RSC Advances
·
2019
·Vol. 9
·期 6
·3407-3415
·
IF 3.049
Xinglu Jiang,Chenggui Zhao,Xiaobo Fan,Wei Xu,Rui Zhang,Hongbo Xu,Guoqiu Wu
Cell-free DNA (cfDNA) in blood, which stems from the fetus of pregnant women and tumor in cancer patients, has gained attention in molecular diagnosis. However, cfDNA is less stable, and its amount in the serum is extremely low; these are critical barriers for the utilization of this resource. In this study, a DNA-modified polyacrylamide hydrogel (DNA-Gel) was prepared, and a specialized device was designed to simultaneously catch, purify, concentrate, and detect targeted cfDNA by electrophoresis. We demonstrated that 20–1000 bp ssDNA and dsDNA could be caught and released by the DNA-Gel-based device with high specificity and sensitivity. Upon increasing the number of cycles and electrophoresis time, higher DNA purity and density were achieved, and the separation of serum proteins, untargeted cfDNA, and other charged molecules was promoted. As low as 10 pg μL−1 of DNA could be detected using the DNA-Gel after four cycles of concentration. We also detected 1 fg μL−1 of DNA in the serum with 16 cycles of concentration, followed by 25 PCR cycles. We also designed a device to obtain DNA from the DNA-Gel. We found that the DNA loss rate was around 50%, and A260/A280 was close to 1.7. Thus, we have designed a cost-effective and highly economical device to purify DNA at low concentrations with high specificity and selectivity.
研究领域:
分子生物学
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生物医学工程
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分析化学
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遗传学
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DOI
PubMed
高影响因子
ANALYTICA CHIMICA ACTA
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2016
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IF 4.712
Hongliang Tan,Gonge Tang,Zhixiong Wang,Qian Li,Jie Gao,Shimeng Wu
Metal-organic frameworks (MOFs) have emerged as very fascinating functional materials due to their tunable nature and diverse applications. In this work, we prepared a magnetic porous carbon (MPC) nanocomposite by employing iron-containing MOFs (MIL-88A) as precursors through a one-pot thermolysis method. It was found that the MPC can absorb selectively single-stranded DNA (ssDNA) probe to form MPC/ssDNA complex and subsequently quench the labelled fluorescent dye of the ssDNA probe, which is resulted from the synergetic effect of magnetic nanoparticles and carbon matrix. Upon the addition of complementary target DNA, however, the absorbed ssDNA probe could be released from MPC surface by forming double-stranded DNA with target DNA, and accompanied by the recovery of the fluorescence of ssDNA probe. Based on these findings, a sensing platform with low background signal for DNA fluorescent detection was developed. The proposed sensing platform exhibits high sensitivity with detection limit of 1 nM and excellent selectivity to specific target DNA, even single-base mismatched nucleotide can be distinguished. We envision that the presented study would provide a new perspective on the potential applications of MOF-derived nanocomposites in biomedical fields.
研究领域:
材料科学
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生物医学
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分析化学
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DOI
高影响因子
LUMINESCENCE
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2017
·Vol. 32
·期 6
·988-998
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IF 1.509
Kaixin Xia,Guowen Zhang,Deming Gong
The binding of benzoyl peroxide (BPO), a flour brightener, with calf thymus DNA (ctDNA) was predicted by molecular simulation, and this were confirmed using multi-spectroscopic techniques and a chemometrics algorithm. The molecular docking result showed that BPO could insert into the base pairs of ctDNA, and the adenine bases were the preferential binding sites which were validated by the analysis of Fourier transform infrared spectra. The mode of binding of BPO with ctDNA was an intercalation as supported by the results from ctDNA melting and viscosity measurements, iodide quenching effects and competitive binding investigations. The circular dichroism and DNA cleavage assays indicated that BPO induced a conformational change from B-like DNA structure towards to A-like form, but did not lead to significant damage in the DNA. The complexation was driven mainly by hydrogen bonds and hydrophobic interactions. Moreover, the ultraviolet–visible (UV–vis) spectroscopic data matrix was resolved by a multivariate curve resolution–alternating least–squares algorithm. The equilibrium concentration profiles for the components (BPO, ctDNA and BPO–ctDNA complex) were extracted from the highly overlapping composite response to quantitatively monitor the BPO–ctDNA interaction. This study has provided insights into the mechanism of the interaction of BPO with ctDNA and potential hazards of the food additive.
