1
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Hou X, Ga L, Zhang X, Ai J. Advances in the application of logic gates in nanozymes. Anal Bioanal Chem 2024:10.1007/s00216-024-05240-w. [PMID: 38488951 DOI: 10.1007/s00216-024-05240-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2024] [Revised: 02/22/2024] [Accepted: 02/26/2024] [Indexed: 03/17/2024]
Abstract
Nanozymes are a class of nanomaterials with biocatalytic function and enzyme-like activity, whose advantages include high stability, low cost, and mass production. They can catalyze the substrates of natural enzymes based on specific nanostructures and serve as substitutes for natural enzymes. Their applied research involves a wide range of fields such as biomedicine, environmental governance, agriculture, and food. Molecular logic gates are a new cross-disciplinary discipline, which can simulate the function of silicon circuits on a molecular scale, perform single or multiple input logic operations, and generate logic outputs. A molecular logic gate is a binary operation that converts an input signal into an output signal according to the rules of Boolean logic, generating two signals, a high level, and a low level. The high and low levels represent the "true" and "false" values of the logic gates, and their outputs correspond to "l" and "0" of the molecular logic gates, respectively. The combination of nanozymes and logic gates is a novel and attractive research direction, and the cross-application of the two brings new opportunities and ideas for various fields, such as the construction of efficient biocomputers, intelligent drug delivery systems, and the precise diagnosis of diseases. This review describes the application of logic gates based on nanozymes, which is expected to provide a certain theoretical foundation for researchers' subsequent studies.
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Affiliation(s)
- Xiangru Hou
- College of Chemistry and Enviromental Science, Inner Mongolia Key Laboratory of Environmental Chemistry, Inner Mongolia Normal University, 81 zhaowudalu, Hohhot, 010022, China
| | - Lu Ga
- College of Pharmacy, Inner Mongolia Medical University, Jinchuankaifaqu, Hohhot, 010110, China
| | - Xin Zhang
- College of Chemical Engineering, Inner Mongolia University of Technology, 49 Aimin Road, Hohhot, 010051, China.
| | - Jun Ai
- College of Chemistry and Enviromental Science, Inner Mongolia Key Laboratory of Environmental Chemistry, Inner Mongolia Normal University, 81 zhaowudalu, Hohhot, 010022, China.
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2
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Zhao X, Na N, Ouyang J. Functionalized DNA nanoplatform for multi-target simultaneous imaging: Establish the atlas of cancer cell species. Talanta 2024; 267:125222. [PMID: 37778181 DOI: 10.1016/j.talanta.2023.125222] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2023] [Revised: 09/15/2023] [Accepted: 09/17/2023] [Indexed: 10/03/2023]
Abstract
Detection and imaging of cell membrane receptor proteins have gained widespread interest in recent years. However, recognition based on a single biomarker can induce false positive feedback, including off-target phenomenon caused by the absence of tumor-specific antigens. In addition, nucleic acid probes often cause nonspecific and undesired cell internalization during cell imaging. In this work, we constructed a logic gate DNA nano-platform (LGDP) for single-molecule imaging of cell membrane proteins to synergistically diagnose cancer cells. The traffic light-like color response of LGDP facilitates the precise discrimination among different cell lines. Combined with single molecule technology, the target proteins were qualitatively and quantitatively analyzed synergistically. Logic-gated recognition integrated in aptamer-functionalized molecular machines will prompt fast cells analysis, laying the foundation of cancer early diagnosis and treatment.
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Affiliation(s)
- Xuan Zhao
- College of Chemistry, Beijing Normal University, Beijing, 100875, China
| | - Na Na
- College of Chemistry, Beijing Normal University, Beijing, 100875, China
| | - Jin Ouyang
- College of Chemistry, Beijing Normal University, Beijing, 100875, China; Department of Chemistry, College of Arts and Sciences, Beijing Normal University at Zhuhai, Zhuhai City, 519087, Guangdong Province, China.
