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Abstract
Rapid and specific assaying of molecules that report on a pathophysiological condition, environmental pollution, or drug concentration is pivotal for establishing efficient and accurate diagnostic systems. One of the main components required for the construction of these systems is the recognition element (receptor) that can identify target analytes. Oligonucleotide switching structures, or aptamers, have been widely studied as selective receptors that can precisely identify targets in different analyzed matrices with minimal interference from other components in an antibody-like recognition process. These aptasensors, especially when integrated into sensing platforms, enable a multitude of sensors that can outperform antibody-based sensors in terms of flexibility of the sensing strategy and ease of deployment to areas with limited resources. Research into compounds that efficiently enhance signal transduction and provide a suitable platform for conjugating aptamers has gained huge momentum over the past decade. The multifaceted nature of conjugated polymers (CPs), notably their versatile electrical and optical properties, endows them with a broad range of potential applications in optical, electrical, and electrochemical signal transduction. Despite the substantial body of research demonstrating the enhanced performance of sensing devices using doped or nanostructure-embedded CPs, few reviews are available that specifically describe the use of conjugated polymers in aptasensing. The purpose of this review is to bridge this gap and provide a comprehensive description of a variety of CPs, from a historical viewpoint, underpinning their specific characteristics and demonstrating the advances in biosensors associated with the use of these conjugated polymers.
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Affiliation(s)
- Razieh Salimian
- Universite de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM, Pau 64053, France
| | - Corinne Nardin
- Universite de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM, Pau 64053, France
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2
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Xin Y, Zhang D, Zeng Y, Wang Y, Qi P. A dual-emission ratiometric fluorescent sensor based on copper nanoclusters encapsulated in zeolitic imidazolate framework-90 for rapid detection and imaging of adenosine triphosphate. ANALYTICAL METHODS : ADVANCING METHODS AND APPLICATIONS 2023; 15:788-796. [PMID: 36691974 DOI: 10.1039/d2ay01932a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/17/2023]
Abstract
Adenosine triphosphate (ATP) is the primary energy carrier for intracellular metabolic processes. Accurate and rapid detection of ATP has important implications for clinical diagnosis. In this work, we reported a dual-emission ratiometric fluorescent probe Cu NCs-Al@ZIF-90 formed by encapsulating copper nanoclusters (Cu NCs) into zeolitic imidazolate framework-90 (ZIF-90) using a simple one-pot method. Cu NCs exhibited a remarkable fluorescence enhancement in the presence of aluminum ions due to the aggregation-induced emission (AIE) properties. When ATP existed, the Zn2+ nodes in the MOF material acted as selective sites for ATP recognition, resulting in the cleavage of Cu NCs-Al@ZIF-90. As a consequence, two reverse fluorescence changes were observed from released Cu NCs at 620 nm and imidazole-2-carboxaldehyde (2-ICA) at 450 nm, respectively. With the dual-emission ratiometric strategy, efficient and rapid determination of ATP was realized, giving a detection limit down to 0.034 mM in the concentration range of 0.2 mM to 0.625 mM. The convenient synthesis process and the rapid ATP-responsive ability made the proposed Cu NCs-Al@ZIF-90 probe highly promising in clinical and environmental analysis.
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Affiliation(s)
- Yue Xin
- Key Laboratory of Marine Environmental Corrosion and Bio-fouling, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China.
- University of the Chinese Academy of Sciences, Beijing 100039, China
- Open Studio for Marine Corrosion and Protection, Pilot National Laboratory for Marine Science and Technology, Qingdao 266237, China
| | - Dun Zhang
- Key Laboratory of Marine Environmental Corrosion and Bio-fouling, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China.
- University of the Chinese Academy of Sciences, Beijing 100039, China
- Open Studio for Marine Corrosion and Protection, Pilot National Laboratory for Marine Science and Technology, Qingdao 266237, China
| | - Yan Zeng
- Key Laboratory of Marine Environmental Corrosion and Bio-fouling, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China.
- Open Studio for Marine Corrosion and Protection, Pilot National Laboratory for Marine Science and Technology, Qingdao 266237, China
| | - Yingwen Wang
- Key Laboratory of Marine Environmental Corrosion and Bio-fouling, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China.
- University of the Chinese Academy of Sciences, Beijing 100039, China
- Open Studio for Marine Corrosion and Protection, Pilot National Laboratory for Marine Science and Technology, Qingdao 266237, China
| | - Peng Qi
- Key Laboratory of Marine Environmental Corrosion and Bio-fouling, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China.
- University of the Chinese Academy of Sciences, Beijing 100039, China
- Open Studio for Marine Corrosion and Protection, Pilot National Laboratory for Marine Science and Technology, Qingdao 266237, China
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3
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Kanti Mal D, Nilaya Jonnalgadda P, Kant Chittela R, Chakraborty G. Utilization of Host Assisted Aggregation-Induced Emission of ANS Dye for ATP Sensing. J Mol Liq 2023. [DOI: 10.1016/j.molliq.2023.121402] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/10/2023]
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4
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Chakraborty G. Red emitting fluorogenic dye as an efficient turn-on probe for milk allergen. Int J Biol Macromol 2022; 221:1527-1535. [PMID: 36122782 DOI: 10.1016/j.ijbiomac.2022.09.130] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2022] [Revised: 09/14/2022] [Accepted: 09/14/2022] [Indexed: 11/24/2022]
Abstract
Development of simple, fast and non-destructive technique such as fluorescence based method for the quantification of milk allergens in various dairy products is a highly rewarding task. In this contribution, a red emitting fluorogenic dye, quinaldine red (QR) is reported for the detection and quantification of a milk allergen, beta lactoglobulin (β-LG) in milk and whey matrices, utilizing its high selectivity and sensitivity towards β-LG. Detail spectroscopic investigation reveals that binding of QR to the hydrophobic calyx site of β-LG protein substantially reduces the torsional agility and propensity of TICT state formation of QR, rendering the dye highly fluorescent in nature. This enables estimation of β-LG with LOD 52.1(±0.9) nM in buffer solution and 0.21(±0.01) μM in 5 % bovine milk matrix respectively. Additionally, high selectivity and sensitivity, excellent repeatability, quick response, and emission in the biologically favorable red spectral region make QR based fluorometric quantification of β-LG a highly attractive choice. Finally, the estimated β-LG concentrations in milk and whey matrices from fluorometric titration and densitometry methods are found to match excellently with each other, suggesting potential of QR as an efficient turn-on fluorescent probe for the quantification of β-LG (milk allergen) in various dairy products.
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Affiliation(s)
- Goutam Chakraborty
- Laser and Plasma Technology Division, Bhabha Atomic Research Centre, Mumbai 400085, India.
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5
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Shan Y, Zhang D, Luo Z, Li T, Qu H, Duan X, Jiang Y. Advances in chilling injury of postharvest fruit and vegetable: Extracellular ATP aspects. Compr Rev Food Sci Food Saf 2022; 21:4251-4273. [PMID: 35876655 DOI: 10.1111/1541-4337.13003] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2022] [Revised: 06/03/2022] [Accepted: 06/16/2022] [Indexed: 01/28/2023]
Abstract
Due to the global use of cold chain, the development of postharvest technology to reduce chilling injury (CI) in postharvest fruits and vegetables during storage and transport is needed urgently. Considerable evidence shows that maintaining intracellular adenosine triphosphate (iATP) in harvested fruits and vegetables is beneficial to inhibiting CI occurrence. Extracellular ATP (eATP) is a damage-associated signal molecule and plays an important role in CI of postharvest fruits and vegetables through its receptor and subsequent signal transduction under low-temperature stress. The development of new aptasensors for the simultaneous determination of eATP level allows for better understanding of the roles of eATP in a myriad of responses mediated by low-temperature stress in relation to the chilling tolerance of postharvest fruits and vegetables. The multiple biological functions of eATP and its receptors in postharvest fruits and vegetables were attributed to interactions with reactive oxygen species (ROS) and nitric oxide (NO) in coordination with phytohormones and other signaling molecules via downstream physiological activities. The complicated interconnection among eATP in relation to its receptors, eATP/iATP homeostasis, ROS, NO, and heat shock proteins triggered by eATP recognition has been emphasized. This paper reviews recent advances in the beneficial effects of energy handling, outlines the production and homeostasis of eATP, discusses the possible mechanism of eATP and its receptors in chilling tolerance, and provides future research directions for CI in postharvest fruits and vegetables during low-temperature storage.
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Affiliation(s)
- Youxia Shan
- Guangdong Provincial Key Laboratory of Applied Botany, Core Botanical Gardens, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China
| | - Dandan Zhang
- Guangdong Provincial Key Laboratory of Applied Botany, Core Botanical Gardens, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China
| | - Zisheng Luo
- College of Biosystems Engineering and Food Science, Zhejiang University, Hangzhou, China
| | - Taotao Li
- Guangdong Provincial Key Laboratory of Applied Botany, Core Botanical Gardens, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China
| | - Hongxia Qu
- Guangdong Provincial Key Laboratory of Applied Botany, Core Botanical Gardens, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China
| | - Xuewu Duan
- Guangdong Provincial Key Laboratory of Applied Botany, Core Botanical Gardens, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China
| | - Yueming Jiang
- Guangdong Provincial Key Laboratory of Applied Botany, Core Botanical Gardens, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China.,College of Advanced Agricultural Sciences, University of Chinese Academy of Sciences, Beijing, China
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6
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Kim J, Park H, Saravanakumar G, Kim WJ. Polymer/Aptamer-Integrated Gold Nanoconstruct Suppresses the Inflammatory Process by Scavenging ROS and Capturing Pro-inflammatory Cytokine TNF-α. ACS APPLIED MATERIALS & INTERFACES 2021; 13:9390-9401. [PMID: 33155813 DOI: 10.1021/acsami.0c15727] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
In the present study, we report a rationally designed polymer/aptamer-integrated gold (Au) nanoconstruct capable of scavenging reactive oxygen species (ROS) and capturing tumor necrosis factor alpha (TNF-α) and investigate its potential as an anti-inflammatory agent for the treatment of peritonitis. By taking advantage of specific interactions between ATP and both ATP aptamer and polymeric phenylboronic acid (pPBA), we construct a unique polymer-coated Au nanoconstruct equipped with TNF-α aptamer and ATP aptamer. The formed phenylboronic ester and TNF-α aptamer in the nanoconstruct is capable of scavenging ROS and capturing of TNF-α, respectively. Thus, this combined characteristics enable the nanoconstruct an additive anti-inflammatory effect. Furthermore, we demonstrate the high anti-inflammatory effect of the nanoconstruct in vitro and in vivo using the peritonitis model by monitoring ROS and pro-inflammatory cytokine levels.
