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1. Monitorable Mitochondria-Targeting DNAtrain for Image-Guided Synergistic Cancer Therapy

Author:
Jiang, Tao; Zhou, Lihua; Liu, Haixiang; Zhang, Pengfei; Liu, Guozhen; Gong, Ping; Li, Chunbin; Tan, Weihong; Chen, Jianhai; Cai, Lintao
Source:
Analytical chemistry 2019 v.91 no.11 pp. 6996-7000
ISSN:
1520-6882
Subject:
DNA; adjuvants; drug therapy; drugs; dyes; monitoring; neoplasm cells; neoplasms; precision medicine; reactive oxygen species
Abstract:
... It is highly desirable to realize real-time monitoring of the drug delivery/release process in cancer treatment. Herein, a monitorable mitochondria-specific DNAtrain (MitoDNAtrs) was developed for image-guided drug delivery and synergistic cancer therapy. In this system, mitochondria-targeting Cy5.5 dye served as the “locomotive” to guide the DNA “vehicle” selectively accumulating in the cancer ce ...
DOI:
10.1021/acs.analchem.9b01777

2. Programmable DNA Ring/Hairpin-Constrained Structure Enables Ligation-Free Rolling Circle Amplification for Imaging mRNAs in Single Cells

Author:
Zhou, Wenjiao; Li, Daxiu; Yuan, Ruo; Xiang, Yun
Source:
Analytical chemistry 2019 v.91 no.5 pp. 3628-3635
ISSN:
1520-6882
Subject:
DNA; DNA barcoding; disease diagnosis; drugs; gene expression; image analysis; messenger RNA; nucleotide sequences; screening; therapeutics
Abstract:
... Self-assembled functional DNA structures have proven to be excellent materials for designing and implementing a variety of nanoscale devices. We demonstrate here that a rationally designed and programmable DNA ring/hairpin-constrained structure can achieve in situ ligation-free rolling circle amplification (RCA), which further leads to highly specific, sensitive, and multicolor imaging of mRNA mol ...
DOI:
10.1021/acs.analchem.8b05613

3. Label-Free Volumetric Quantitative Imaging of the Human Somatic Cell Division by Hyperspectral Coherent Anti-Stokes Raman Scattering

Author:
Karuna, Arnica; Masia, Francesco; Wiltshire, Marie; Errington, Rachel; Borri, Paola; Langbein, Wolfgang
Source:
Analytical chemistry 2019 v.91 no.4 pp. 2813-2821
ISSN:
1520-6882
Subject:
DNA; Raman spectroscopy; cell division; chemical composition; chromatin; drugs; fluorescence microscopy; fluorescent dyes; human cell lines; image analysis; light microscopy; lipids; mitochondria; osteosarcoma; paclitaxel; progeny; somatic cells
Abstract:
... Quantifying the chemical composition of unstained intact tissue and cellular samples with high spatio-temporal resolution in three dimensions would provide a step change in cell and tissue analytics critical to progress the field of cell biology. Label-free optical microscopy offers the required resolution and noninvasiveness, yet quantitative imaging with chemical specificity is a challenging end ...
DOI:
10.1021/acs.analchem.8b04706

4. Multivalent Self-Assembled DNA Polymer for Tumor-Targeted Delivery and Live Cell Imaging of Telomerase Activity

Author:
Zhu, Xueli; Ye, Hongyan; Liu, Jin-Wen; Yu, Ru-Qin; Jiang, Jian-Hui
Source:
Analytical chemistry 2018 v.90 no.22 pp. 13188-13192
ISSN:
1520-6882
Subject:
DNA; biomedical research; drugs; enzyme activity; image analysis; internal transcribed spacers; monitoring; neoplasm cells; neoplasms; oligonucleotides; polymers; telomerase; telomeres
Abstract:
... The efficient detection and in situ monitoring of telomerase activity is of great importance for cancer diagnosis and biomedical research. Here we report for the first time that the development of a novel multivalent self-assembled DNA polymer, constructed through telomerase primer sequence (ITS) triggered hybridization chain assembly using two functional hairpin probes (tumor-trageting aptamer mo ...
DOI:
10.1021/acs.analchem.8b04631

5. DNA Polymer Nanoparticles Programmed via Supersandwich Hybridization for Imaging and Therapy of Cancer Cells

Author:
Li, Na; Xiang, Mei-Hao; Liu, Jin-Wen; Tang, Hao; Jiang, Jian-Hui
Source:
Analytical chemistry 2018 v.90 no.21 pp. 12951-12958
ISSN:
1520-6882
Subject:
DNA; adenosine triphosphate; drug carriers; drugs; endocytosis; fluorescence; image analysis; nanogold; nanoparticles; neoplasm cells; neoplasms; oligonucleotides; photochemotherapy; polymers; precision medicine
Abstract:
... Spherical nucleic acid (SNA) constructs are promising new single entity materials, which possess significant advantages in biological applications. Current SNA-based drug delivery system typically employed single-layered ss- or ds-DNA as the drug carriers, resulting in limited drug payload capacity and disease treatment. To advance corresponding applications, we developed a novel DNA-programmed po ...
DOI:
10.1021/acs.analchem.8b03253

6. Direct Quantification of Trace Amounts of a Chronic Myeloid Leukemia Biomarker Using Locked Nucleic Acid Capture Probes