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3
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Li Q, Liu Y, Liang L, Zhang X, Huang K, Qin D. A terpyridyl-rhodamine hybrid fluorescent probe for discriminative sensing of Hg (II) and Cu (II) in water and applications for molecular logic gate and cell imaging. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2023; 302:123124. [PMID: 37451213 DOI: 10.1016/j.saa.2023.123124] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/21/2023] [Revised: 06/13/2023] [Accepted: 07/08/2023] [Indexed: 07/18/2023]
Abstract
Sensitive and discriminative sensing of more than one analyte with a single fluorescent probe is significant and challenging. Herein a new terpyridyl-rhodamine hybrid, namely TRH, has been rationally designed and prepared with two responsive groups in the molecular structure, which facilitate the discriminative detection of Hg2+ and Cu2+ ions in water with detection limits of 4.9 and 53.3 nM by ratiometric fluorescence change (F595/F485) and fluorescence quenching, respectively. Investigations show that the selectivity to Hg2+ ions can be attributed to Hg2+-promoted spirolactam ring opening and further hydrolysis, followed by a through-bond energy transfer (TBET) process. The selective fluorescence quenching to Cu2+ ions probably can be ascribed to the binding Cu2+ to terpyridyl that triggers a ligand-to-metal charge transfer (LMCT) process, which can also efficiently inhibit the TBET process induced by Hg2+ ions and promotes the discriminative sensing of Cu (II) and Hg (II). In addition, the fluorescent responses to Hg2+ and Cu2+ ions cover a wide pH range. Moreover, a combinatorial logic gate with the functions of NOR and INHIBIT has been fabricated by using Hg2+ and Cu2+ ions as chemical input signals, and fluorescence at 485 and 595 nm as output signals. Besides, TRH also exhibits sensitive and discriminative sensing ability to Hg2+ and Cu2+ ions by the fluorescence of rhodamine fluorophore. Significantly, based on the fluorescence signal output of rhodamine moiety, TRH can be used as a tracer for the discriminative sensing of Hg2+ and Cu2+ ions by using living cells.
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Affiliation(s)
- Qi Li
- School of Chemistry and Chemical Engineering, Key Laboratory of Chemical Synthesis and Pollution Control of Sichuan Province, China West Normal University, Nanchong 637002, China
| | - Yuting Liu
- School of Chemistry and Chemical Engineering, Key Laboratory of Chemical Synthesis and Pollution Control of Sichuan Province, China West Normal University, Nanchong 637002, China
| | - Lijuan Liang
- Shanghai Institute of Microsystem and Information Technology, Chinese Academy of Sciences, Shanghai 200050, China
| | - Xiangyu Zhang
- School of Chemistry and Chemical Engineering, Key Laboratory of Chemical Synthesis and Pollution Control of Sichuan Province, China West Normal University, Nanchong 637002, China
| | - Kun Huang
- School of Chemistry and Chemical Engineering, Key Laboratory of Chemical Synthesis and Pollution Control of Sichuan Province, China West Normal University, Nanchong 637002, China.
| | - Dabin Qin
- School of Chemistry and Chemical Engineering, Key Laboratory of Chemical Synthesis and Pollution Control of Sichuan Province, China West Normal University, Nanchong 637002, China.