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Affiliation(s)
- Jinseong Kim
- Department of Chemistry, POSTECH-CATHOLIC Biomedical Engineering Institute, Pohang University of Science and Technology (POSTECH), Pohang 37673, Republic of Korea
| | - Hyeongmok Park
- Department of Chemistry, POSTECH-CATHOLIC Biomedical Engineering Institute, Pohang University of Science and Technology (POSTECH), Pohang 37673, Republic of Korea
| | - Gurusamy Saravanakumar
- Department of Chemistry, POSTECH-CATHOLIC Biomedical Engineering Institute, Pohang University of Science and Technology (POSTECH), Pohang 37673, Republic of Korea
| | - Won Jong Kim
- Department of Chemistry, POSTECH-CATHOLIC Biomedical Engineering Institute, Pohang University of Science and Technology (POSTECH), Pohang 37673, Republic of Korea
- School of Interdisciplinary Bioscience and Bioengineering, Pohang University of Science and Technology (POSTECH), Pohang 37673, Republic of Korea
- OmniaMed Co., Ltd, Pohang University of Science and Technology (POSTECH), Pohang 37673, Republic of Korea
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7
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Liu LS, Wang F, Ge Y, Lo PK. Recent Developments in Aptasensors for Diagnostic Applications. ACS APPLIED MATERIALS & INTERFACES 2021; 13:9329-9358. [PMID: 33155468 DOI: 10.1021/acsami.0c14788] [Citation(s) in RCA: 49] [Impact Index Per Article: 16.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/13/2023]
Abstract
Aptamers are exciting smart molecular probes for specific recognition of disease biomarkers. A number of strategies have been developed to convert target-aptamer binding into physically detectable signals. Since the aptamer sequence was first discovered, a large variety of aptamer-based biosensors have been developed, with considerable attention paid to their potential applications in clinical diagnostics. So far, a variety of techniques in combination with a wide range of functional nanomaterials have been used for the design of aptasensors to further improve the sensitivity and detection limit of target determination. In this paper, the advantages of aptamers over traditional antibodies as the molecular recognition components in biosensors for high-throughput screening target molecules are highlighted. Aptamer-target pairing configurations are predominantly single- or dual-site binding; the design of recognition modes of each aptamer-target pairing configuration is described. Furthermore, signal transduction strategies including optical, electrical, mechanical, and mass-sensitive modes are clearly explained together with examples. Finally, we summarize the recent progress in the development of aptamer-based biosensors for clinical diagnosis, including detection of cancer and disease biomarkers and in vivo molecular imaging. We then conclude with a discussion on the advanced development and challenges of aptasensors.
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Affiliation(s)
- Ling Sum Liu
- Department of Chemistry, City University of Hong Kong, Tat Chee Avenue, Kowloon, Hong Kong SAR, China
| | - Fei Wang
- Department of Chemistry, City University of Hong Kong, Tat Chee Avenue, Kowloon, Hong Kong SAR, China
| | - Yonghe Ge
- Department of Chemistry, City University of Hong Kong, Tat Chee Avenue, Kowloon, Hong Kong SAR, China
| | - Pik Kwan Lo
- Department of Chemistry, City University of Hong Kong, Tat Chee Avenue, Kowloon, Hong Kong SAR, China
- Key Laboratory of Biochip Technology, Biotech and Health Centre, Shenzhen Research Institute of City University of Hong Kong, Shenzhen 518057, China
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Heo KJ, Ko HS, Jeong SB, Kim SB, Jung JH. Enriched Aerosol-to-Hydrosol Transfer for Rapid and Continuous Monitoring of Bioaerosols. NANO LETTERS 2021; 21:1017-1024. [PMID: 33444028 DOI: 10.1021/acs.nanolett.0c04096] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Bioaerosols, including infectious diseases such as COVID-19, are a continuous threat to global public safety. Despite their importance, the development of a practical, real-time means of monitoring bioaerosols has remained elusive. Here, we present a novel, simple, and highly efficient means of obtaining enriched bioaerosol samples. Aerosols are collected into a thin and stable liquid film by the unique interaction of a superhydrophilic surface and a continuous two-phase centrifugal flow. We demonstrate that this method can provide a concentration enhancement ratio of ∼2.4 × 106 with a collection efficiency of ∼99.9% and an aerosol-into-liquid transfer rate of ∼95.9% at 500 nm particle size (smaller than a single bacterium). This transfer is effective in both laboratory and external ambient environments. The system has a low limit of detection of <50 CFU/m3air using a straightforward bioluminescence-based technique and shows significant potential for air monitoring in occupational and public-health applications.
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Affiliation(s)
- Ki Joon Heo
- Department of Environmental Machinery, Korea Institute of Machinery and Materials, Daejeon 34103, Republic of Korea
| | - Hyun Sik Ko
- Aerosol and Particle Technology Laboratory, Department of Mechanical Engineering, Sejong University, Seoul 05006, Republic of Korea
| | - Sang Bin Jeong
- Graduate School of Energy and Environment, Korea University, Seoul 02841, Republic of Korea
- Center for Environment, Health, and Welfare Research, Korea Institute of Science and Technology, Seoul 02792, Republic of Korea
| | - Sang Bok Kim
- Department of Environmental Machinery, Korea Institute of Machinery and Materials, Daejeon 34103, Republic of Korea
| | - Jae Hee Jung
- Aerosol and Particle Technology Laboratory, Department of Mechanical Engineering, Sejong University, Seoul 05006, Republic of Korea
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Zhao YT, Chen XX, Jiang WL, Li Y, Fei J, Li CY. Near-Infrared Fluorescence MOF Nanoprobe for Adenosine Triphosphate-Guided Imaging in Colitis. ACS APPLIED MATERIALS & INTERFACES 2020; 12:47840-47847. [PMID: 32981314 DOI: 10.1021/acsami.0c13003] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Adenosine triphosphate (ATP) is mainly produced in mitochondria and plays an important role in lots of pathological processes such as colitis. Unfortunately, to date, few suitable fluorescence probes have been developed for monitoring the ATP level in colitis. Herein, a fluorescence nanoprobe named NIR@ZIF-90 is proposed and prepared by encapsulating a rhodamine-based near-infrared (NIR) dye into zeolitic imidazolate frameworks (ZIF-90). The nanoprobe is nonfluorescent because the emission of NIR is suppressed by the encapsulation, while in the presence of ATP, the framework of ZIF-90 is dissembled to release NIR and thus NIR fluorescence at 750 nm is observed. The nanoprobe shows high sensitivity to ATP with a 72-fold increase and excellent selectivity to ATP over other nucleotides. Moreover, with low cytotoxicity and good mitochondria-targeted ability, NIR@ZIF-90 is used to image ATP in colorectal cancer cells (HCT116). In addition, due to the NIR emission, the nanoprobe is further employed to successfully monitor the ATP level in a colitis mouse model. To the best of our knowledge, the nanoprobe is the first example to study colitis in vivo with the guidance of ATP, which will provide an efficient tool for understanding colitis.
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Affiliation(s)
- Yi-Ting Zhao
- Key Laboratory for Green Organic Synthesis and Application of Hunan Province, Key Laboratory of Environmentally Friendly Chemistry and Applications of Ministry of Education, College of Chemistry, Xiangtan University, Xiangtan 411105, P. R. China
| | - Xi-Xi Chen
- Key Laboratory for Green Organic Synthesis and Application of Hunan Province, Key Laboratory of Environmentally Friendly Chemistry and Applications of Ministry of Education, College of Chemistry, Xiangtan University, Xiangtan 411105, P. R. China
| | - Wen-Li Jiang
- Key Laboratory for Green Organic Synthesis and Application of Hunan Province, Key Laboratory of Environmentally Friendly Chemistry and Applications of Ministry of Education, College of Chemistry, Xiangtan University, Xiangtan 411105, P. R. China
| | - Yongfei Li
- Key Laboratory for Green Organic Synthesis and Application of Hunan Province, Key Laboratory of Environmentally Friendly Chemistry and Applications of Ministry of Education, College of Chemistry, Xiangtan University, Xiangtan 411105, P. R. China
- College of Chemical Engineering, Xiangtan University, Xiangtan 411105, P. R. China
| | - Junjie Fei
- Key Laboratory for Green Organic Synthesis and Application of Hunan Province, Key Laboratory of Environmentally Friendly Chemistry and Applications of Ministry of Education, College of Chemistry, Xiangtan University, Xiangtan 411105, P. R. China
| | - Chun-Yan Li
- Key Laboratory for Green Organic Synthesis and Application of Hunan Province, Key Laboratory of Environmentally Friendly Chemistry and Applications of Ministry of Education, College of Chemistry, Xiangtan University, Xiangtan 411105, P. R. China
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Jeong S, Kwon WY, Hwang SH, Shin J, Kim Y, Lee M, Park KS. Fluorescence, turn-on detection of melamine based on its dual functions as fluorescence enhancer of DNA-AgNCs and Hg(II)-scavenger. ARTIFICIAL CELLS NANOMEDICINE AND BIOTECHNOLOGY 2019; 47:621-625. [DOI: 10.1080/21691401.2019.1574264] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Affiliation(s)
- Sehan Jeong
- Department of Biological Engineering, College of Engineering, Konkuk University, Seoul, Republic of Korea
| | - Woo Young Kwon
- Department of Biological Engineering, College of Engineering, Konkuk University, Seoul, Republic of Korea
| | - Sung Hyun Hwang
- Department of Biological Engineering, College of Engineering, Konkuk University, Seoul, Republic of Korea
| | - Jiye Shin
- Department of Biological Engineering, College of Engineering, Konkuk University, Seoul, Republic of Korea
| | - Yonghwan Kim
- Daisung Green Tech, Gyeonggi-do, Republic of Korea
| | - Miran Lee
- Daisung Green Tech, Gyeonggi-do, Republic of Korea
| | - Ki Soo Park
- Department of Biological Engineering, College of Engineering, Konkuk University, Seoul, Republic of Korea
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Comparison of turn-on and ratiometric fluorescent G-quadruplex aptasensor approaches for the detection of ATP. Anal Bioanal Chem 2019; 411:1319-1330. [PMID: 30612178 DOI: 10.1007/s00216-018-1484-x] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2018] [Revised: 10/19/2018] [Accepted: 11/07/2018] [Indexed: 12/31/2022]
Abstract
Two fluorescent aptasensor methods were developed for the detection of ATP in biochemical systems. The first method consisted of a label-free fluorescent "turn-on" approach using a guanine-rich ATP aptamer sequence and the DNA-binding agent berberine complex. In the presence of ATP, the ATP preferentially binds with its aptamer and conformationally changes into a G-quadruplex structure. The association of berberine with the G-quadruplex results in the enhancement of the fluorescence signal of the former. The detection limit of ATP was found to be 3.5 μM. Fluorescence, circular dichroism and melting temperature (Tm) experiments were carried out to confirm the binding specificity and structural changes. The second method employs the ratiometric fluorescent approach based on the Forster resonance energy transfer (FRET) for the detection of ATP using berberine along with a quencher (AuNRs, AgNPs) and a fluorophore (red quantum dots (RQDs), carbon dots (CDs)) labeled at 5' and 3' termini of the ATP-binding aptamer sequence. Upon addition of ATP and berberine, ATP specifically binds with its aptamer leading to the formation of G-quadruplex, and similarly, berberine also binds to the G-quadruplex. This leads to an enhancement of fluorescence of berberine while that of RQD and CDs were significantly quenched via FRET. The respective detection limits calculated were 3.6 μM and 3.8 μM, indicating these fluorescent aptasensor methods may be used for a wide variety of small molecules. Graphical abstract.