Author:
Mishra, Sourav; Lee, Yoonhee; Park, Joon Won
Source:
Analytical chemistry 2018 v.90 no.21 pp. 12824-12831
ISSN:
1520-6882
Subject:
DNA; atomic force microscopy; biomarkers; decision making; drugs; genes; image analysis; messenger RNA; monitoring; myeloid leukemia; patients; quantitative polymerase chain reaction; reverse transcriptase polymerase chain reaction
Abstract:
... Molecular monitoring is indispensable for the clinical management of chronic myeloid leukemia (CML) patients. Real-time quantitative polymerase chain reaction (RT-qPCR) is the gold standard for the quantitative assessment of BCR-ABL transcript levels, which are critical in clinical decision-making. However, the frequent recurrence of the disease after drug discontinuation for 60% of patients has n ...
DOI:
10.1021/acs.analchem.8b03350

7. Developing Ultrasensitive Library-Aliquot-Based Droplet Digital PCR for Detecting T790M in Plasma-Circulating Tumor DNA of Non-small-Cell-Lung-Cancer Patients

Author:
Yang, Ke; Li, Jun; Zhao, Jiuzhou; Ren, Pengfei; Wang, Zhizhong; Wei, Bing; Dong, Bing; Sun, Rui; Wang, Xiaoyan; Groen, Harry J. M.; Ma, Jie; Guo, Yongjun
Source:
Analytical chemistry 2018 v.90 no.19 pp. 11203-11209
ISSN:
1520-6882
Subject:
DNA; alleles; detection limit; disease course; droplets; drugs; enzyme inhibitors; epidermal growth factor receptors; high-throughput nucleotide sequencing; lung neoplasms; monitoring; mutation; patients; polymerase chain reaction; therapeutics
Abstract:
... A T790M secondary mutation in epidermal-growth-factor receptor (EGFR) is the most well-established EGFR-tyrosine-kinase-inhibitor (TKI) resistance marker in non-small-cell lung cancer (NSCLC). The current methods to rapidly and accurately detect T790M in clinical practice are not satisfactory because of several obstacles, including the unavailability of tumor-tissue rebiopsies and the low DNA copy ...
DOI:
10.1021/acs.analchem.8b01776

8. Visualizing miR-155 To Monitor Breast Tumorigenesis and Response to Chemotherapeutic Drugs by a Self-Assembled Photoacoustic Nanoprobe

Author:
Cao, Wenhua; Gao, Wen; Liu, Zhenhua; Hao, Wenjing; Li, Xiang; Sun, Yuhui; Tong, Lili; Tang, Bo
Source:
Analytical chemistry 2018 v.90 no.15 pp. 9125-9131
ISSN:
1520-6882
Subject:
DNA; absorption; apoptosis; breast neoplasms; carcinogenesis; cell proliferation; drug therapy; drugs; gold; hybridization chain reaction; image analysis; monitoring; nanogold; neoplasm cells; polyethylene glycol; surface plasmon resonance
Abstract:
... MicroRNA-155 (miR-155), which facilitates breast tumor growth and invasion by promoting tumor cell proliferation and inhibiting cell apoptosis, is considered an ideal early diagnostic and prognostic marker. Herein, we developed a self-assembled hybridization chain reaction (HCR)-based photoacoustic (PA) nanoprobe for highly sensitive in situ monitoring of dynamic changes in miR-155 expression duri ...
DOI:
10.1021/acs.analchem.8b01537

9. Terminal Deoxynucleotidyl Transferase and T7 Exonuclease-Aided Amplification Strategy for Ultrasensitive Detection of Uracil-DNA Glycosylase

Author:
Du, Yi-Chen; Cui, Yun-Xi; Li, Xiao-Yu; Sun, Guo-Ying; Zhang, Yu-Peng; Tang, An-Na; Kim, Kwangil; Kong, De-Ming
Source:
Analytical chemistry 2018 v.90 no.14 pp. 8629-8634
ISSN:
1520-6882
Subject:
DNA; DNA repair; catalytic activity; disease diagnosis; drugs; fluorescence; fluorescent dyes; genomics; methyltransferases; oligonucleotides; restriction endonucleases; screening; uracil; uracil-DNA glycosylase
Abstract:
... As one of the key initiators of the base excision repair process, uracil-DNA glycosylase (UDG) plays an important role in maintaining genomic integrity. It has been found that aberrant expression of UDG is associated with a variety of diseases. Thus, accurate and sensitive detection of UDG activity is of critical significance for biomedical research and early clinical diagnosis. Here, we developed ...
DOI:
10.1021/acs.analchem.8b01928

10. A Dual-Enzyme-Assisted Three-Dimensional DNA Walking Machine Using T4 Polynucleotide Kinase as Activators and Application in Polynucleotide Kinase Assays

Author:
Feng, Chang; Wang, Zihan; Chen, Tianshu; Chen, Xiaoxia; Mao, Dongsheng; Zhao, Jing; Li, Genxi
Source:
Analytical chemistry 2018 v.90 no.4 pp. 2810-2815
ISSN:
1520-6882
Subject:
DNA; blood serum; catalytic activity; diagnostic techniques; drugs; genome walking; human diseases; molecular biology; nanogold; phosphorylation
Abstract:
... T4 polynucleotide kinase (T4 PNK), an intracellular kinase, catalyzes the phosphorylation of 5′-hydroxyl termini in nucleic acids and plays a crucial role in DNA-related physiological activities. Malfunctioning of PNK is associated with the deregulation of many cellular activities and eventually induces a variety of human diseases. Herein, we report a smart three-dimensional (3D) DNA walking machi ...
DOI:
10.1021/acs.analchem.7b04924