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4
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Mattath MN, Zhang H, Ghosh D, Govindaraju T, Shi S. Nanoclusters with specific DNA overhangs: modifying configurability, engineering contrary logic pairs and the parity generator/checker for error detection. NANOSCALE 2023; 15:17386-17397. [PMID: 37847391 DOI: 10.1039/d3nr04167k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/18/2023]
Abstract
The most promising alternative for next-generation molecular computers is biocomputing, which uses DNAs as its primary building blocks to perform a Boolean operation. DNA nanoclusters (NCs) have emerged as promising candidates for biosensing applications due to their unique self-assembly properties and programmability. It has been demonstrated that adding DNA overhangs to DNA NCs improves their adaptability in identifying specific biomolecular interactions. A recent proposal in DNA computing is the concept of "contrary logic pairs (CLPs)" executed by employing a DNA hybrid architecture as a universal platform. We have designed thymine overhang-modified DNA-templated NCs (T-Au/Ag NCs). These NCs serve as a chemosensing ensemble platform, where the presence of HgII ions mediates the formation of M-Au/Ag NCs. The resulting NCs exhibit the capability to drive elementary CLPs (YES, NOT, OR, NOR, INH and IMP) as well as complex logic operations (XOR and XNOR). Additionally, they can be utilized for advanced non-arithmetic DNA logic devices like a parity generator (pG) and a parity checker (pC) for "error detection". Bit errors are an unavoidable and common occurrence during any computing. A cascade of XOR operations was used to evaluate these errors by introducing the pG and pC at the transmitting (TX) and receiving (RX) ends in binary transmission, respectively, which has devastating implications for reliable logic circuits, especially in advanced logic computation. Moreover, an even/odd natural number from 0 to 9 distinguishable pC was designed based on a dual-source responsive computing platform. This work offers inspiring avenues for a cost-effective strategy to construct highly-intelligent DNA computing devices by enhancing the multi-input responsive single DNA platform concept.
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Affiliation(s)
- Mohamed Nabeel Mattath
- School of Chemical Science and Engineering, Department of Clinical Laboratory, Shanghai Tenth People's Hospital, Tongji University, 1239 Siping Rd, Shanghai, 200092, PR China.
- Bioorganic Chemistry Laboratory, New Chemistry Unit and School of Advanced Materials (SAMat), Jawaharlal Nehru Centre for Advanced Scientific Research, Jakkur P.O., Bengaluru 560064, Karnataka, India.
| | - Haibin Zhang
- Endoscopy Center, Department of Gastroenterology, Shanghai East Hospital, Tongji University, School of Medicine, Shanghai, 200092, PR China
| | - Debasis Ghosh
- Bioorganic Chemistry Laboratory, New Chemistry Unit and School of Advanced Materials (SAMat), Jawaharlal Nehru Centre for Advanced Scientific Research, Jakkur P.O., Bengaluru 560064, Karnataka, India.
| | - Thimmaiah Govindaraju
- Bioorganic Chemistry Laboratory, New Chemistry Unit and School of Advanced Materials (SAMat), Jawaharlal Nehru Centre for Advanced Scientific Research, Jakkur P.O., Bengaluru 560064, Karnataka, India.
| | - Shuo Shi
- School of Chemical Science and Engineering, Department of Clinical Laboratory, Shanghai Tenth People's Hospital, Tongji University, 1239 Siping Rd, Shanghai, 200092, PR China.
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5
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Shi L, Tang Q, Yang B, Liu W, Li B, Yang C, Jin Y. Logic-Gates of Gas Pressure for Portable, Intelligent and Multiple Analysis of Metal Ions. Anal Chem 2023; 95:5702-5709. [PMID: 36939344 DOI: 10.1021/acs.analchem.2c05677] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/21/2023]
Abstract
DNA logic gates have shown outstanding magic in intelligent biology applications, but it remains challenging to construct a portable, affordable and convenient DNA logic gate. Herein, logic gates of gas pressure were innovatively developed for multiplex analysis of metal ions. Hg2+ and Ag+ were input to interact specifically with the respective mismatched base pairs, which activated DNA extension reaction by polymerase and led to the enrichment of platinum nanoparticles for catalyzing the decomposition of peroxide hydrogen. Thus, the gas pressure obtained from a sealed well was used as output for detecting or identifying metal ions. Hg2+ and Ag+ were sensitively and selectively detected, and the assay of the real samples was also satisfactory. Based on this, DNA logic gates, including YES, NOT, AND, OR, NAND, NOR, INHIBIT, and XOR were successfully established using a portable and hand-held gas pressure meter as detector. So, the interactions between DNA and metal ions were intelligently transferred into the output of gas pressure, which made metal ions to be detected portably and identified intelligently. Given the remarkable merits of simplicity, logic operation, and portable output, the metal ion-driven DNA logic gate of gas pressure provides a promising way for intelligent and portable biosensing.