研究领域:
分子生物学
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生物化学
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药学
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PubMed
高影响因子
Biomaterials Science
·
2022
·Vol. 11
·期 1
·162-169
·
IF 7.59
Ren-Jiang Kong,Xin-Yu Li,Jia-Qi Huang,Xiang Zhou,Fu-An Deng,Yan-Mei Li,Ling-Shan Liu,Shi-Ying Li,Hong Cheng
Tumor cells activate DNA repair pathways to combat the oxidative damage induced by reactive oxygen species (ROS), contributing to their resistance to photodynamic therapy (PDT). Herein, a self-delivery photodynamic sensitizer is developed to enhance oxidative damage by blocking the DNA repair pathway through poly(ADP-ribose) polymerase (PARP) inhibition. Specifically, the photodynamic sensitizer (CeOla) is constructed based on the self-assembly of the photosensitizer chlorine e6 (Ce6) and the PARP inhibitor olaparib (Ola). Of note is that carrier free CeOla has a high drug content and favorable water stability, which could be effectively internalized by tumor cells for robust PDT upon light irradiation. Moreover, CeOla could inhibit the activation of PARP, promote the upregulation of γ-H2AX and reduce the expression of Rad51, thereby blocking the DNA repair pathway to sensitize tumor cells for PDT. As a consequence, the self-delivery CeOla greatly promotes the tumor cell apoptosis and shows a high antitumor performance with low side effects. It serves as a novel platform for the development of self-delivery nanomedicine to overcome oxidative resistance in tumor treatment.
研究领域:
肿瘤学
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药理学
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纳米医学
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分子生物学
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DOI
PubMed
高影响因子
RSC Advances
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2019
·Vol. 9
·期 4
·1982-1989
·
IF 3.049
Chao Zhang,HongLei Zhang,MengNan Han,XueLi Yang,ChaoHong Pei,ZhiDong Xu,Jie Du,Wei Li,Shengxi Chen
Cisplatin is the most widely used anticancer drug, but its side effects limit the maximum systemic dose. To circumvent the side effects, a DNA tetrahedron–affibody nanoparticle was prepared by combination of a DNA chain with cisplatin via interstrand crosslinks or adducts. Each nanocarrier can bind ∼68 molecules of cisplatin. This cisplatin nanoparticle exhibited high selectivity and inhibition for breast cancer HER2 overexpressing cells BT474 and lower toxicity in MCF-7 cells with low HER2 expression. The nano-drug inhibited the growth of BT474 cells by 94.57% at 512 nM (containing 33.3 μM cisplatin), which was higher than that of cisplatin (82.9%, 33.3 μM).
研究领域:
肿瘤学
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分子生物学
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纳米医学
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产品关联
DOI
PubMed
高影响因子
Analytical Methods
·
2024
·
IF 2.7
Chu Cheng,Qingzhou Cheng,Wei Zhou,Yulong Chen,Wenbin Liu,Zhiling Zhang,Jingsi Ye,Pengfeng Xiao
Eliminating errors in next-generation sequencing has proven to be challenging. Here we present a novel strategy for DNA sequencing, called correctable two-color fluorogenic DNA decoding sequencing, which can significantly improve sequencing accuracy and throughput by employing a dual-nucleotide addition combined with fluorogenic sequencing-by-synthesis (SBS) chemistry. This sequencing method involves introducing a mixture of natural nucleotide X, labeled unblocked nucleotide X′, 3′ blocked nucleotide Y*, and labeled 3′ blocked nucleotide Y* into each reaction cycle. By cyclically interrogating a template twice with different nucleotide combinations, two sets of base-encoding are sequentially obtained, enabling accurate deduction of base sequence. We demonstrate the remarkable efficacy of this approach in detecting and correcting sequencing errors, achieving a theoretical error rate of 0.0005%, which is twice as accurate as Sanger sequencing. Furthermore, we show the capability to detect known mutation sites using information from only a single sequencing run. The correctable two-color fluorogenic DNA decoding sequencing approach should enable accurate identification of extremely rare genomic variations in diverse applications in biology and medicine.