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Song X, Fu B, Lan Y, Chen Y, Wei Y, Dong C. Label-free fluorescent aptasensor berberine-based strategy for ultrasensitive detection of Hg 2+ ion. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2018; 204:301-307. [PMID: 29945113 DOI: 10.1016/j.saa.2018.06.058] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/23/2018] [Revised: 06/07/2018] [Accepted: 06/15/2018] [Indexed: 06/08/2023]
Abstract
A label-free fluorescent aptasensing platform was fabricated and a simple and rapid method to detect Hg2+ ion in aqueous solution was put forward by means of berberine and Hg2+ ion-aptamer are as the fluorescence probe and the recognition element, respectively. Various factors including the concentration of berberine, Hg2+ ion and Hg2+ ion-aptamer, pH effect and the reaction time were investigated in detail. Under the optimal experimental conditions, in the sensing system, the fluorescence intensity changes displayed a calibration response for Hg2+ ion in the range of 0.1 μM to 10.0 μM and the detection limit was of 7.7 nM (S/N = 3). The fabricated label-free fluorescence aptasensor is not only conveniently but also effectively applicable used for analysis of Hg2+ ion in blood serum and tap water samples and the recovery range is of 96.0%-105.7%. In brief, this study offers an easy, economical and stable assay system for detecting Hg2+ ion in rough condition.
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Affiliation(s)
- Xiuli Song
- Department of Chemistry, Taiyuan Normal University, Jinzhong 030619, PR China; Institute of Environmental Science, Shanxi University, Taiyuan 030006, PR China
| | - Baochun Fu
- Institute of Horticulture, Shanxi Academy of Agriculture Science, Taiyuan 030031, PR China
| | - Yifeng Lan
- Institute of Environmental Science, Shanxi University, Taiyuan 030006, PR China
| | - Yanxia Chen
- Institute of Environmental Science, Shanxi University, Taiyuan 030006, PR China
| | - Yanli Wei
- Institute of Environmental Science, Shanxi University, Taiyuan 030006, PR China.
| | - Chuan Dong
- Institute of Environmental Science, Shanxi University, Taiyuan 030006, PR China
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Zhang Z, Liu J. An engineered one-site aptamer with higher sensitivity for label-free detection of adenosine on graphene oxide. CAN J CHEM 2018. [DOI: 10.1139/cjc-2017-0601] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
The 27-nucleotide DNA aptamer for adenosine and ATP, originally selected by the Szostak lab in 1995, has been a very popular model system for biosensor development. This unique aptamer has two target binding sites, and we recently showed that it is possible to remove either site while the other one still retains binding. From an analytical perspective, tuning the number of binding sites has important implications in modulating sensitivity of the resulting biosensors. In this work, we report that the engineered one-site aptamer showed excellent signaling properties with a 2.6-fold stronger signal intensity and also a 4.2-fold increased detection limit compared with the wild-type two-site aptamer. The aptamer has a hairpin structure, and the length of the hairpin stem was systematically varied for the one-site aptamers. Isothermal titration calorimetry and a label-free fluorescence signaling method with graphene oxide and SYBR Green I were respectively used to evaluate binding and sensor performance. Although longer stemmed aptamers produced better adenosine binding affinity, the signaling was quite independent of the stem length as long as more than three base pairs were left. This was explained by the higher affinity of binding to GO by the longer aptamers, cancelling out the higher affinity for adenosine binding. This work further confirms the analytical applications of such one-site adenosine aptamers, which are potentially useful for improved ATP imaging and for developing new biosensors.
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Affiliation(s)
- Zijie Zhang
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, ON N2L 3G1, Canada
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, ON N2L 3G1, Canada
| | - Juewen Liu
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, ON N2L 3G1, Canada
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, ON N2L 3G1, Canada
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An aptamer-based ligation-triggered rolling circle amplification strategy for ATP detection and imaging in situ. J Photochem Photobiol A Chem 2018. [DOI: 10.1016/j.jphotochem.2017.09.076] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Gao B, Tang L, Zhang D, Xie Z, Su E, Liu H, Gu Z. Transpiration-Inspired Fabrication of Opal Capillary with Multiple Heterostructures for Multiplex Aptamer-Based Fluorescent Assays. ACS APPLIED MATERIALS & INTERFACES 2017; 9:32577-32582. [PMID: 28875697 DOI: 10.1021/acsami.7b10143] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
In this work we report a method for the fabrication of opal capillary with multiple heterostructures for aptamer-based assays. The method is inspired by plant transpiration. During the fabrication, monodisperse SiO2 nanoparticles (NPs) self-assemble in a glass capillary, with the solvent gradually evaporating from the top end of the capillary. By a simple change of the colloid solution that wicks through the capillary, multiple heterostructures can be easily prepared inside the capillary. On the surface of the SiO2 NPs, polydopamine is coated for immobilization of aminomethyl-modified aptamers. The aptamers are used for fluorescent detection of adenosine triphosphate (ATP) and thrombin. Owing to fluorescence enhancement effect of the photonic heterstructures, the fluorescent signal for detection is amplified up to 40-fold. The limit of detection is 32 μM for ATP and 8.1 nM for thrombin. Therefore, we believe this method is promising for the fabrication of analytical capillary devices for point-of-care testing.
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Affiliation(s)
- Bingbing Gao
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University , Nanjing 210096, China
| | - Litianyi Tang
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University , Nanjing 210096, China
| | - Dagan Zhang
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University , Nanjing 210096, China
| | - Zhuoying Xie
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University , Nanjing 210096, China
| | - Enben Su
- Getein Biotech, Inc., 9 Bofu Rd., Luhe District, Nanjing, Jiangsu 211505, China
| | - Hong Liu
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University , Nanjing 210096, China
- Laboratory of Environment and Biosafety, Research Institute of Southeast University in Suzhou , Suzhou 215123, China
| | - Zhongze Gu
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University , Nanjing 210096, China
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16
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Suaebah E, Naramura T, Myodo M, Hasegawa M, Shoji S, Buendia JJ, Kawarada H. Aptamer-Based Carboxyl-Terminated Nanocrystalline Diamond Sensing Arrays for Adenosine Triphosphate Detection. SENSORS 2017; 17:s17071686. [PMID: 28753998 PMCID: PMC5539861 DOI: 10.3390/s17071686] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/27/2017] [Revised: 07/10/2017] [Accepted: 07/20/2017] [Indexed: 02/07/2023]
Abstract
Here, we propose simple diamond functionalization by carboxyl termination for adenosine triphosphate (ATP) detection by an aptamer. The high-sensitivity label-free aptamer sensor for ATP detection was fabricated on nanocrystalline diamond (NCD). Carboxyl termination of the NCD surface by vacuum ultraviolet excimer laser and fluorine termination of the background region as a passivated layer were investigated by X-ray photoelectron spectroscopy. Single strand DNA (amide modification) was used as the supporting biomolecule to immobilize into the diamond surface via carboxyl termination and become a double strand with aptamer. ATP detection by aptamer was observed as a 66% fluorescence signal intensity decrease of the hybridization intensity signal. The sensor operation was also investigated by the field-effect characteristics. The shift of the drain current–drain voltage characteristics was used as the indicator for detection of ATP. From the field-effect characteristics, the shift of the drain current–drain voltage was observed in the negative direction. The negative charge direction shows that the aptamer is capable of detecting ATP. The ability of the sensor to detect ATP was investigated by fabricating a field-effect transistor on the modified NCD surface.