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Affiliation(s)
- Lu Shi
- Key Laboratory of Analytical Chemistry for Life Science of Shaanxi Province, Key Laboratory of Applied Surface and Colloid Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an 710119, China
| | - Qiaorong Tang
- Key Laboratory of Analytical Chemistry for Life Science of Shaanxi Province, Key Laboratory of Applied Surface and Colloid Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an 710119, China
| | - Bing Yang
- Key Laboratory of Analytical Chemistry for Life Science of Shaanxi Province, Key Laboratory of Applied Surface and Colloid Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an 710119, China
| | - Wei Liu
- Key Laboratory of Analytical Chemistry for Life Science of Shaanxi Province, Key Laboratory of Applied Surface and Colloid Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an 710119, China
| | - Baoxin Li
- Key Laboratory of Analytical Chemistry for Life Science of Shaanxi Province, Key Laboratory of Applied Surface and Colloid Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an 710119, China
| | - Chaoyong Yang
- State Key Laboratory of Physical Chemistry of Solid Surfaces, The MOE Key Laboratory of Spectrochemical Analysis and Instrumentation, Collaborative Innovation Center of Chemistry for Energy Materials, Key Laboratory for Chemical Biology of Fujian Province, Department of Chemical Biology, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005, China
| | - Yan Jin
- Key Laboratory of Analytical Chemistry for Life Science of Shaanxi Province, Key Laboratory of Applied Surface and Colloid Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an 710119, China
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6
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Han MJ, Kim M, Tsukruk VV. Multivalued Logic for Optical Computing with Photonically Enabled Chiral Bio-organic Structures. ACS NANO 2022; 16:13684-13694. [PMID: 35882006 DOI: 10.1021/acsnano.2c04182] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Photonic bio-organic multiphase structures are suggested here for integrated thin-film electronic nets with multilevel logic elements for multilevel computing via a reconfigurable photonic bandgap of chiral biomaterials. Herein, inspired by an artificial intelligence system with efficient information integration and computing capability, the photonically active dielectric layer of chiral nematic cellulose nanocrystals is combined with printed-in p- and n-type organic semiconductors as a bifunctional logical element. These adaptive logic elements are capable of triggering tailored quantized electrical output signals under light with different photon energy and at the different photonic bandgaps of the active dielectric layer. The bifunctional structures enable complex memory behavior upon repetitive changes of photonic bandgap (controlled by expansion/contraction of chiral nematic pitch) and photon energy (controlled by light absorption wavelength of complementary organic semiconductor layers), exhibiting effectively a reconfigurable ternary logic response. This proof-of-concept bio-assisted multivalued logic structure facilitates an optical computing system for low-power optical information processing integrated with human-machine interfaces.
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Affiliation(s)
- Moon Jong Han
- School of Materials Science and Engineering, Georgia Institute of Technology, Atlanta, Georgia 30332, United States
| | - Minkyu Kim
- School of Materials Science and Engineering, Georgia Institute of Technology, Atlanta, Georgia 30332, United States
| | - Vladimir V Tsukruk
- School of Materials Science and Engineering, Georgia Institute of Technology, Atlanta, Georgia 30332, United States
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7
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Mattath MN, Ghosh D, Dong C, Govindaraju T, Shi S. Mercury mediated DNA-Au/Ag nanocluster ensembles to generate a gray code encoder for biocomputing. MATERIALS HORIZONS 2022; 9:2109-2114. [PMID: 35792070 DOI: 10.1039/d2mh00598k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Boolean operations utilizing DNA as a platform for biocomputing have become a promising tool for next-generation bio-molecular computers. In the whole process of any binary data transmission, bit errors are unavoidable and commonly occur. Cascades of exclusive-OR (XOR) operations show the great potential to evaluate these errors by introducing a parity generator (pG) and a parity checker (pC). Herein, we constructed a DNA hybrid architecture platform employing a chemosensing ensemble of mercury-mediated DNA-Au/Ag nanoclusters (M-Au/Ag NCs) to operate unconventional pG/pC for "error detection". Taking advantage of pG/pC, the transmitted and received data is converted to secure information using a binary to gray code encoder. To the best of our knowledge, this is the first molecular gray code encoder for biocomputing, which discovers an exciting avenue to protect information security through sophisticated logic circuits.