11. Quantification of Nucleic Acid Concentration in the Nanoparticle or Polymer Conjugates Using Circular Dichroism Spectroscopy

Author:
Peng, Zhili; Li, Jiaojiao; Li, Shanghao; Pardo, Joel; Zhou, Yiqun; Al-Youbi, Abdulrahman O.; Bashammakh, Abdulaziz S.; El-Shahawi, Mohammad S.; Leblanc, Roger M.
Source:
Analytical chemistry 2018 v.90 no.3 pp. 2255-2262
ISSN:
1520-6882
Subject:
DNA; RNA; Torula; calves; circular dichroism spectroscopy; drugs; herring; nanoparticles; polymers; precision medicine; spermatozoa; thymus gland; yeasts
Abstract:
... The interface of nucleic acids and nanomaterials is among the most promising fields in recent years. Considerable efforts have been devoted to the development of novel systems based on the two components for various promising applications such as sensing, bioimaging, drug delivery, and theranostics. However, the determination of nucleic acid concentration in these systems remains as a challenge du ...
DOI:
10.1021/acs.analchem.7b04621

12. Understanding Signal and Background in a Thermally Resolved, Single-Branched DNA Assay Using Square Wave Voltammetry

Author:
Somasundaram, Subramaniam; Holtan, Mark D.; Easley, Christopher J.
Source:
Analytical chemistry 2018 v.90 no.5 pp. 3584-3591
ISSN:
1520-6882
Subject:
DNA; RNA; blood; detection limit; drugs; electrochemistry; electrodes; energy; humans; instrumentation; nucleic acid hybridization; oligonucleotides; proteins; temperature
Abstract:
... Electrochemical bioanalytical sensors with oligonucleotide transducer molecules have been recently extended for quantifying a wide range of biomolecules, from small drugs to large proteins. Short DNA or RNA strands have gained attention recently due to the existence of circulating oligonucleotides in human blood, yet challenges remain for adequately sensing these targets at electrode surfaces. In ...
DOI:
10.1021/acs.analchem.8b00036

13. Label-Free Sensitive Detection of DNA Methyltransferase by Target-Induced Hyperbranched Amplification with Zero Background Signal

Author:
Zhang, Yan; Wang, Xin-yan; Zhang, Qianyi; Zhang, Chun-yang
Source:
Analytical chemistry 2017 v.89 no.22 pp. 12408-12415
ISSN:
1520-6882
Subject:
DNA; DNA methylation; Escherichia coli; S-adenosylmethionine; adenine; cytosine; detection limit; disease diagnosis; drugs; enzyme activity; fluorescence; methyltransferases; moieties; radiolabeling
Abstract:
... DNA methyltransferases (MTases) may specifically recognize the short palindromic sequences and transfer a methyl group from S-adenosyl-l-methionine to target cytosine/adenine. The aberrant DNA methylation is linked to the abnormal DNA MTase activity, and some DNA MTases have become promising targets of anticancer/antimicrobial drugs. However, the reported DNA MTase assays often involve laborious o ...
DOI:
10.1021/acs.analchem.7b03490

14. Specific Binding Constant and Stoichiometry Determination in Free Solution by Mass Spectrometry and Capillary Electrophoresis Frontal Analysis

Author:
Qian, Cheng; Fu, Hengqing; Kovalchik, Kevin A.; Li, Huihui; Chen, David Da Yong
Source:
Analytical chemistry 2017 v.89 no.17 pp. 9483-9490
ISSN:
1520-6882
Subject:
B-cell lymphoma; DNA; apoptosis; binding capacity; capillary electrophoresis; drugs; electrospray ionization mass spectrometry; equations; oncogenes; promoter regions; stoichiometry; transcription (genetics)
Abstract:
... A free solution method was developed for evaluating the specific binding affinity and stoichiometry of small molecules with oligo DNA subsequent to cation-induced G-quadruplex formation. A nonlinear curve fitting equation capable of extracting specific binding constants in the presence of nonspecific binding without the need for reference compounds was proposed and tested. Electrospray ionization ...
DOI:
10.1021/acs.analchem.7b02443

15. In Situ Detection and Imaging of Telomerase Activity in Cancer Cell Lines via Disassembly of Plasmonic Core–Satellites Nanostructured Probe

Author:
Wang, Kan; Shangguan, Li; Liu, Yuanjian; Jiang, Ling; Zhang, Fen; Wei, Yuanqing; Zhang, Yuanjian; Qi, Zhengjian; Wang, Kang; Liu, Songqin
Source:
Analytical chemistry 2017 v.89 no.13 pp. 7262-7268
ISSN:
1520-6882
Subject:
DNA; chemical reactions; color; drugs; enzyme activity; image analysis; monitoring; nanogold; neoplasm cells; neoplasms; nucleic acid hybridization; spectroscopy; surface plasmon resonance; telomerase; telomeres
Abstract:
... The label-free localized surface plasmon resonance (LSPR) detection technique has been identified as a powerful means for in situ investigation of biological processes and localized chemical reactions at single particle level with high spatial and temporal resolution. Herein, a core–satellites assembled nanostructure of Au₅₀@Au₁₃ was designed for in situ detection and intracellular imaging of telo ...
DOI:
10.1021/acs.analchem.7b01882