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Affiliation(s)
- Evi Suaebah
- Department of Nanoscience and Nanoengineering, School of Advanced Science and Engineering, Waseda University, Tokyo 169-8555, Japan.
| | - Takuro Naramura
- Department of Nanoscience and Nanoengineering, School of Advanced Science and Engineering, Waseda University, Tokyo 169-8555, Japan.
| | - Miho Myodo
- Department of Nanoscience and Nanoengineering, School of Advanced Science and Engineering, Waseda University, Tokyo 169-8555, Japan.
| | - Masataka Hasegawa
- Technology Research Association for Single Wall Carbon Nanotube (TASC), 1-1-1 Higashi, Tsukuba 305-8565, Japan.
| | - Shuichi Shoji
- Department of Nanoscience and Nanoengineering, School of Advanced Science and Engineering, Waseda University, Tokyo 169-8555, Japan.
| | - Jorge J Buendia
- Department of Nanoscience and Nanoengineering, School of Advanced Science and Engineering, Waseda University, Tokyo 169-8555, Japan.
| | - Hiroshi Kawarada
- Department of Nanoscience and Nanoengineering, School of Advanced Science and Engineering, Waseda University, Tokyo 169-8555, Japan.
- Kagami Memorial Research Institute for Material Science and Technology, Shinjuku-ku, Tokyo 169-0051, Japan.
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17
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Ji X, Lv H, Zhang W, Ding C. Adenosine triphosphate detection by controlled-release of carboxy fluorescein from mesoporous silica nanoparticles blocked with aptamer-based gold nanoparticles. JOURNAL OF ANALYTICAL CHEMISTRY 2017. [DOI: 10.1134/s1061934817040165] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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18
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A fluorescent aptasensing strategy for adenosine triphosphate detection using tris(bipyridine)ruthenium(II) complex containing six cyclodextrin units. CHINESE CHEM LETT 2017. [DOI: 10.1016/j.cclet.2016.11.013] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
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19
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Ng S, Lim HS, Ma Q, Gao Z. Optical Aptasensors for Adenosine Triphosphate. Theranostics 2016; 6:1683-702. [PMID: 27446501 PMCID: PMC4955066 DOI: 10.7150/thno.15850] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2016] [Accepted: 05/09/2016] [Indexed: 12/16/2022] Open
Abstract
Nucleic acids are among the most researched and applied biomolecules. Their diverse two- and three-dimensional structures in conjunction with their robust chemistry and ease of manipulation provide a rare opportunity for sensor applications. Moreover, their high biocompatibility has seen them being used in the construction of in vivo assays. Various nucleic acid-based devices have been extensively studied as either the principal element in discrete molecule-like sensors or as the main component in the fabrication of sensing devices. The use of aptamers in sensors - aptasensors, in particular, has led to improvements in sensitivity, selectivity, and multiplexing capacity for a wide verity of analytes like proteins, nucleic acids, as well as small biomolecules such as glucose and adenosine triphosphate (ATP). This article reviews the progress in the use of aptamers as the principal component in sensors for optical detection of ATP with an emphasis on sensing mechanism, performance, and applications with some discussion on challenges and perspectives.
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Affiliation(s)
| | | | | | - Zhiqiang Gao
- Department of Chemistry, National University of Singapore, Singapore 117543
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20
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Signal Improvement Strategies for Fluorescence Detection of Biomacromolecules. J Fluoresc 2016; 26:1131-9. [DOI: 10.1007/s10895-016-1806-3] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2016] [Accepted: 03/27/2016] [Indexed: 12/19/2022]
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21
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22
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Chen Z, Wu P, Cong R, Xu N, Tan Y, Tan C, Jiang Y. Sensitive Conjugated-Polymer-Based Fluorescent ATP Probes and Their Application in Cell Imaging. ACS APPLIED MATERIALS & INTERFACES 2016; 8:3567-74. [PMID: 26393287 DOI: 10.1021/acsami.5b06935] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Abstract
Three cationic conjugated polyelectrolytes (CPEs) with a common poly(p-phenylene ethynylene terthiophene) backbone and side chains of different lengths, named as PPET3-N1, PPET3-N2, and PPET3-N3, were designed and synthesized. The UV-vis absorption and fluorescence spectra of the polymers vary strongly with solvent composition, suggesting that the polymers are strongly aggregated in H2O. In addition, the spectroscopic properties of the polymers are affected by small-molecule ATP, characterized by significant fluorescence intensity decreases and red shifts of their absorption bands. Further application of these polymers in cell imaging was studied by confocal fluorescence microscopy, which demonstrated that all of the polymers were localized on the cell membrane and partially inside of cells and that the staining effect gradually increased with the length of the polymer side chains. On the basis of the low cytotoxicity and efficient quenching of PPET3-N2 by ATP, the dose and time effects of ATP on PPET3-N2 imaging were studied, and the results indicated that this polymer might have potential in cell imaging for ATP semiquantification in vivo.
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Affiliation(s)
- Zhifang Chen
- Department of Chemistry, Tsinghua University , Beijing 100084, P. R. China
- The Ministry-Province Jointly Constructed Base for State Key Lab, Shenzhen Key Laboratory of Chemical Biology, Graduate School at Shenzhen, Tsinghua University , Shenzhen 518055, P. R. China
| | - Pan Wu
- Department of Chemistry, Tsinghua University , Beijing 100084, P. R. China
- The Ministry-Province Jointly Constructed Base for State Key Lab, Shenzhen Key Laboratory of Chemical Biology, Graduate School at Shenzhen, Tsinghua University , Shenzhen 518055, P. R. China
| | - Rong Cong
- Cranbrook Kingswood Upper School , Bloomfield Hills, Michigan 48304, United States
| | - Naihan Xu
- The Ministry-Province Jointly Constructed Base for State Key Lab, Shenzhen Key Laboratory of Chemical Biology, Graduate School at Shenzhen, Tsinghua University , Shenzhen 518055, P. R. China
| | - Ying Tan
- The Ministry-Province Jointly Constructed Base for State Key Lab, Shenzhen Key Laboratory of Chemical Biology, Graduate School at Shenzhen, Tsinghua University , Shenzhen 518055, P. R. China
| | - Chunyan Tan
- Department of Chemistry, Tsinghua University , Beijing 100084, P. R. China
- The Ministry-Province Jointly Constructed Base for State Key Lab, Shenzhen Key Laboratory of Chemical Biology, Graduate School at Shenzhen, Tsinghua University , Shenzhen 518055, P. R. China
| | - Yuyang Jiang
- The Ministry-Province Jointly Constructed Base for State Key Lab, Shenzhen Key Laboratory of Chemical Biology, Graduate School at Shenzhen, Tsinghua University , Shenzhen 518055, P. R. China
- Department of Pharmacology and Pharmaceutical Sciences, School of Medicine, Tsinghua University , Beijing 100084, P. R. China
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23
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An exonuclease I-based label-free fluorometric aptasensor for adenosine triphosphate (ATP) detection with a wide concentration range. Biosens Bioelectron 2016; 63:311-316. [PMID: 25113049 DOI: 10.1016/j.bios.2014.07.064] [Citation(s) in RCA: 78] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2014] [Revised: 07/24/2014] [Accepted: 07/25/2014] [Indexed: 12/17/2022]
Abstract
A novel aptamer-based label-free assay for sensitive and selective detection of ATP was developed. This assay employs a new aptamer/fluorescent probe system that shows resistance to exonuclease I (Exo I) digestion upon binding to ATP molecules. In the absence of ATP, the complex between the ATP-binding aptamer (ATP-aptamer) and a DNA binding dye, berberine, is digested upon the addition of exonuclease I, leading to the release of berberine into solution and consequently, quenched berberine fluorescence. In the presence of ATP, the ATP-binding aptamer folds into a G-quadruplex structure that is resistant to Exo I digestion. Accordingly, berberine is protected in the G-quadruplex structure and high fluorescence intensity is observed. As such, based on the fluorescence signal change, a label-free fluorescence assay for ATP was developed. Factors affecting the analysis of ATP including the concentration of ATP-binding aptamer, reaction time, temperature and the concentration of Exo I were comprehensively investigated. Under optimal conditions, the fluorescence intensity of the sensing system displayed a response for ATP in a wide range up to 17.5 mM with a detection limit of 140 nM.
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24
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Mukherjee S, Meshik X, Choi M, Farid S, Datta D, Lan Y, Poduri S, Sarkar K, Baterdene U, Huang CE, Wang YY, Burke P, Dutta M, Stroscio MA. A Graphene and Aptamer Based Liquid Gated FET-Like Electrochemical Biosensor to Detect Adenosine Triphosphate. IEEE Trans Nanobioscience 2015; 14:967-72. [PMID: 26595926 DOI: 10.1109/tnb.2015.2501364] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Abstract
Here we report successful demonstration of a FET-like electrochemical nano-biosensor to accurately detect ultralow concentrations of adenosine triphosphate. As a 2D material, graphene is a promising candidate due to its large surface area, biocompatibility, and demonstrated surface binding chemistries and has been employed as the conducting channel. A short 20-base DNA aptamer is used as the sensing element to ensure that the interaction between the analyte and the aptamer occurs within the Debye length of the electrolyte (PBS). Significant increase in the drain current with progressive addition of ATP is observed whereas for control experiments, no distinct change in the drain current occurs. The sensor is found to be highly sensitive in the nanomolar (nM) to micromolar ( μM) range with a high sensitivity of 2.55 μA (mM) (-1), a detection limit as low as 10 pM, and it has potential application in medical and biological settings to detect low traces of ATP. This simplistic design strategy can be further extended to efficiently detect a broad range of other target analytes.
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25
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Larguinho M, Santos S, Almeida J, Baptista PV. DNA adduct identification using gold-aptamer nanoprobes. IET Nanobiotechnol 2015; 9:95-101. [PMID: 25829175 DOI: 10.1049/iet-nbt.2014.0007] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/08/2022] Open
Abstract
The optical and physico-chemical properties of gold nanoparticles (AuNPs) have prompted new and improved approaches which have greatly evolved the fields of biosensing and molecular detection. In this study, the authors took advantage of AuNPs' ease of modification and functionalised it with selected DNA aptamers using a salt aging method to produce gold-aptamer nanoprobes. After characterisation, these nanoprobes were subsequently used for biomolecular detection of glycidamide (GA)-guanine (Gua) adducts generated in vitro. The results are based on differences in nanoprobe stabilisation against salt-induced aggregation, similar to the non-cross-linking method developed by Baptista for discrimination of specific sequences. Alkylated Guas were efficiently discriminated from deoxyguanosine and GA in solution. Despite this, a clear identification of DNA adducts derived from genomic DNA alkylation has proven to be a more challenging task.