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Affiliation(s)
- Mohamed Nabeel Mattath
- School of Chemical Science and Engineering, Department of Oncology, Shanghai East Hospital, Tongji University, 1239 Siping Rd, Shanghai, 200092, P. R. China.
- Bioorganic Chemistry Laboratory, New Chemistry Unit and School of Advanced Materials (SAMat), Jawaharlal Nehru Centre for Advanced Scientific Research, Jakkur P.O., Bengaluru, 560064, Karnataka, India.
| | - Debasis Ghosh
- Bioorganic Chemistry Laboratory, New Chemistry Unit and School of Advanced Materials (SAMat), Jawaharlal Nehru Centre for Advanced Scientific Research, Jakkur P.O., Bengaluru, 560064, Karnataka, India.
| | - Chunyan Dong
- School of Chemical Science and Engineering, Department of Oncology, Shanghai East Hospital, Tongji University, 1239 Siping Rd, Shanghai, 200092, P. R. China.
| | - Thimmaiah Govindaraju
- Bioorganic Chemistry Laboratory, New Chemistry Unit and School of Advanced Materials (SAMat), Jawaharlal Nehru Centre for Advanced Scientific Research, Jakkur P.O., Bengaluru, 560064, Karnataka, India.
| | - Shuo Shi
- School of Chemical Science and Engineering, Department of Oncology, Shanghai East Hospital, Tongji University, 1239 Siping Rd, Shanghai, 200092, P. R. China.
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8
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Pawar S, Duadi H, Fleger Y, Fixler D. Design and Use of a Gold Nanoparticle-Carbon Dot Hybrid for a FLIM-Based IMPLICATION Nano Logic Gate. ACS OMEGA 2022; 7:22818-22824. [PMID: 35811911 PMCID: PMC9260748 DOI: 10.1021/acsomega.2c02463] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/20/2022] [Accepted: 06/08/2022] [Indexed: 06/15/2023]
Abstract
The interest in nanomaterials resides in the fact that they can be used to create smaller, faster, and more portable systems. Nanotechnology is already transforming health care. Nanoparticles are being used by scientists to target malignancies, improve drug delivery systems, and improve medical imaging. Integration of biomolecular logic gates with nanostructures has opened new paths in illness detection and therapy that need precise control of complicated components. Most studies have used fluorescence intensity techniques to implement the logic function. Its drawbacks, mainly when working with nanoparticles in intracellular media, include fluctuations in excitation power, fluorophore concentration dependence, and interference from cell autofluorescence. We suggest using fluorescence lifetime imaging microscopy (FLIM) in order to circumvent these constraints. Designing a nanohybrid composed of gold nanoparticles (AuNPs) and red-emitting carbon dots (CDs) can be used to develop a FLIM-based logic gate that can respond to multiple input parameters. Our findings indicate a nanohybrid that can serve as a nano-computer to receive and integrate chemical and biochemical stimuli and produce a definitive output measured by FLIM. This can open a new research avenue for enhanced diagnostics and therapy that require complicated factor handling and precise control. The AuNPs are conjugated to CDs' surfaces through a strong covalent linkage. The AuNP-CD nanohybrid shows fluorescence lifetime (FLT) quenching of pristine CDs after conjugation to AuNPs. The FLT was reduced from 3.61 ± 0.037 to 2.48 ± 0.040 ns. This quenched FLT can be recovered back by using trypsin as a recovering agent, giving us a reversible logic output. The FLT was recovered to 3.01 ± 0.01 ns after trypsin addition. This "on-off-on" response can be used to construct the IMPLICATION logic gate.
