the peroxidase-catalyzed luminol–H 2 O 2 chemiluminescent (CL) reaction. It was found interestingly that bovine serum albumin (BSA) played a role in the enhanced chemiluminescent reaction (ECR). The addition of 2.5 mg mL −1 BSA into bromophenol red-enhance CL system showed 36 times stronger CL signal than that without addition of BSA. Mechanism study showed that the luminophors in the ECR were still 3-aminophthalate ion in an excited state (3-APA*). In addition, singlet oxygen ( 1 O 2 ) and hydroxyl radical ( ∙ OH) played a role in the ECR. The possible mechanism was discussed in the present study. The effect of pH, reaction time, and concentration of bromophenol red, BSA, luminol, and H 2 O 2 on CL intensity of the peroxidase-catalyzed CL reaction was studied. The detection limit value (LOD) of HRP and streptavidin-modified HRP in the proposed ECR with bromophenol red and BSA was 0.20 ng mL −1 and 0.05 ng mL −1 , respectively. This novel luminol–H 2 O 2 –HRP–bromophenol red-BSA CL system was applied to the CL detection of sequence-specific DNA based on a magnetic separation process. As low as 0.4 fmol of target DNA could be sensitively detected using the proposed CL system without any amplification process. The obtained results demonstrate very promising perspectives for using bromophenol red and BSA to improve the sensitivity of CL detection of sequence-specific DNA. In addition, this novel ECR system can also be generalized for CL immunoassay , CL western blotting, and so on.
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BIOSENSORS & BIOELECTRONICS
·
2015
·
IF 6.409
Hong Guo Chen,Wang Ren,Jing Jia,Ji Feng,Zhong Feng Gao,Nian Bing Li,Hong Qun Luo
We describe here a fluorometric assay for sensitive detection of oligonucleotides , based on a target recycling amplification strategy driven by toehold-mediated strand displacement reaction and on exonuclease III (Exo Ш)-assisted fluorescence background suppression strategy. The network consists of a pair of partially complementary DNA hairpins (HP 1 and HP 2 ) with 3′ overhang ends, between which the spontaneous hybridization is kinetically hindered by the stems. The target DNA is repeatedly used to trigger a recycling progress between the hairpins, generating numerous HP 1 –HP 2 duplex complexes. Exo III was then employed to digest the double strand parts of the residual hairpins and the intermediate products. The fluorescent dye , SYBR Green I , binds to the double-strand DNA products and emits strong fluorescence to achieve sensitive detection of the target DNA with the detection limit of 5.34 pM. Moreover, this proposed strategy showed high discrimination efficiency towards target DNA against mismatched DNA and was successfully applied in the analysis of human serum sample.
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JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY
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2015
·
IF 2.96
Junhui Pan,Langhong Wang,Guowen Zhang,Deming Gong
The characteristics of binding of 2-tert-butyl-4-methylphenol (TBMP), a synthetic phenolic antioxidant with hydroxypropyl-β-cyclodextrin (Hp-βCD) and calf thymus DNA (ctDNA) were investigated by multi-spectroscopic techniques and molecular simulation. The results indicated that TBMP preferred to form a 1:1 inclusion complex with Hp-βCD, with an inclusion constant of determined to be 7.15 × 10 3 L mol −1 . The intercalative mode of TBMP to ctDNA was supported by ctDNA melting temperature and relative viscosity studies, salt quenching effect, competitive binding with methylene blue and molecular modeling. The changes in Fourier transformed infrared (FT-IR) and circular dichroism (CD) spectra suggested that TBMP mainly bound to the G–C rich region with inducing a significant perturbation in B-like DNA structure. It was also found that Hp-βCD decreased the binding ability of TBMP with ctDNA, but did not affect the interactive mode between TBMP and ctDNA, and the formed inclusion complex of TBMP–Hp-βCD decomposed in the presence of ctDNA. This study may provide insights into the mechanism of binding of TBMP with ctDNA and the role of Hp-βCD in the TBMP–ctDNA interaction.
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