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Affiliation(s)
- Miguel Larguinho
- REQUIMTE, Departamento de Química, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, Campus de Caparica, 2829-516 Caparica, Portugal
| | - Sofia Santos
- CIGMH, Departamento Ciências da Vida, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, Campus de Caparica, 2829-516 Caparica, Portugal
| | - João Almeida
- CREM, Departamento Ciências da Vida, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, Campus de Caparica, 2829-516 Caparica, Portugal
| | - Pedro V Baptista
- CIGMH, Departamento Ciências da Vida, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, Campus de Caparica, 2829-516 Caparica, Portugal.
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26
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Yang J, Donolato M, Pinto A, Bosco FG, Hwu ET, Chen CH, Alstrøm TS, Lee GH, Schäfer T, Vavassori P, Boisen A, Lin Q, Hansen MF. Blu-ray based optomagnetic aptasensor for detection of small molecules. Biosens Bioelectron 2015; 75:396-403. [PMID: 26342583 DOI: 10.1016/j.bios.2015.08.062] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2015] [Revised: 08/27/2015] [Accepted: 08/28/2015] [Indexed: 10/23/2022]
Abstract
This paper describes an aptamer-based optomagnetic biosensor for detection of a small molecule based on target binding-induced inhibition of magnetic nanoparticle (MNP) clustering. For the detection of a target small molecule, two mutually exclusive binding reactions (aptamer-target binding and aptamer-DNA linker hybridization) are designed. An aptamer specific to the target and a DNA linker complementary to a part of the aptamer sequence are immobilized onto separate MNPs. Hybridization of the DNA linker and the aptamer induces formation of MNP clusters. The target-to-aptamer binding on MNPs prior to the addition of linker-functionalized MNPs significantly hinders the hybridization reaction, thus reducing the degree of MNP clustering. The clustering state, which is thus related to the target concentration, is then quantitatively determined by an optomagnetic readout technique that provides the hydrodynamic size distribution of MNPs and their clusters. A commercial Blu-ray optical pickup unit is used for optical signal acquisition, which enables the establishment of a low-cost and miniaturized biosensing platform. Experimental results show that the degree of MNP clustering correlates well with the concentration of a target small molecule, adenosine triphosphate (ATP) in this work, in the range between 10µM and 10mM. This successful proof-of-concept indicates that our optomagnetic aptasensor can be further developed as a low-cost biosensing platform for detection of small molecule biomarkers in an out-of-lab setting.
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Affiliation(s)
- Jaeyoung Yang
- Department of Micro- and Nanotechnology, Technical University of Denmark, DTU Nanotech, Building 345 East, DK-2800 Kongens Lyngby, Denmark; Department of Mechanical Engineering, Columbia University, New York, NY 10027, United States
| | - Marco Donolato
- Department of Micro- and Nanotechnology, Technical University of Denmark, DTU Nanotech, Building 345 East, DK-2800 Kongens Lyngby, Denmark
| | - Alessandro Pinto
- POLYMAT, University of the Basque Country UPV/EHU, 20018 Donostia-San Sebastián, Spain
| | - Filippo Giacomo Bosco
- Department of Micro- and Nanotechnology, Technical University of Denmark, DTU Nanotech, Building 345 East, DK-2800 Kongens Lyngby, Denmark
| | - En-Te Hwu
- Institute of Physics, Academia Sinica, Nankang, Taipei 11529, Taiwan
| | - Ching-Hsiu Chen
- Institute of Physics, Academia Sinica, Nankang, Taipei 11529, Taiwan
| | - Tommy Sonne Alstrøm
- Department of Micro- and Nanotechnology, Technical University of Denmark, DTU Nanotech, Building 345 East, DK-2800 Kongens Lyngby, Denmark
| | - Gwan-Hyoung Lee
- Department of Materials Science and Engineering, Yonsei University, Seoul 120-749, Republic of Korea
| | - Thomas Schäfer
- POLYMAT, University of the Basque Country UPV/EHU, 20018 Donostia-San Sebastián, Spain; IKERBASQUE, Basque Foundation for Science, 48011 Bilbao, Spain
| | - Paolo Vavassori
- IKERBASQUE, Basque Foundation for Science, 48011 Bilbao, Spain; CIC nanoGUNE Consolider, 20018 Donostia-San Sebastián, Spain
| | - Anja Boisen
- Department of Micro- and Nanotechnology, Technical University of Denmark, DTU Nanotech, Building 345 East, DK-2800 Kongens Lyngby, Denmark
| | - Qiao Lin
- Department of Mechanical Engineering, Columbia University, New York, NY 10027, United States.
| | - Mikkel Fougt Hansen
- Department of Micro- and Nanotechnology, Technical University of Denmark, DTU Nanotech, Building 345 East, DK-2800 Kongens Lyngby, Denmark.
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27
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Park JW, Park Y, Kim BH. Quencher-free molecular aptamer beacons (QF-MABs) for detection of ATP. Bioorg Med Chem Lett 2015; 25:4597-600. [PMID: 26320623 DOI: 10.1016/j.bmcl.2015.08.052] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2015] [Revised: 08/18/2015] [Accepted: 08/20/2015] [Indexed: 12/11/2022]
Abstract
We have constructed a simple and efficient system-based on quencher-free molecular aptamer beacons (QF-MABs)-for probing ATP. In the absence of ATP, the fluorescence of a pyrene fluorophore on the loop position (15 nucleotides from the 5' end) of the optimal QF-MAB was quenched by the neighboring nucleobases; in its presence, fluorescence was recovered, due to a conformational change in the secondary structure of the QF-MAB.
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Affiliation(s)
- Jung Woo Park
- Department of Chemistry, BK School of Molecular Science, Pohang University of Science and Technology, Pohang 790-784, South Korea.
| | - Yoojin Park
- Department of Chemistry, BK School of Molecular Science, Pohang University of Science and Technology, Pohang 790-784, South Korea
| | - Byeang Hyean Kim
- Department of Chemistry, BK School of Molecular Science, Pohang University of Science and Technology, Pohang 790-784, South Korea.
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28
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Golub E, Lu CH, Willner I. Metalloporphyrin/G-quadruplexes: From basic properties to practical applications. J PORPHYR PHTHALOCYA 2015. [DOI: 10.1142/s1088424615300025] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Abstract
Guanine-rich single-stranded nucleic acids self-assemble into G-quadruplex nanostructures (predominately in the presence of K +-ions). Metalloporphyrins bind to the G-quadruplex nanostructures to form supramolecular assemblies exhibiting unique catalytic, electrocatalytic and photophysical properties. This paper addresses the advances in the characterization and the implementation of the metalloporphyrin/G-quadruplexes complexes for various applications. Out of the different complexes, the most extensively studied complexes are the hemin/G-quadruplex horseradish peroxidase-mimicking DNAzyme and the Zn(II) -protoporphyrin IX-functionalized G-quadruplex. Specifically, the hemin/G-quadruplex was found to act as a catalyst for driving different chemical transformations that mimic the native horseradish peroxidase enzyme, and, also, to function as an electrocatalyst for the reduction of H 2 O 2. Also, the hemin/G-quadruplex stimulates interesting photophysical and photocatalytic processes such as the electron-transfer quenching of semiconductor quantum dots or the chemiluminescence resonance energy transfer to semiconductor quantum dots. Alternatively, Zn(II) -protoporphyrin IX associated with G-quadruplexes exhibit intensified fluorescence properties. Beyond the straight forward application of the metalloporphyrin/G-quadruplexes as catalysts that stimulate different chemical transformations, the specific catalytic, electrocatalytic and photocatalytic functions of hemin/G-quadruplexes are heavily implemented to develop sophisticated colorimetric, electrochemical, and optical sensing platforms. Also, the unique fluorescence properties of Zn(II) -protoporphyrin IX-functionalized G-quadruplexes are applied to develop fluorescence sensing platforms. The article exemplifies different sensing assays for analyzing DNA, ligand-aptamer complexes and telomerase activity using the metalloporphyrins/G-quadruplexes as transducing labels. Also, the use of the hemin/G-quadruplex as a probe to follow the operations of DNA machines is discussed.
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Affiliation(s)
- Eyal Golub
- Institute of Chemistry, The Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Givat Ram, Jerusalem 91904, Israel
| | - Chun-Hua Lu
- Institute of Chemistry, The Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Givat Ram, Jerusalem 91904, Israel
| | - Itamar Willner
- Institute of Chemistry, The Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Givat Ram, Jerusalem 91904, Israel
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29
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Wang K, Liao J, Yang X, Zhao M, Chen M, Yao W, Tan W, Lan X. A label-free aptasensor for highly sensitive detection of ATP and thrombin based on metal-enhanced PicoGreen fluorescence. Biosens Bioelectron 2014; 63:172-177. [PMID: 25086329 DOI: 10.1016/j.bios.2014.07.022] [Citation(s) in RCA: 75] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2014] [Revised: 06/27/2014] [Accepted: 07/08/2014] [Indexed: 11/29/2022]
Abstract
A label-free fluorescence aptasensor for highly selective and sensitive detection of ATP and thrombin was developed by using PicoGreen (PG) as signal molecule and surface-bound metal-enhanced fluorescence (MEF) substrates (silver island films, SIFs) as signal enhancers. On binding with ATP or thrombin, aptamers undergo structure switching, leading to a reduction of fluorescence intensity of PG. Chang of fluorescence intensity can be magnified by SIFs. The limit of detection for ATP and thrombin is 1.3 nM and 0.073 nM, respectively. The fluorescence quenching efficiency is linear in the logarithmic scale with ATP concentration range from 10 nM to 100 μM (R(2)=0.995) and thrombin concentration range from 0.1 nM to 100 nM (R(2)=0.997). The coefficients of variation of the intra-assay reproducibility and inter-assay reproducibility for ATP (10 μM) assay are 3.8% and 5.2%, respectively. In addition, the aptasensor is stable and can be reliably used for ATP measurement in biological samples. Overall, the aptasensor can be a useful and cost effective tool for the specific detection of ATP, thrombin and potentially other biomolecules in biological samples.