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Affiliation(s)
- Shweta Pawar
- Faculty
of Engineering, Bar Ilan University, Ramat Gan 5290002, Israel
- Bar-Ilan
Institute of Nanotechnology & Advanced Materials (BINA), Bar Ilan University, Ramat Gan 5290002, Israel
| | - Hamootal Duadi
- Faculty
of Engineering, Bar Ilan University, Ramat Gan 5290002, Israel
- Bar-Ilan
Institute of Nanotechnology & Advanced Materials (BINA), Bar Ilan University, Ramat Gan 5290002, Israel
| | - Yafit Fleger
- Bar-Ilan
Institute of Nanotechnology & Advanced Materials (BINA), Bar Ilan University, Ramat Gan 5290002, Israel
| | - Dror Fixler
- Faculty
of Engineering, Bar Ilan University, Ramat Gan 5290002, Israel
- Bar-Ilan
Institute of Nanotechnology & Advanced Materials (BINA), Bar Ilan University, Ramat Gan 5290002, Israel
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9
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Facile and diverse logic circuits based on dumbbell DNA-templated fluorescent copper nanoclusters and S1 nuclease detection. CHINESE CHEM LETT 2022. [DOI: 10.1016/j.cclet.2021.09.020] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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10
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Zou Y, Chai Q, Zhu T, Yu X, Mao G, Li N, Chen J, Lai G. Simultaneously colorimetric detection and effective removal of mercury ion based on facile preparation of novel and green enzyme mimic. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2022; 266:120410. [PMID: 34601367 DOI: 10.1016/j.saa.2021.120410] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/17/2021] [Revised: 09/09/2021] [Accepted: 09/18/2021] [Indexed: 06/13/2023]
Abstract
In this work, an environmentally-friendly and cost-effective enzyme mimic was obtained by facile one-pot preparation of chitosan/Cu/Fe (CS/Cu/Fe) composite. This composite exhibited significantly enhanced oxidase-mimicking activity during catalyzing the oxidation of 3, 3', 5, 5'-tetramethylbenzidine (TMB). The CS/Cu/Fe composite was comprehensively characterized and the possible catalytic mechanism was reasonably explored and discussed. Benefiting from the thermal stability and the compatibility with carbohydrate, the CS/Cu/Fe composite was further integrated with agarose hydrogel to fabricate a portable analytical tube containing oxidase mimic. Based on the inhibition of the catalytic oxidation of TMB in the presence of cysteine, as well as the recovery of oxidase-like activity of CS/Cu/Fe due to the specific complexation of cysteine and mercury ion (Hg2+), the rapid colorimetric detection of Hg2+ was successfully carried out in the analytical tube. This colorimetric method showed good linear response to Hg2+ over the range from 40 nM to 8.0 μM with a detection limit of 8.9 nM. The method also revealed high selectivity and satisfactory results in recovery experiments of Hg2+ detection in tap water and lake water. Furthermore, it was found that the effective removal of Hg2+ could be realized in the analytical tube based on efficient Hg2+ adsorption by CS/Cu/Fe composite and agarose hydrogel. This study not only prepared a robust and low-cost enzyme mimic, but also proposed a smart strategy to simultaneously monitor and remove toxic Hg2+ from contaminated water.
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Affiliation(s)
- Yanyun Zou
- Hubei Key Laboratory of Pollutant Analysis & Reuse Technology, College of Chemistry and Chemical Engineering, Hubei Normal University, Huangshi 435002, Hubei, China
| | - Qingli Chai
- Hubei Key Laboratory of Pollutant Analysis & Reuse Technology, College of Chemistry and Chemical Engineering, Hubei Normal University, Huangshi 435002, Hubei, China
| | - Ting Zhu
- Hubei Key Laboratory of Pollutant Analysis & Reuse Technology, College of Chemistry and Chemical Engineering, Hubei Normal University, Huangshi 435002, Hubei, China
| | - Xiaoxiao Yu
- Hubei Key Laboratory of Pollutant Analysis & Reuse Technology, College of Chemistry and Chemical Engineering, Hubei Normal University, Huangshi 435002, Hubei, China
| | - Guobin Mao
- Institute of Synthetic Biology, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, Guangdong, China
| | - Ningxing Li
- College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, Hunan, China
| | - Jinyang Chen
- Hubei Key Laboratory of Pollutant Analysis & Reuse Technology, College of Chemistry and Chemical Engineering, Hubei Normal University, Huangshi 435002, Hubei, China.