16. Nuclear-Shell Biopolymers Initiated by Telomere Elongation for Individual Cancer Cell Imaging and Drug Delivery

Author:
Zhang, Zhen; Jiao, Yuting; Zhu, Mengting; Zhang, Shusheng
Source:
Analytical chemistry 2017 v.89 no.7 pp. 4320-4327
ISSN:
1520-6882
Subject:
DNA; biopolymers; death; drugs; image analysis; neoplasm cells; neoplasms; telomerase; telomeres; therapeutics
Abstract:
... Here, we propose a strategy for unique nuclear-shell biopolymers initiated by telomere elongation for telomerase activity detection and precise drug delivery to individual cancer cells. Telomerase-triggered DNA rolling-circle amplification (RCA) is used to assemble nuclear-shell biopolymers with signal molecules for selective cancer cell recognition and efficient drug delivery to targeted individu ...
DOI:
10.1021/acs.analchem.7b00591

17. Reliable Förster Resonance Energy Transfer Probe Based on Structure-Switching DNA for Ratiometric Sensing of Telomerase in Living Cells

Author:
Yang, Xue-Jiao; Zhang, Kai; Zhang, Ting-Ting; Xu, Jing-Juan; Chen, Hong-Yuan
Source:
Analytical chemistry 2017 v.89 no.7 pp. 4216-4222
ISSN:
1520-6882
Subject:
DNA; deoxyribonuclease I; drugs; energy transfer; fluorescence; monitoring; nanogold; neoplasm cells; neoplasms; telomerase; therapeutics
Abstract:
... In situ detection and monitoring of telomerase is of great importance as it is a relatively specific cancer target. However, the complexity of the biological system makes it difficult for the nanoprobe to keep absolutely stable and have a low background in living cells. This study designs a probe termed Förster resonance energy transfer (FRET) nanoflare to achieve ratiometric fluorescent detectio ...
DOI:
10.1021/acs.analchem.7b00267

18. Convection-Driven Pull-Down Assays in Nanoliter Droplets Using Scaffolded Aptamers

Author:
Qu, Xiangmeng; Zhang, Hongbo; Chen, Hong; Aldalbahi, Ali; Li, Li; Tian, Yang; Weitz, David A.; Pei, Hao
Source:
Analytical chemistry 2017 v.89 no.6 pp. 3468-3473
ISSN:
1520-6882
Subject:
DNA; adenosine triphosphate; biomarkers; biosensors; cocaine; droplets; drugs; glass; models; oligonucleotides; thrombin
Abstract:
... One of the great challenges in cellular studies is to develop a rapid and biocompatible analytical tool for single-cell analysis. We report a rapid, DNA nanostructure-supported aptamer pull-down (DNaPull) assay under convective flux in a glass capillary for analyzing the contents of droplets with nano- or picoliter volumes. We have demonstrated that the scaffolded aptamer can greatly improve the e ...
DOI:
10.1021/acs.analchem.6b04475

19. Detection of Ligand-Induced Conformational Changes in Oligonucleotides by Second-Harmonic Generation at a Supported Lipid Bilayer Interface

Author:
Butko, Margaret T.; Moree, Ben; Mortensen, Richard B.; Salafsky, Joshua
Source:
Analytical chemistry 2016 v.88 no.21 pp. 10482-10489
ISSN:
1520-6882
Subject:
DNA; DNA conformation; RNA; biotin; drugs; ligands; lipid bilayers; oligonucleotides; screening
Abstract:
... There is a high demand for characterizing oligonucleotide structural changes associated with binding interactions as well as identifying novel binders that modulate their structure and function. In this study, second-harmonic generation (SHG) was used to study RNA and DNA oligonucleotide conformational changes associated with ligand binding. For this purpose, we developed an avidin-based biotin ca ...
DOI:
10.1021/acs.analchem.6b02498

20. Dynamic Modulation of DNA Hybridization Using Allosteric DNA Tetrahedral Nanostructures

Author:
Song, Ping; Li, Min; Shen, Juwen; Pei, Hao; Chao, Jie; Su, Shao; Aldalbahi, Ali; Wang, Lihua; Shi, Jiye; Song, Shiping; Wang, Lianhui; Fan, Chunhai; Zuo, Xiaolei
Source:
Analytical chemistry 2016 v.88 no.16 pp. 8043-8049
ISSN:
1520-6882
Subject:
DNA; binding capacity; biosensors; detection limit; drugs; geometry; monitoring; nanomaterials; nucleic acid hybridization; nucleotide sequences; viral load
Abstract:
... The fixed dynamic range of traditional biosensors limits their utility in several real applications. For example, viral load monitoring requires the dynamic range spans several orders of magnitude; whereas, monitoring of drugs requires extremely narrow dynamic range. To overcome this limitation, here, we devised tunable biosensing interface using allosteric DNA tetrahedral bioprobes to tune the dy ...
DOI:
10.1021/acs.analchem.6b01373

21. Single-Cell-Arrayed Agarose Chip for in Situ Analysis of Cytotoxicity and Genotoxicity of DNA Cross-Linking Agents

Author:
Li, Lili; Wang, Weixing; Ding, Mingyu; Luo, Guoan; Liang, Qionglin
Source:
Analytical chemistry 2016 v.88 no.13 pp. 6734-6742
ISSN:
1520-6882
Subject:
DNA; agarose; cross-linking reagents; crosslinking; cytotoxicity; drug therapy; drugs; genotoxicity; mechanism of action; microarray technology; screening
Abstract:
... Development of approach or device to allow continuous multiple measurements, such as integrating cytotoxic and genotoxic analysis, is quite appealing for study of the drug’s activity and mechanism of action or resistance. In this study, a single-cell-arrayed agarose chip system was developed to combine cell cultivation with subsequent in situ analysis of cytotoxicity and genotoxicity of the chemot ...
DOI:
10.1021/acs.analchem.6b01008