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Affiliation(s)
- Kaiyu Wang
- Institute of Laboratory Medicine, Fuzhou General Hospital of Nanjing Military Command, Fuzhou 350025, PR China; Department of Laboratory Medicine, Dongfang Hospital, Xiamen University, Fuzhou 350025, PR China; Department of Laboratory Medicine, Fuzong Clinical College, Fujian Medical University, Fuzhou 350025, PR China
| | - Jian Liao
- Institute of Laboratory Medicine, Fuzhou General Hospital of Nanjing Military Command, Fuzhou 350025, PR China; Department of Laboratory Medicine, Dongfang Hospital, Xiamen University, Fuzhou 350025, PR China
| | - Xiangyue Yang
- Institute of Laboratory Medicine, Fuzhou General Hospital of Nanjing Military Command, Fuzhou 350025, PR China; Department of Laboratory Medicine, Dongfang Hospital, Xiamen University, Fuzhou 350025, PR China
| | - Meng Zhao
- Institute of Laboratory Medicine, Fuzhou General Hospital of Nanjing Military Command, Fuzhou 350025, PR China; Department of Laboratory Medicine, Dongfang Hospital, Xiamen University, Fuzhou 350025, PR China
| | - Min Chen
- Institute of Laboratory Medicine, Fuzhou General Hospital of Nanjing Military Command, Fuzhou 350025, PR China; Department of Laboratory Medicine, Dongfang Hospital, Xiamen University, Fuzhou 350025, PR China
| | - Weirong Yao
- Department of Laboratory Medicine, Fuzong Clinical College, Fujian Medical University, Fuzhou 350025, PR China
| | - Weihong Tan
- Center for Research at the Bio/Nano Interface, Department of Chemistry and Shands Cancer Center, University of Florida, Gainesville, Florida 32611, United States; Plant Pathology Lab, North Florida Research and Education Center, University of Florida, Quincy, Florida 32351, United States; Molecular Science and Biomedicine Laboratory, State Key Laboratory of Chemo/Bio-Sensing and Chemometrics, College of Chemistry and Chemical Engineering, College of Biology, Collaborative Innovation Center for Chemistry and Molecular Medicine, Hunan University, Changsha 410082, PR China.
| | - Xiaopeng Lan
- Institute of Laboratory Medicine, Fuzhou General Hospital of Nanjing Military Command, Fuzhou 350025, PR China; Department of Laboratory Medicine, Dongfang Hospital, Xiamen University, Fuzhou 350025, PR China; Department of Laboratory Medicine, Fuzong Clinical College, Fujian Medical University, Fuzhou 350025, PR China.
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30
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Zhao J, Hu S, Zhong W, Wu J, Shen Z, Chen Z, Li G. Highly sensitive electrochemical aptasensor based on a ligase-assisted exonuclease III-catalyzed degradation reaction. ACS APPLIED MATERIALS & INTERFACES 2014; 6:7070-5. [PMID: 24786305 DOI: 10.1021/am502053d] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/15/2023]
Abstract
In this paper, we have proposed a new electrochemical aptasensor based on a novel ligase-assisted Exo III-catalyzed degradation reaction (LAECDR), which consists of DNA ligase-catalyzed ligation of thrombin-binding aptamer (TBA) with an extension strand (E-strand) and Exo III-catalyzed selective degradation of probe DNA, by using an improved target-induced strand displacement strategy. As a result of LAECDR, methylene blue (MB)-labeled mononucleotides can be released from the 3'-terminal of probe DNA and captured by cucurbit[7]uril-functionalized electrode to induce noticeable electrochemical response. Nevertheless, in the presence of the target protein, thrombin, the TBA that is partially complementary to probe DNA is preferentially binding with the target protein, thereby inhibiting LAECDR from taking place. The remaining intact probe DNA will prevent the terminal-attached MB from approaching to the electrode surface due to strong electrostatic repulsion, so the electrochemical response will be changed by thrombin. By tracing the electrochemical response of adsorbed MB, our aptasensor can exhibit high sensitivity for thrombin detection with a wide linear range from 100 fM to 1 nM and an extremely low detection limit of 33 fM, which can also easily distinguish thrombin in the complex serum samples with high specificity. Therefore, our aptasensor might have great potential in clinical applications in the future.
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Affiliation(s)
- Jing Zhao
- Laboratory of Biosensing Technology, School of Life Sciences, Shanghai University , Shanghai 200444, P. R. China
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Arnaut V, Langecker M, Simmel FC. Nanopore force spectroscopy of aptamer-ligand complexes. Biophys J 2014; 105:1199-207. [PMID: 24010663 DOI: 10.1016/j.bpj.2013.07.047] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2013] [Revised: 07/22/2013] [Accepted: 07/29/2013] [Indexed: 01/07/2023] Open
Abstract
The stability of aptamer-ligand complexes is probed in nanopore-based dynamic force spectroscopy experiments. Specifically, the ATP-binding aptamer is investigated using a backward translocation technique, in which the molecules are initially pulled through an α-hemolysin nanopore from the cis to the trans side of a lipid bilayer membrane, allowed to refold and interact with their target, and then translocated back in the trans-cis direction. From these experiments, the distribution of bound and unbound complexes is determined, which in turn allows determination of the dissociation constant Kd ≈ 0.1 mM of the aptamer and of voltage-dependent unfolding rates. The experiments also reveal differences in binding of the aptamer to AMP, ADP, or ATP ligands. Investigation of an aptamer variant with a stabilized ATP-binding site indicates fast conformational switching of the original aptamer before ATP binding. Nanopore force spectroscopy is also used to study binding of the thrombin-binding aptamer to its target. To detect aptamer-target interactions in this case, the stability of the ligand-free aptamer-containing G-quadruplexes-is tuned via the potassium content of the buffer. Although the presence of thrombin was detected, limitations of the method for aptamers with strong secondary structures and complexes with nanomolar Kd were identified.
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Affiliation(s)
- Vera Arnaut
- Lehrstuhl für Bioelektronik, Physik Department, Technische Universität München, Garching, Germany
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Feng C, Dai S, Wang L. Optical aptasensors for quantitative detection of small biomolecules: a review. Biosens Bioelectron 2014; 59:64-74. [PMID: 24690563 DOI: 10.1016/j.bios.2014.03.014] [Citation(s) in RCA: 191] [Impact Index Per Article: 19.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2013] [Revised: 02/27/2014] [Accepted: 03/06/2014] [Indexed: 01/16/2023]
Abstract
Aptasensors are aptamer-based biosensors with excellent recognition capability towards a wide range of targets. Specially, there have been ever-growing interests in the development of aptasensors for the detection of small molecules. This phenomenon is contributed to two reasons. On one hand, small biomolecules play an important role in living organisms with many kinds of biological function, such as antiarrhythmic effect and vasodilator activity of adenosine. On the other hand, the concentration of small molecules can be an indicator for disease diagnosis, for example, the concentration of ATP is closely associated with cell injury and cell viability. As a potential analysis tool in the construction of aptasensors, optical analysis has attracted much more interest of researchers due to its high sensitivity, quick response and simple operation. Besides, it promises the promotion of aptasensors in performance toward a new level. Review the development of optical aptasensors for small biomolecules will give readers an overall understanding of its progress and provide some theoretical guidelines for its future development. Hence, we give a mini-review on the advance of optical aptasensors for small biomolecules. This review focuses on recent achievements in the design of various optical aptasensors for small biomolecules, containing fluorescence aptasensors, colorimetric aptasensors, chemiluminescence aptasensors and other optical aptasensors.
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Affiliation(s)
- Chunjing Feng
- Key Laboratory of Natural Products Chemical Biology, Ministry of Education, School of Pharmaceutical Sciences, Shandong University, 250012 Jinan, PR China
| | - Shuang Dai
- Key Laboratory of Natural Products Chemical Biology, Ministry of Education, School of Pharmaceutical Sciences, Shandong University, 250012 Jinan, PR China
| | - Lei Wang
- Key Laboratory of Natural Products Chemical Biology, Ministry of Education, School of Pharmaceutical Sciences, Shandong University, 250012 Jinan, PR China.
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Cheng S, Zheng B, Wang M, Zhao Q, Lam MHW, Ge X. Determination of Adenosine Triphosphate by a Target Inhibited Catalytic Cycle Based on a Strand Displacement Reaction. ANAL LETT 2014. [DOI: 10.1080/00032719.2013.841179] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
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Liu J, Yu J, Chen J, Shih K. Noncovalent assembly of carbon nanoparticles and aptamer for sensitive detection of ATP. RSC Adv 2014. [DOI: 10.1039/c4ra05631k] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Here base on competitive interaction of electrostatic repulsion and π–π stacking, noncovalent assembly of carbon nanoparticles (cCNPs) with aptamer that allows sensitive and selective detection of ATP is reported. The sensor exhibits minimal background fluorescence and rapid kinetics response depending on the spherical structure of cCNPs.
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Affiliation(s)
- Jinhua Liu
- College of Geography and Environmental Science
- Zhejiang Normal University
- Jinhua, People's Republic of China
- Department of Civil Engineering
- The University of Hong Kong
| | - Jing Yu
- College of Geography and Environmental Science
- Zhejiang Normal University
- Jinhua, People's Republic of China
| | - Jianrong Chen
- College of Geography and Environmental Science
- Zhejiang Normal University
- Jinhua, People's Republic of China
| | - Kaimin Shih
- Department of Civil Engineering
- The University of Hong Kong
- Hong Kong, China
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Bing T, Mei H, Zhang N, Qi C, Liu X, Shangguan D. Exact tailoring of an ATP controlled streptavidin binding aptamer. RSC Adv 2014. [DOI: 10.1039/c4ra00714j] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022] Open
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36
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Leung KH, Lu L, Wang M, Mak TY, Chan DSH, Tang FK, Leung CH, Kwan HY, Yu Z, Ma DL. A label-free luminescent switch-on assay for ATP using a G-quadruplex-selective iridium(III) complex. PLoS One 2013; 8:e77021. [PMID: 24204723 PMCID: PMC3808368 DOI: 10.1371/journal.pone.0077021] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2013] [Accepted: 08/26/2013] [Indexed: 12/16/2022] Open
Abstract
We report herein the G-quadruplex-selective property of a luminescent cyclometallated iridium(III) complex for the detection of adenosine-5'-triphosphate (ATP) in aqueous solution. The ATP-binding aptamer was employed as the ATP recognition unit, while the iridium(III) complex was used to monitor the formation of the G-quadruplex structure induced by ATP. The sensitivity and fold enhancement of the assay were higher than those of the previously reported assay using the organic dye crystal violet as a fluorescent probe. This label-free luminescent switch-on assay exhibits high sensitivity and selectivity towards ATP with a limit of detection of 2.5 µM.