| | - Guosong Lai
- Hubei Key Laboratory of Pollutant Analysis & Reuse Technology, College of Chemistry and Chemical Engineering, Hubei Normal University, Huangshi 435002, Hubei, China
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11
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Chen B, Ma W, Long X, Cheng H, Sun H, Huang J, Jia R, He X, Wang K. Membrane Protein and Extracellular Acid Heterogeneity-Driven Amplified DNA Logic Gate Enables Accurate and Sensitive Identification of Cancer Cells. Anal Chem 2022; 94:2502-2509. [PMID: 35089704 DOI: 10.1021/acs.analchem.1c04347] [Citation(s) in RCA: 15] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
DNA logic gates, as a class of smart molecular devices with excellent biocompatibility and convenient information processing mode, have been widely used for identification of cancer cells based on logic analysis of cancer biomarkers. However, most of the developed DNA logic gates for identification of cancer cells are mainly driven by homogeneous biomarkers such as membrane proteins or RNAs, which may suffer from insufficient accuracy. Herein, we reported a membrane protein and extracellular acid heterogeneity-driven amplified DNA logic gate (HDLG) for accurate and sensitive identification of cancer cells by combining the superior signal amplification characteristics of the hybridization chain reaction (HCR) and the precise computation ability of the logic operation. In this strategy, a DNA aptamer was employed for membrane protein recognition, and a split i-motif was used for the response of the extracellular acid. Only when the two heterogeneous biomarkers existed simultaneously, the DNA logic gate could be driven to perform the "AND" logic operation and induce the formation of an intact trigger to initiate a HCR process on the cell surface, generating an amplified "ON" fluorescence signal. Benefiting from the design of heterogeneity-driven and signal amplification, this DNA logic gate could not only autonomously perform high-resolution fluorescence imaging on the surface of target cancer cells, but also perform sensitive analysis of target cancer cells with a cell number of 70 detected in 200 μL of buffer and desirable accuracy in differentiating target cancer cells from complicated cell mixtures. We anticipate that this novel HDLG is expected to be applied in precise disease diagnosis.
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Affiliation(s)
- Biao Chen
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Hunan University, Changsha 410082, China
| | - Wenjie Ma
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Hunan University, Changsha 410082, China
| | - Xu Long
- The Guangdong Technion-Israel Institute of Technology, Shantou 515000, China
| | - Hong Cheng
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Hunan University, Changsha 410082, China
| | - Huanhuan Sun
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Hunan University, Changsha 410082, China
| | - Jin Huang
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Hunan University, Changsha 410082, China
| | - Ruichen Jia
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Hunan University, Changsha 410082, China
| | - Xiaoxiao He
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Hunan University, Changsha 410082, China
| | - Kemin Wang
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Hunan University, Changsha 410082, China
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12
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Fan D, Wang J, Han J, Wang E, Dong S. Engineering DNA logic systems with non-canonical DNA-nanostructures: basic principles, recent developments and bio-applications. Sci China Chem 2021. [DOI: 10.1007/s11426-021-1131-1] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
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13
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Wang X, Chen X, Chu C, Deng Y, Yang M, Huo D, Xu F, Hou C, Lv J. Naked-eye detection of site-specific ssRNA and ssDNA using PAMmer-assisted CRISPR/Cas9 coupling with exponential amplification reaction. Talanta 2021; 233:122554. [PMID: 34215057 DOI: 10.1016/j.talanta.2021.122554] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2021] [Revised: 05/08/2021] [Accepted: 05/24/2021] [Indexed: 12/26/2022]
Abstract