22. Facile Probe Design: Fluorescent Amphiphilic Nucleic Acid Probes without Quencher Providing Telomerase Activity Imaging Inside Living Cells

Author:
Jia, Yongmei; Gao, Pengcheng; Zhuang, Yuan; Miao, Mao; Lou, Xiaoding; Xia, Fan
Source:
Analytical chemistry 2016 v.88 no.12 pp. 6621-6626
ISSN:
1520-6882
Subject:
DNA; chemical structure; drugs; fluorenes; fluorescence; fluorescent dyes; hydrophobicity; image analysis; models; monitoring; neoplasm cells; patients; people; polymers; proteins; telomerase; urinary bladder neoplasms; urine
Abstract:
... Nowadays, the probe with fluorophore but no quencher is promising for its simple preparation, environmental friendliness, and wide application scope. This study designs a new amphiphilic nucleic acid probe (ANAP) based on aggregation-caused quenching (ACQ) effect without any quencher. Upon binding with targets, the dispersion of hydrophobic part (conjugated fluorene, CF) in ANAP is enhanced as a s ...
DOI:
10.1021/acs.analchem.6b01777

23. Dye-Sensitized and Localized Surface Plasmon Resonance Enhanced Visible-Light Photoelectrochemical Biosensors for Highly Sensitive Analysis of Protein Kinase Activity

Author:
Yan, Zhiyong; Wang, Zonghua; Miao, Zhuang; Liu, Yang
Source:
Analytical chemistry 2016 v.88 no.1 pp. 922-929
ISSN:
1520-6882
Subject:
DNA; biosensors; cAMP-dependent protein kinase; chelation; detection limit; drugs; electrodes; electron transfer; electrons; ellagic acid; forskolin; harvesting; ions; irradiation; nanogold; phosphates; screening; surface area; surface plasmon resonance; titanium dioxide
Abstract:
... A novel visible-light photoelectrochemical (PEC) biosensor based on localized surface plasmon resonance (LSPR) enhancement and dye sensitization was fabricated for highly sensitive analysis of protein kinase activity with ultralow background. In this strategy, DNA conjugated gold nanoparticles (DNA@AuNPs) were assembled on the phosphorylated kemptide modified TiO₂/ITO electrode through the chelati ...
DOI:
10.1021/acs.analchem.5b03661

24. Polarizability of Six-Helix Bundle and Triangle DNA Origami and Their Escape Characteristics from a Dielectrophoretic Trap

Author:
Gan, Lin; Camacho-Alanis, Fernanda; Ros, Alexandra
Source:
Analytical chemistry 2015 v.87 no.24 pp. 12059-12064
ISSN:
1520-6882
Subject:
DNA; colloids; dielectrophoresis; drugs; models
Abstract:
... DNA nanoassemblies, such as DNA origamis, hold promise in biosensing, drug delivery, nanoelectronic circuits, and biological computing, which require suitable methods for migration and precision positioning. Insulator-based dielectrophoresis (iDEP) has been demonstrated as a powerful migration and trapping tool for μm- and nm-sized colloids as well as DNA origamis. However, little is known about t ...
DOI:
10.1021/acs.analchem.5b02524

25. One-Step Protein Conjugation to Upconversion Nanoparticles

Author:
Lu, Jie; Chen, Yinghui; Liu, Deming; Ren, Wei; Lu, Yiqing; Shi, Yu; Piper, James; Paulsen, Ian; Jin, Dayong
Source:
Analytical chemistry 2015 v.87 no.20 pp. 10406-10413
ISSN:
1520-6882
Subject:
DNA; biomarkers; biotechnology; chemical bonding; colorimetry; disease diagnosis; drugs; horseradish; hydrophilicity; image analysis; immunoassays; ions; ligands; luminescence; nanoparticles; oleic acid; oxygen; phosphates; phosphoric acid; rare earth elements; solvents; streptavidin
Abstract:
... The emerging upconversion nanoparticles offer a fascinating library of ultrasensitive luminescent probes for a range of biotechnology applications from biomarker discovery to single molecule tracking, early disease diagnosis, deep tissue imaging, and drug delivery and therapies. The effective bioconjugation of inorganic nanoparticles to the molecule-specific proteins, free of agglomeration, nonspe ...
DOI:
10.1021/acs.analchem.5b02523

26. Reusable and Dual-Potential Responses Electrogenerated Chemiluminescence Biosensor for Synchronously Cytosensing and Dynamic Cell Surface N-Glycan Evaluation

Author:
He, Yao; Li, Jinghong; Liu, Yang
Source:
Analytical chemistry 2015 v.87 no.19 pp. 9777-9785
ISSN:
1520-6882
Subject:
DNA; binding proteins; biosensors; blood serum; carbon nitride; concanavalin A; drugs; electrochemiluminescence; electrochemistry; electrodes; humans; nanogold; nanosheets; neoplasm cells; neoplasms; oligonucleotides; screening
Abstract:
... A novel reusable and dual-potential responsive electrogenerated chemiluminescence (ECL) biosensor was fabricated for synchronous detection of cancer cells and their surface N-glycan. In this strategy, a cancer cell recognized aptamer hybridized with a capture DNA was immobilized on electrochemically reduced MoS₂ nanosheets, and Ru(phen)₃²⁺ as ECL probes was intercalated into the grooves of the dou ...
DOI:
10.1021/acs.analchem.5b02048