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Affiliation(s)
- Ka-Ho Leung
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong, China
| | - Lihua Lu
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong, China
| | - Modi Wang
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong, China
| | - Tsun-Yin Mak
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong, China
| | - Daniel Shiu-Hin Chan
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong, China
| | - Fung-Kit Tang
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong, China
| | - Chung-Hang Leung
- State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Macao, China
| | - Hiu-Yee Kwan
- Center for Cancer and Inflammation Research, School of Chinese Medicine, Hong Kong Baptist University, Hong Kong, China
| | - Zhiling Yu
- Center for Cancer and Inflammation Research, School of Chinese Medicine, Hong Kong Baptist University, Hong Kong, China
| | - Dik-Lung Ma
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong, China
- * E-mail:
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A target-triggered strand displacement reaction cycle: the design and application in adenosine triphosphate sensing. Anal Biochem 2013; 446:69-75. [PMID: 24161614 DOI: 10.1016/j.ab.2013.10.021] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2013] [Revised: 10/06/2013] [Accepted: 10/12/2013] [Indexed: 01/02/2023]
Abstract
A strand displacement reaction (SDR) system that runs solely on oligonucleotides has been developed for the amplification detection of adenosine triphosphate (ATP). It involves a target-induced SDR and an entropy-driven catalytic cycle of two SDRs with five oligonucleotides, denoted as substrate, fuel, catalyst, C-1, and C-2. Catalyst, released from the ATP aptamer-catalyst duplex by ATP molecule, catalyzes the SDRs to finally form the substrate-fuel duplex. All of the intermediates in the catalytic SDR processes have been identified by polyacrylamide gel electrophoresis (PAGE) analysis. The introduction of ATP into the SDR system will induce the ATP aptamer to form G-quadruplex conformation so as to release catalyst and trigger the SDR cycle. When the substrate and C-2 oligonucleotides were labeled with a carboxyfluorescein (FAM) fluorophore and a 4-([4-(dimethylamino)phenyl]azo)benzoic acid (DABCYL) quencher, this SDR catalytic system exhibited a "turn-on" response for ATP. The condition for detecting ATP, such as Mg²⁺ concentration, has been optimized to afford a detection limit of 20 nM. This work provides an enzyme-free biosensing strategy and has potential application in aptamer-based biosensing.
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Jin F, Lian Y, Li J, Zheng J, Hu Y, Liu J, Huang J, Yang R. Molecule-binding dependent assembly of split aptamer and γ-cyclodextrin: a sensitive excimer signaling approach for aptamer biosensors. Anal Chim Acta 2013; 799:44-50. [PMID: 24091373 DOI: 10.1016/j.aca.2013.08.012] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2013] [Revised: 08/04/2013] [Accepted: 08/06/2013] [Indexed: 11/27/2022]
Abstract
A highly sensitive and selective fluorescence aptamer biosensors for the determination of adenosine triphosphate (ATP) was developed. Binding of a target with splitting aptamers labeled with pyrene molecules form stable pyrene dimer in the γ-cyclodextrin (γ-CD) cavity, yielding a strong excimer emission. We have found that inclusion of pyrene dimer in γ-cyclodextrin cavity not only exhibits additive increases in quantum yield and emission lifetime of the excimer, but also facilitates target-induced fusion of the splitting aptamers to form the aptamer/target complex. As proof-of-principle, the approach was applied to fluorescence detection of adenosine triphosphate. With an anti-ATP aptamer, the approach exhibits excimer fluorescence response toward ATP with a maximum signal-to-background ratio of 32.1 and remarkably low detection limit of 80 nM ATP in buffer solution. Moreover, due to the additive fluorescence lifetime of excimer induced by γ-cyclodextrin, time-resolved measurements could be conveniently used to detect as low as 0.5 μM ATP in blood serum quantitatively.
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Affiliation(s)
- Fen Jin
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, PR China; Hubei Key Laboratory of Mine Environmental Pollution Control & Remediation, Environmental Science and Engineering College, Hubei Polytechnic University, Huangshi 435003, PR China
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Xu Y, Xu J, Xiang Y, Yuan R, Chai Y. Target-induced structure switching of hairpin aptamers for label-free and sensitive fluorescent detection of ATP via exonuclease-catalyzed target recycling amplification. Biosens Bioelectron 2013; 51:293-6. [PMID: 23974161 DOI: 10.1016/j.bios.2013.08.002] [Citation(s) in RCA: 59] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2013] [Revised: 07/31/2013] [Accepted: 08/02/2013] [Indexed: 01/13/2023]
Abstract
In this work, we described the development of a new label-free, simple and sensitive fluorescent ATP sensing platform based on exonuclease III (Exo III)-catalyzed target recycling (ECTR) amplification and SYBR Green I indicator. The hairpin aptamer probes underwent conformational structure switching and re-configuration in the presence of ATP, which led to catalytic cleavage of the re-configured aptamers by Exo III to release ATP and to initiate the ECTR process. Such ECTR process resulted in the digestion of a significant number of the hairpin aptamer probes, leading to much less intercalation of SYBR Green I to the hairpin stems and drastic suppression of the fluorescence emission for sensitive ATP detection down to the low nanomolar level. Due to the highly specific affinity bindings between aptamers and ATP, the developed method exhibited excellent selectivity toward ATP against other analogous molecules. Besides, our ATP sensing approach used un-modified aptamer probes and could be performed in a "mix-and-detect" fashion in homogenous solutions. All these distinct advantages of the developed method thus made it hold great potential for the development of simple and robust sensing strategies for the detection of other small molecules.
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Affiliation(s)
- Yunying Xu
- Key Laboratory on Luminescence and Real-Time Analysis, Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
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40
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Song Y, Yang X, Li Z, Zhao Y, Fan A. Label-free chemiluminescent ATP aptasensor based on graphene oxide and an instantaneous derivatization of guanine bases. Biosens Bioelectron 2013; 51:232-7. [PMID: 23968729 DOI: 10.1016/j.bios.2013.07.039] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2013] [Revised: 07/17/2013] [Accepted: 07/21/2013] [Indexed: 10/26/2022]
Abstract
In this work, a novel label-free chemiluminescent (CL) aptasensor has been developed for rapid and facile detection of adenosine triphosphate (ATP, as model analyte) using graphene oxide (GO) nano-platform. The strategy relies on the preferential binding of GO to single-stranded DNA (ssDNA) over rigid double-stranded DNA (dsDNA) or aptamer-target complexes, and the instantaneous derivative reaction between phenylglyoxal (PGO), a special CL reagent as the signaling molecule, and guanine nucleobases (G) of aptamer strands adsorbed on the surface of GO. In the absence of ATP, the aptamers adsorbed onto the surface of GO leading to a strong background CL signal. Conversely, in the presence of ATP, the aptamers formed the aptamer-ATP complexes which had weak binding ability to GO resulting in a significant CL signal decrease. The CL intensity was adversely related to the ATP concentration in the assay solution. The biosensor's signal decreased linearly with the logarithm of the concentration of ATP from 2 to 80 nmol with a detection limit of 1.4 nmol. The aptasensor also showed high selectivity against cytosine triphosphate (CTP), guanosine triphosphate (GTP), and uridine triphosphate (UTP). The method presented here holds the advantages of being label-free, cost effective, rapid, sensitive and selective, which would shows great promise for clinical application.
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Affiliation(s)
- Yinhuan Song
- Tianjin Key Laboratory for Modern Drug Delivery and High Efficiency, School of Pharmaceutical Science and Technology, Tianjin University, Tianjin 300072, People's Republic of China
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41
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Li Z, Wang Y, Liu Y, Zeng Y, Huang A, Peng N, Liu X, Liu J. A novel aptasensor for the ultra-sensitive detection of adenosine triphosphate via aptamer/quantum dot based resonance energy transfer. Analyst 2013; 138:4732-6. [PMID: 23814782 DOI: 10.1039/c3an00449j] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We designed a novel aptamer based biosensor (aptasensor) for ultrasensitive detection of adenosine triphosphate (ATP) through resonance energy transfer (RET). The ATP aptamer was modified with Cy3 at the 3' end, and a green quantum dot (525) was attached to the 5' end of its complementary sequence respectively. The ATP aptamer and its complementary sequence could assemble into a duplex structure in the absence of target ATP, and then decrease the distance between the quantum dot and Cy3 which could produce significant RET signal. Upon ATP binding, the ATP aptamer could dissociate with its complementary sequence and then increase the distance between the quantum dot and Cy3 which would significantly decrease the RET signal. Therefore, the ATP detection could be easily achieved through detection of the fluorescence intensity ratio between 525 nm and 560 nm. The results show that the emission fluorescence intensity ratio of 525/560 is linearly related to the logarithmic concentration of ATP. The linear range of this aptasensor is from 0.1 nM to 1 μM, and the detection limit is lower down to 0.01 nM. Excellent selectivity of this aptasensor for ATP has been demonstrated through the detection of thymidine triphosphate (TTP), cytidine triphosphate (CTP), guanosine triphosphate (GTP) and adenosine diphosphate (ADP) respectively as control. The method we described here could easily detect ATP with excellent selectivity, linearity and sensitivity down to the nanomolar range, as well as avoid photobleaching.