研究领域:
分子生物学
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基因组学
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医学遗传学
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DOI
PubMed
高影响因子
CHEMICAL ENGINEERING JOURNAL
·
2024
·
IF 13.3
Qi Zhao,Xiaoyue Liang,Chunju He
Solid phase extraction is an effective method for the separation and purification of nucleic acid molecules, which still suffers from high loss and low efficiency. Herein, a polyether sulfone membrane adsorber for deoxyribonucleic acid (DNA) separation and purification is constructed by combining vapor-induced phase separation (VIPS) technique and in-situ coupling reaction. More specifically, the slow phase separation during VIPS promotes the formation of reaction platform with loose bicontinuous structure, high porosity and surface segregation of poly (acrylic acid), which is subsequently highly aminated by in-situ coupling of polyethyleneimine. Significantly, the reversible binding of amine ligands to DNA is solely based on electrostatic interaction, which is regulated by medium pH, avoiding the requirement for additional binding agents as encountered by commercial silica matrices and dramatically reducing DNA loss. Consequently, the resulting membrane adsorber exhibits excellent DNA binding capacity of 293.3 mg·g −1 and improved dynamic DNA recovery efficiency of 85.2 %, far exceeding that of commercial silica matrices (55.5 %). This work provides a major breakthrough in the field of nucleic acid separation and purification, paving the way to construct next-generation solid phase extraction materials for biomacromolecules.
研究领域:
生物技术
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分子生物学
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DOI
高影响因子
Small
·
2025
·
IF 12.1
Jiarong Guo,Jiayue Shi,Peng Miao
Nano-impact electrochemistry (NIE) has made significant advances in the fields of electrochemistry and analytical chemistry. Nevertheless, the choice of entities used for NIE is usually confined to inorganic nanoparticles. The interest in DNA nanotechnology prompts the exploration of DNA materials as signal sources for NIE. In this study, tetrahedral DNA nanostructure (TDNA) is designed as an example. Various sizes and base compositions of TDNAs are assembled. Corresponding NIE signals are successfully detected at the interface of gold ultramicroelectrode. The results indicate that 3D DNA nanostructures can proficiently replicate the roles of inorganic nanoparticles in NIE without requiring additional modifications. Furthermore, it is demonstrated that TDNA not only adheres to the electrode surface, acting as a diffusion barrier but also exhibits NIE effects through base redox reactions and charge conduction. The findings supplement new types of materials with NIE effects and may inspire novel bioanalytical applications.
研究领域:
电化学
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分析化学
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DNA纳米技术
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生物分析
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DOI
PubMed
高影响因子
Journal of the American Chemical Society
·
2021
·
IF 15.419
Jinpeng Han,Yanfei Guo,Hang Wang,Kunyu Zhang,Dayong Yang
Plastics play important roles in modern life and currently the development of plastic recycling is highly demanding and challenging. To relieve this dilemma, one option is to develop new sustainable bioplastics that are compatible with the environment over the whole material life cycle. We report a sustainable bioplastic made from natural DNA and biomass-derived ionomers, termed as DNA plastics. The sustainability involves all aspects of the production, use, and end-of-life options of DNA plastics: (1) the raw materials are derived from biorenewable resources; (2) the water-processable strategy is environmentally friendly, not involving high-energy consumption, the use of organic solvents, and the production of byproducts; (3) recyclable and nondestructive use is achieved to significantly prolong the service lifetime of the plastics; and (4) the disposal of waste plastics follows two green routes including the recycling of waste plastics and enzyme-triggered controllable degradation under mild conditions. Besides, DNA plastics can be “aqua-welded” to form arbitrary designed products such as a plastic cup. This work provides a solution to transform biobased hydrogel to bioplastic and demonstrates the closed-loop recycling of DNA plastics, which will advance the development of sustainable materials.