27. E-DNA Sensor of Mycobacterium tuberculosis Based on Electrochemical Assembly of Nanomaterials (MWCNTs/PPy/PAMAM)

Author:
Miodek, Anna; Mejri, Nawel; Gomgnimbou, Michel; Sola, Christophe; Korri-Youssoufi, Hafsa
Source:
Analytical chemistry 2015 v.87 no.18 pp. 9257-9264
ISSN:
1520-6882
Subject:
DNA; Mycobacterium tuberculosis; biosensors; carbon nanotubes; chemical bonding; detection limit; drugs; electrochemistry; electrodes; electron transfer; genes; gold; nanocomposites; nucleic acid hybridization; pathogens; polymerase chain reaction; polymerization; rifampicin; single nucleotide polymorphism; transducers (equipment)
Abstract:
... Two-step electrochemical patterning methods have been employed to elaborate composite nanomaterials formed with multiwalled carbon nanotubes (MWCNTs) coated with polypyrrole (PPy) and redox PAMAM dendrimers. The nanomaterial has been demonstrated as a molecular transducer for electrochemical DNA detection. The nanocomposite MWCNTs-PPy has been formed by wrapping the PPy film on MWCNTs during elect ...
DOI:
10.1021/acs.analchem.5b01761

28. Time-Resolved Luminescence Biosensor for Continuous Activity Detection of Protein Acetylation-Related Enzymes Based on DNA-Sensitized Terbium(III) Probes

Author:
Han, Yitao; Li, Hao; Hu, Yufang; Li, Pei; Wang, Huixia; Nie, Zhou; Yao, Shouzhuo
Source:
Analytical chemistry 2015 v.87 no.18 pp. 9179-9185
ISSN:
1520-6882
Subject:
DNA; acetylation; acetyltransferases; biosensors; detection limit; drugs; enzyme activity; epigenetics; genes; guanine; histone deacetylase; histones; luminescence; peptides; post-translational modification; terbium
Abstract:
... Protein acetylation of histone is an essential post-translational modification (PTM) mechanism in epigenetic gene regulation, and its status is reversibly controlled by histone acetyltransferases (HATs) and histone deacetylases (HDACs). Herein, we have developed a sensitive and label-free time-resolved luminescence (TRL) biosensor for continuous detection of enzymatic activity of HATs and HDACs, r ...
DOI:
10.1021/acs.analchem.5b01338

29. Reverse Transcriptase in Action: FRET-Based Assay for Monitoring Flipping and Polymerase Activity in Real Time

Author:
Sharma, K. K.; Przybilla, F.; Restle, T.; Boudier, C.; Godet, J.; Mély, Y.
Source:
Analytical chemistry 2015 v.87 no.15 pp. 7690-7697
ISSN:
1520-6882
Subject:
DNA; DNA-directed DNA polymerase; Human immunodeficiency virus 1; RNA; RNA-directed DNA polymerase; antiretroviral agents; drugs; energy transfer; fluorescence; fluorescence emission spectroscopy; genome; hydrolysis; monitoring; nucleosides; nucleotides; radiolabeling; reverse transcription; ribonucleases; screening; therapeutics; working conditions
Abstract:
... Reverse transcriptase (RT) of human immunodeficiency virus-1 (HIV-1) is a multifunctional enzyme that catalyzes the conversion of the single stranded viral RNA genome into double-stranded DNA, competent for host-cell integration. RT is endowed with RNA- and DNA-dependent DNA polymerase activity and DNA-directed RNA hydrolysis (RNase H activity). As a key enzyme of reverse transcription, RT is a ke ...
DOI:
10.1021/acs.analchem.5b01126

30. Chiral Resolution Capabilities of DNA Oligonucleotides

Author:
Tohala, Luma; Oukacine, Farid; Ravelet, Corinne; Peyrin, Eric
Source:
Analytical chemistry 2015 v.87 no.11 pp. 5491-5495
ISSN:
1520-6882
Subject:
DNA; additives; amino acids; aromatic compounds; capillary electrophoresis; drugs; enantiomers; nucleosides; oligonucleotides
Abstract:
... Herein, we studied the chiral resolution properties of a repertoire of arbitrarily chosen DNA oligonucleotides (ON). Ten oligonucleotidic sequences characterized by diverse base compositions, sizes, and structural features, ranging from secondary structure-free homo-oligonucleotides to duplex, hairpin, and three-way junction architectures, were investigated as potential chiral selectors. Their ena ...
DOI:
10.1021/acs.analchem.5b01252

31. Characterization of DNA-Conjugated Compounds Using a Regenerable Chip

Author:
Lin, Weilin; Reddavide, Francesco V.; Uzunova, Veselina; Gür, Fatih Nadi; Zhang, Yixin
Source:
Analytical chemistry 2015 v.87 no.2 pp. 864-868
ISSN:
1520-6882
Subject:
DNA; binding capacity; drugs; high-throughput nucleotide sequencing; organic compounds
Abstract:
... DNA-encoded chemical library (DECL) technology has emerged as a new avenue in the field of drug discovery. Combined with high-throughput sequencing, DECL selection experiments can provide not only many lead compounds but also insights into the structure–affinity relationship. However, the counts of individual DNA codes reflect, but cannot be used to precisely rank, the binding affinities of the co ...
DOI:
10.1021/ac503960z