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Affiliation(s)
- Zheng Li
- Mengchao Hepatobiliary Hospital of Fujian Medical University, Fuzhou 350025, People's Republic of China
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42
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Wu J, Coradin T, Aimé C. Reversible bioresponsive aptamer-based nanocomposites: ATP binding and removal from DNA-grafted silica nanoparticles. J Mater Chem B 2013; 1:5353-5359. [DOI: 10.1039/c3tb20499e] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
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43
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Chen JR, Jiao XX, Luo HQ, Li NB. Probe-label-free electrochemical aptasensor based on methylene blue-anchored graphene oxide amplification. J Mater Chem B 2013; 1:861-864. [DOI: 10.1039/c2tb00267a] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
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Li F, Du Z, Yang L, Tang B. Selective and sensitive turn-on detection of adenosine triphosphate and thrombin based on bifunctional fluorescent oligonucleotide probe. Biosens Bioelectron 2012; 41:907-10. [PMID: 23102434 DOI: 10.1016/j.bios.2012.10.007] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2012] [Revised: 09/17/2012] [Accepted: 10/02/2012] [Indexed: 01/01/2023]
Abstract
A bifunctional fluorescent oligonucleotide probe for small molecules and protein detection has been developed based on turn on fluorescence response via the target induced structure-switching of molecular beacon. The two loops of this molecular beacon are designed in such a manner that they consist of thrombin (Tmb) aptamer sequence and adenosine triphosphate (ATP) aptamer sequence, respectively, which are utilized to sense thrombin and ATP. The oligonucleotide forms double stem-loops in the absence of targets, yielding no fluorescence emission because of the FRET from the excited fluorophore to the proximal quencher. Upon addition of the target, the ATP or Tmb, its specific interaction with loop sequence of the hairpin structure induce the separation of reporter fluorophore and the fluorescence quencher of the molecular beacon, resulting in an increase of fluorescence response. Hence, the separate analysis of ATP and Tmb could be realized through only one designed molecular beacon. The detection limits were estimated to be 25 nM for ATP and 12 nM for Tmb, respectively. The results of this study should substantially broaden the perspective for future development of oligonucleotide probe for analysis of other analytes.
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Affiliation(s)
- Feng Li
- College of Chemistry, Chemical Engineering and Materials Science, Key Laboratory of Molecular and Nano Probes, Ministry of Education, Shandong Normal University, 88 Wenhua East Road, Jinan 250014, China
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45
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Zhang Z, Sharon E, Freeman R, Liu X, Willner I. Fluorescence detection of DNA, adenosine-5'-triphosphate (ATP), and telomerase activity by zinc(II)-protoporphyrin IX/G-quadruplex labels. Anal Chem 2012; 84:4789-97. [PMID: 22540661 DOI: 10.1021/ac300348v] [Citation(s) in RCA: 138] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
The zinc(II)-protoporphyrin IX (ZnPPIX) fluorophore binds to G-quadruplexes, and this results in the enhanced fluorescence of the fluorophore. This property enabled the development of DNA sensors, aptasensors, and a sensor following telomerase activity. The DNA sensor is based on the design of a hairpin structure that includes a "caged" inactive G-quadruplex sequence. Upon opening the hairpin by the analyte DNA, the resulting fluorescence of the ZnPPIX/G-quadruplex provides the readout signal for the sensing event (detection limit 5 nM). Addition of Exonuclease III to the system allows the recycling of the analyte and its amplified analysis (detection limit, 200 pM). The association of the ZnPPIX to G-quadruplex aptamer-substrate complexes allowed the detection of adenosine-5'-triphosphate (ATP, detection limit 10 μM). Finally, the association of ZnPPIX to the G-quadruplex repeat units of telomers allowed the detection of telomerase activity originating from 380 ± 20 cancer 293T cell extract.
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Affiliation(s)
- Zhanxia Zhang
- Institute of Chemistry, The Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
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46
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Abstract
Since 1929, when it was discovered that ATP is a substrate for muscle contraction, the knowledge about this purine nucleotide has been greatly expanded. Many aspects of cell metabolism revolve around ATP production and consumption. It is important to understand the concepts of glucose and oxygen consumption in aerobic and anaerobic life and to link bioenergetics with the vast amount of reactions occurring within cells. ATP is universally seen as the energy exchange factor that connects anabolism and catabolism but also fuels processes such as motile contraction, phosphorylations, and active transport. It is also a signalling molecule in the purinergic signalling mechanisms. In this review, we will discuss all the main mechanisms of ATP production linked to ADP phosphorylation as well the regulation of these mechanisms during stress conditions and in connection with calcium signalling events. Recent advances regarding ATP storage and its special significance for purinergic signalling will also be reviewed.
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47
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Helwa Y, Dave N, Froidevaux R, Samadi A, Liu J. Aptamer-functionalized hydrogel microparticles for fast visual detection of mercury(II) and adenosine. ACS APPLIED MATERIALS & INTERFACES 2012; 4:2228-2233. [PMID: 22468717 DOI: 10.1021/am300241j] [Citation(s) in RCA: 76] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
With a low optical background, high loading capacity, and good biocompatibility, hydrogels are ideal materials for immobilization of biopolymers to develop optical biosensors. We recently immobilized mercury and lead binding DNAs within a monolithic gel and demonstrated ultrasensitive visual detection of these heavy metals. The high sensitivity was attributed to the enrichment of the analytes into the gels. The signaling kinetics was slow, however, taking about 1 h to obtain a stable optical signal because of a long diffusion distance. In this work, we aim to understand the analyte enrichment process and improve the signaling kinetics by preparing hydrogel microparticles. DNA-functionalized gel beads were synthesized using an emulsion polymerization technique and most of the beads were between 10 and 50 μm. Acrydite-modified DNA was incorporated by copolymerization. Visual detection of 10 nM Hg(2+) was still achieved and a stable signal was obtained in just 2 min. The gel beads could be spotted to form a microarray and dried for storage. A new visual sensor for adenosine was designed and immobilized within the gel beads. The adenosine aptamer binds its target about 1000-fold less tightly compared to the mercury binding DNA, allowing a comparison to be made on analyte enrichment by aptamer-functionalized hydrogels.
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Affiliation(s)
- Youssef Helwa
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, Ontario, Canada
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48
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Song P, Xiang Y, Xing H, Zhou Z, Tong A, Lu Y. Label-free catalytic and molecular beacon containing an abasic site for sensitive fluorescent detection of small inorganic and organic molecules. Anal Chem 2012; 84:2916-22. [PMID: 22400799 PMCID: PMC3310249 DOI: 10.1021/ac203488p] [Citation(s) in RCA: 81] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
In this work, two methods with complementary features, catalytic and molecular beacon (CAMB) and label-free fluorescent sensors using an abasic site, have been combined into new label-free CAMB sensors that possess advantages of each method. The label-free method using a dSpacer-containing molecular beacon makes CAMB more cost-effective and less interfering with the catalytic activity, while CAMB allows the label-free method to use true catalytic turnovers for signal amplifications, resulting in a new label-free CAMB sensor for Pb(2+) ion, with a detection limit of 3.8 nM while maintaining the same selectivity. Furthermore, by using CAMB to overcome the label-free method's limitation of requiring excess enzyme strands, a new label-free CAMB sensor using aptazyme is also designed to detect adenosine down to 1.4 μM, with excellent selectivity over other nucleosides.
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Affiliation(s)
- Panshu Song
- Department of Chemistry, Tsinghua University, Beijing 100084, China
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801
- Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801
| | - Yu Xiang
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801
- Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801
| | - Hang Xing
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801
- Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801
| | - Zhaojuan Zhou
- Department of Chemistry, Tsinghua University, Beijing 100084, China
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801
- Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801
| | - Aijun Tong
- Department of Chemistry, Tsinghua University, Beijing 100084, China
| | - Yi Lu
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801
- Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801
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He HZ, Ma VPY, Leung KH, Chan DSH, Yang H, Cheng Z, Leung CH, Ma DL. A label-free G-quadruplex-based switch-on fluorescence assay for the selective detection of ATP. Analyst 2012; 137:1538-40. [PMID: 22343772 DOI: 10.1039/c2an15999f] [Citation(s) in RCA: 71] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
A G-quadruplex-based, label-free, switch-on fluorescence detection method has been developed for the selective detection of ATP in aqueous solution using crystal violet as a G-quadruplex-selective probe. The assay is highly simple and rapid, and does not require the use of fluorescent labeling.
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Affiliation(s)
- Hong-Zhang He
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong, China
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50
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Kim B, Jung IH, Kang M, Shim HK, Woo HY. Cationic conjugated polyelectrolytes-triggered conformational change of molecular beacon aptamer for highly sensitive and selective potassium ion detection. J Am Chem Soc 2012; 134:3133-8. [PMID: 22280349 DOI: 10.1021/ja210360v] [Citation(s) in RCA: 151] [Impact Index Per Article: 12.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
We demonstrate highly sensitive and selective potassium ion detection against excess sodium ions in water, by modulating the interaction between the G-quadruplex-forming molecular beacon aptamer (MBA) and cationic conjugated polyelectrolyte (CPE). The K(+)-specific aptamer sequence in MBA is used as the molecular recognition element, and the high binding specificity of MBA for potassium ions offers selectivity against a range of metal ions. The hairpin-type MBA labeled with a fluorophore and quencher at both termini undergoes a conformational change (by complexation with CPEs) to either an open-chain form or a G-quadruplex in the absence or presence of K(+) ions. Conformational changes of MBA as well as fluorescence (of the fluorophore in MBA) quenching or amplification via fluorescence resonance energy transfer from CPEs provide clear signal turn-off and -on in the presence or absence of K(+). The detection limit of the K(+) assays is determined to be ~1.5 nM in the presence of 100 mM Na(+) ions, which is ~3 orders of magnitude lower than those reported previously. The successful detection of 5'-adenosine triphosphate (ATP) with the MBA containing an ATP-specific aptamer sequence is also demonstrated using the same sensor scheme. The scheme reported herein is applicable to the detection of other kinds of G-rich aptamer-binding chemicals and biomolecules.
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Affiliation(s)
- Boram Kim
- Department of Nano Fusion Technology, Pusan National University, Miryang 627-706, Republic of Korea
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