研究领域:
材料科学
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生物化学
·
环境科学
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PubMed
高影响因子
SENSORS AND ACTUATORS B-CHEMICAL
·
2023
·
IF 8.4
Jiaojiao Yang,Lijun Feng,Jing Liu,Sheng Li,Na Li,Xinfeng Zhang
Mercury (Hg) is an important environmental pollutant because of its high toxicity. With the rapid industrialization, on-site monitoring Hg 2+ contamination becomes increasingly important. In this work, a facile colorimetric sensing system based on DNA-mediated charge neutralization of AuNPs as well as smartphone data acquisition was developed for on-site monitoring of Hg 2+ . The designed both-end block dsDNA system (probe DNA and block DNA) can interact with the replacement DNA and formed T-Hg 2+ -T mismatched dsDNA in the presence of Hg 2+ , thus releasing the long block DNA as well as preventing the ThT-induced neutralization of AuNPs. The color change for the AuNPs neutralization can be pictured and analyzed by a portable smartphone. This on-site Hg 2+ monitoring system was quite simple and sensitive with a low limit of detection (2.8 nM), lower than the maximum permitted amount of Hg 2+ in drinking water regulated by EPA. The accuracy of the proposed method was verified through analysis of two certified water samples, four real water samples and seven cosmetic samples, and the results agreed well with the certified values or those by atomic fluorescence spectrometry . Overall, this facile and simple sensing system is an appealing tool for on-site monitoring of Hg 2+ in water and cosmetic samples.
研究领域:
环境科学
·
分析化学
·
生物传感
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产品关联
DOI
高影响因子
TALANTA
·
2019
·
IF 4.916
Ni Zeng,Juan Xiang
KRAS G12D point mutation plays an important role in the incidence of non-small-cell lung cancer (NSCLC) as well as colorectal cancer, pancreatic cancer and breast cancer. Here, we developed a novel anchor-like DNA (alDNA) electrochemical sensor for the detection of KRAS point mutation level (the concentration ratio of the specific KRAS point mutant DNA (M-DNA) to the total DNA (t-DNA) of both mutant and wild-type DNAs carrying the same allele). Compared to those conventional ligation-based DNA sensors, the proposed alDNA sensor achieved the one-step capture of both wild-type and mutant DNA, and the subsequent detection on one chip, which effectively decreased systematic errors from the uncertain differences on the interfacial structural and microenvironmental changes, improved the detection accuracy. Also, with the usage of formamide-NaCl solution, the whole detection process including the denaturation of double-stranded DNA was performed under mild temperature conditions (~40 °C). It greatly decreased the cost and improved the reproducibility and feasibility of the method. Based on it, the linear correlations with the logarithm of concentration in wide range from 0.1 pM to 10 nM for t-DNA and from 100 pM to 10 nM for M-DNA were achieved, respectively. The analysis of t-DNA- and M-DNA-spiked human serum samples revealed the high accuracy of the method. This alDNA sensor is convenient, low-cost and time-saving, with broad dynamic range, high sensitivity and selectivity . It can meet the demands of the clinical detection on the KRAS point mutation level in blood samples, which means significant for the earlier NSCLC diagnosis, individualized treatment, and therapeutic efficacy evaluation.
研究领域:
癌症生物学
·
分子诊断学
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电化学
·
临床化学
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DOI
PubMed
高影响因子
BIOSENSORS & BIOELECTRONICS
·
2013
·
IF 5.437
Dan Zhao,Jiaotian Li,Tianming Yang,Zhike He
A “turn off–on” mode has been established by using the interaction between platinum anticancer drugs and DNA as input signal and the fluorescence reversible change of quantum dots (QDs) as output signal. The QDs fluorescence can be quenched by platinum anticancer drugs via photo-induced electron transfer process, rendering the system into “turn off” status, and the system can then be “turned on” when fluorescence is restored due to covalent conjugation between DNA and platinum anticancer drugs. This dual-directional fluorescence change realized the detection of cisplatin and DNA, overcoming the selectivity problem commonly existed in the traditional mono-directional fluorescence detection mode. The reversible fluorescent “turn off-on” mode has been further employed to study the interactions between DNA and different platinum anticancer drugs (cisplatin, oxaliplatin and carboplatin). Furthermore, the impacts of different types of DNAs (different in base sequence , chain length and ssDNA/dsDNA) on the mode are also explored. This simple, fast and convenient spectroscopic method owns promising applications in the study on interaction between medical molecules and DNA, and in biochemical detections.
研究领域:
化学
·
生物化学
·
药学
·
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）