32. Detection of UV-Induced Mutagenic Thymine Dimer Using Graphene Oxide

Author:
Chung, Chan Ho; Kim, Joong Hyun; Chung, Bong Hyun
Source:
Analytical chemistry 2014 v.86 no.23 pp. 11586-11591
ISSN:
1520-6882
Subject:
DNA; adsorption; drugs; fluorescence; graphene oxide; hydrophobicity; mutagenicity; phototoxicity; screening; thymine; ultraviolet radiation
Abstract:
... In this paper, we report for the first time that graphene oxide (GO) can interact with mutagenic DNA but not intact DNA. After UV-irradiated fluorophore-linked DNA containing thymine repeats was mixed with GO, a decrease in fluorescence was observed in a time-dependent manner. In contrast, no fluorescence change was observed with intact DNA, indicating that UV irradiation of DNA resulted in the fo ...
DOI:
10.1021/ac503577t

33. Sensitive Detection of DNA Methyltransferase Activity Based on Exonuclease-Mediated Target Recycling

Author:
Xing, Xi-Wen; Tang, Feng; Wu, Jun; Chu, Jie-Mei; Feng, Yu-Qi; Zhou, Xiang; Yuan, Bi-Feng
Source:
Analytical chemistry 2014 v.86 no.22 pp. 11269-11274
ISSN:
1520-6882
Subject:
DNA; DNA methylation; Escherichia coli; adenine; antibiotics; bacteria; detection limit; drugs; eukaryotic cells; fluorescent dyes; mammals; methyltransferases; oligodeoxyribonucleotides; prokaryotic cells; restriction endonucleases; viability; virulence
Abstract:
... DNA methylation plays vital roles in various biological processes in both prokaryotes and eukaryotes. In bacteria, modification of adenine at N6 can protect bacterial DNA against cleavage by restriction enzymes, and bacterial DNA adenine methyltransferases are essential for bacterial virulence and viability. DNA adenine methyltransferase (DAM) targets the sequence of 5′-GATC-3′ and can convert ade ...
DOI:
10.1021/ac502845b

34. Development of a Fluorogenic Probe Based on a DNA Staining Dye for Continuous Monitoring of the Histone Deacetylase Reaction

Author:
Minoshima, Masafumi; Matsumoto, Tetsuaki; Kikuchi, Kazuya
Source:
Analytical chemistry 2014 v.86 no.15 pp. 7925-7930
ISSN:
1520-6882
Subject:
DNA; binding capacity; drugs; enzymatic reactions; epigenetics; fluorescence; genes; histone deacetylase; lysine; monitoring; staining
Abstract:
... We designed a simple, rapid, and continuous method for the detection of the activity of histone deacetylases (HDACs), which are key enzymes involved in epigenetic gene regulation, using a DNA-based fluorogenic probe. We designed and synthesized a fluorogenic probe, BOXTO-GK(Ac)G, which is a DNA staining dye–peptide conjugate containing an acetylated lysine. The DNA-dependent fluorescence of BOXTO- ...
DOI:
10.1021/ac501881s

35. DNA Methylation Detection and Inhibitor Screening Based on the Discrimination of the Aggregation of Long and Short DNA on a Negatively Charged Indium Tin Oxide Microelectrode

Author:
Wei, Xiaofeng; Ma, Xiaoming; Sun, Jian-jun; Lin, Zhenyu; Guo, Longhua; Qiu, Bin; Chen, Guonan
Source:
Analytical chemistry 2014 v.86 no.7 pp. 3563-3567
ISSN:
1520-6882
Subject:
DNA; DNA methylation; diffusivity; drugs; electrochemistry; electrodes; electrostatic interactions; indium tin oxide; methylene blue; methyltransferases; polymerase chain reaction; screening
Abstract:
... On the basis of the different diffusivity and existence of electrostatic repulsion between long and short DNA on the negatively changed indium tin oxide (ITO) microelectrode, a simple but sensitive immobilization free solution-phase electrochemical method for DNA methylation detection and inhibitor screening has been developed. Electroactive substance (methylene blue) tagged at the penultimate bas ...
DOI:
10.1021/ac500101t

36. Amplified Detection of T4 Polynucleotide Kinase Activity by the Coupled λ Exonuclease Cleavage Reaction and Catalytic Assembly of Bimolecular Beacons

Author:
Hou, Ting; Wang, Xiuzhong; Liu, Xiaojuan; Lu, Tingting; Liu, Shufeng; Li, Feng
Source:
Analytical chemistry 2014 v.86 no.1 pp. 884-890
ISSN:
1520-6882
Subject:
DNA; DNA fragmentation; DNA repair; detection limit; diagnostic techniques; drugs; enzymatic reactions; fluorescence; phosphorylation
Abstract:
... The phosphorylation of nucleic acid catalyzed by polynucleotide kinase is an indispensible procedure involved in many vital cellular activities such as DNA recombination and DNA repair. Herein, a novel strategy for the sensitive determination of T4 polynucleotide kinase (PNK) activity and inhibition was proposed, which combined exonuclease enzyme reaction and bimolecular beacons (bi-MBs)-based sig ...
DOI:
10.1021/ac403458b

37. Six-Helix Bundle and Triangle DNA Origami Insulator-Based Dielectrophoresis

Author:
Gan, Lin; Chao, Tzu-Chiao; Camacho-Alanis, Fernanda; Ros, Alexandra
Source:
Analytical chemistry 2013 v.85 no.23 pp. 11427-11434
ISSN:
1520-6882
Subject:
DNA; dielectrophoresis; drugs; electric field; electrophoresis; mathematical models; nanomaterials; topology
Abstract:
... Self-assembled DNA nanostructures have large potential for nanoelectronic circuitry, targeted drug delivery, and intelligent sensing. Their applications require suitable methods for manipulation and nanoscale assembly as well as adequate concentration, purification, and separation methods. Insulator-based dielectrophoresis (iDEP) provides an efficient and matrix-free approach for manipulation of m ...
DOI:
10.1021/ac402493u

38. Activity-Based DNA-Gold Nanoparticle Probe as Colorimetric Biosensor for DNA Methyltransferase/Glycosylase Assay

Author:
Wu, Zhan; Wu, Zhen-Kun; Tang, Hao; Tang, Li-Juan; Jiang, Jian-Hui
Source:
Analytical chemistry 2013 v.85 no.9 pp. 4376-4383
ISSN:
1520-6882
Subject:
DNA; DNA probes; absorption; biosensors; colorimetry; diagnostic techniques; drugs; humans; methyltransferases; nanogold; nanoparticles; screening
Abstract:
... We have developed a novel biosensor platform for colorimetric detection of active DNA methyltransferase/glycosylase based on terminal protection of the DNA-gold nanoparticle (AuNP) probes by mechanistically covalent trapping of target enzymes. This biosensor relied on covalent capture of target enzymes by activity-based DNA probes which created terminal protection of the DNA probes tethered on AuN ...
DOI:
10.1021/ac303575f

39. Sensitive Detection of Transcription Factors by Isothermal Exponential Amplification-Based Colorimetric Assay

Author:
Zhang, Yan; Hu, Juan; Zhang, Chun-yang
Source:
Analytical chemistry 2012 v.84 no.21 pp. 9544-9549
ISSN:
1520-6882
Subject:
DNA; DNA probes; DNA-binding proteins; antibodies; color; colorimetry; detection limit; drugs; energy transfer; gene expression; genes; nanogold; nucleic acid hybridization; nucleotide sequences; oligonucleotides; transcription factor NF-kappa B
Abstract:
... Transcription factors regulate gene expression by binding to specific DNA sequences within the regulatory regions of genes and have become potential targets in clinical diagnosis and drug development. However, traditional approaches for the detection of transcription factors are usually laborious and time-consuming with a low sensitivity. Here, we develop an isothermal exponential amplification re ...
DOI:
10.1021/ac3024087

40. Enzymatic Control of Plasmonic Coupling and Surface Enhanced Raman Scattering Transduction for Sensitive Detection of DNA Demethylation

Author:
Wang, Yu; Zhang, Chong-Hua; Tang, Li-Juan; Jiang, Jian-Hui
Source:
Analytical chemistry 2012 v.84 no.20 pp. 8602-8606
ISSN:
1520-6882
Subject:
DNA; DNA probes; Raman spectroscopy; diagnostic techniques; drugs; nanogold; screening
Abstract:
... We have developed a novel concept for enzymatic control of plasmonic coupling as a surface enhanced Raman scattering (SERS) nanosensor for DNA demethylation. This nanosensor is constructed by decorating gold nanoparticles (AuNPs) with Raman reporters and hemimethylated DNA probes. Demethylation of DNA probes initiates a degradation reaction of the probes by methylation-sensitive endonuclease Bsh 1 ...
DOI:
10.1021/ac3016196

41. Selection of DNA Aptamers That Recognize α-Synuclein Oligomers Using a Competitive Screening Method

Author:
Tsukakoshi, Kaori; Abe, Koichi; Sode, Koji; Ikebukuro, Kazunori
Source:
Analytical chemistry 2012 v.84 no.13 pp. 5542-5547
ISSN:
1520-6882
Subject:
Alzheimer disease; DNA; Lewy bodies; Parkinson disease; amyloid; diagnostic techniques; drugs; oligonucleotides; screening
Abstract:
... α-Synuclein (α-syn) oligomers are considered major molecules responsible for the onset of Parkinson’s disease and dementia with Lewy bodies. α-Syn oligomers thus serve as an important target for the development of drugs and diagnostic tests for neurodegenerative diseases. In this paper we report on the identification of DNA aptamers that bind to soluble α-syn oligomers. A competitive screening met ...
DOI:
10.1021/ac300330g

42. PCR-Free Telomerase Assay Using Chronocoulometry Coupled with Hexaammineruthenium(III) Chloride

Author:
Sato, Shinobu; Takenaka, Shigeori
Source:
Analytical chemistry 2012 v.84 no.3 pp. 1772-1775
ISSN:
1520-6882
Subject:
DNA; drugs; electrochemistry; electrodes; gel electrophoresis; inhibitory concentration 50; polymerase chain reaction; screening; telomerase
Abstract:
... An electrochemical method based on chronocoulometry coupled with hexaammineruthenium chloride (RuHex) is proposed for simple and rapid assay of telomerase without relying on PCR and gel electrophoresis. Thus, DNA extended by telomerase in extracts of as small as 5–1 000 HeLa cells on the TS primer-immobilized electrodes was quantified successfully. This method is suitable for quick screening of dr ...
DOI:
10.1021/ac202233m