Accurate and effective detection of single-stranded nucleic acids is vital in both disease diagnosis and pathological studies. Hence, we develop a PAMmer-assisted CRISPR/Cas9 system mediated G4-EXPAR (Cas-G4EX) strategy for site-specific detection of ssRNA and ssDNA. PAMmer-assisted CRISPR/Cas9 executes the site-specific cleavage of target ssRNA or ssDNA and released product fragment with the desired sequence at the 3'-terminal. This fragment serves as a primer to activate subsequent sequence-dependent exponential amplification reaction (EXPAR). The G-rich EXPAR products assembles with hemin to form a G-Quadruplex (G4/hemin). G4/hemin catalyzes ABTS-H2O2 system with the appearance of vivid green color, realizing naked-eye analysis. Cas-G4EX integrates the superiority of CRISPR/Cas9 and EXPAR, presenting outstanding site-specific recognition and high-performance amplification efficiency. Meanwhile, the programmability of CRISPR/Cas9 system makes the proposed method become a universal detection paradigm for any ssRNA or ssDNA. Cas-G4EX assay shows the linear relationship from 250 aM to 2.5 nM for ssRNA detection with the actual LOD of 250 aM, and that ranges from 100 aM to 1 nM for ssDNA detection with the actual LOD of 100 aM. Additionally, the acceptable recoveries of 101.48%-109.61% for ssRNA and 93.25%-111.98% for ssDNA in real detection of human serum are obtained for detection of single-strand nucleic acid in real samples. Cas-G4EX also exhibits the excellent discrimination for single-base mutation of single-stranded nucleic acids. Therefore, Cas-G4EX assay provides a promising platform in the applications of molecular diagnosis and pathological analysis.
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Affiliation(s)
- Xianfeng Wang
- Key Laboratory for Biorheological Science and Technology of Ministry of Education, State and Local Joint Engineering Laboratory for Vascular Implants, Bioengineering College of Chongqing University, Chongqing, 400044, PR China
| | - Xiaolong Chen
- Key Laboratory for Biorheological Science and Technology of Ministry of Education, State and Local Joint Engineering Laboratory for Vascular Implants, Bioengineering College of Chongqing University, Chongqing, 400044, PR China
| | - Chengxiang Chu
- Key Laboratory for Biorheological Science and Technology of Ministry of Education, State and Local Joint Engineering Laboratory for Vascular Implants, Bioengineering College of Chongqing University, Chongqing, 400044, PR China
| | - Yuanyi Deng
- Key Laboratory for Biorheological Science and Technology of Ministry of Education, State and Local Joint Engineering Laboratory for Vascular Implants, Bioengineering College of Chongqing University, Chongqing, 400044, PR China
| | - Mei Yang
- Key Laboratory for Biorheological Science and Technology of Ministry of Education, State and Local Joint Engineering Laboratory for Vascular Implants, Bioengineering College of Chongqing University, Chongqing, 400044, PR China
| | - Danqun Huo
- Key Laboratory for Biorheological Science and Technology of Ministry of Education, State and Local Joint Engineering Laboratory for Vascular Implants, Bioengineering College of Chongqing University, Chongqing, 400044, PR China; Chongqing Key Laboratory of Bio-perception & Intelligent Information Processing, School of Microelectronics and Communication Engineering, Chongqing University, Chongqing, 400044, PR China.
| | - Faliang Xu
- Medical School of Chongqing University, Chongqing, 400044, PR China.
| | - Changjun Hou
- Key Laboratory for Biorheological Science and Technology of Ministry of Education, State and Local Joint Engineering Laboratory for Vascular Implants, Bioengineering College of Chongqing University, Chongqing, 400044, PR China.
| | - Jiayi Lv
- Key Laboratory for Biorheological Science and Technology of Ministry of Education, State and Local Joint Engineering Laboratory for Vascular Implants, Bioengineering College of Chongqing University, Chongqing, 400044, PR China
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14
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Fang Y, Zhou L, Yang J, Zhao J, Zhang Y, Yi C. Multilevel, Dual-Readout Logic Operations Based on pH-Responsive Holmium(III)-Doped Carbon Nanodots. ACS APPLIED BIO MATERIALS 2020; 3:3761-3769. [DOI: 10.1021/acsabm.0c00356] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Yaning Fang
- Key Laboratory of Sensing Technology and Biomedical Instruments (Guangdong Province), School of Biomedical Engineering, Sun Yat-sen University, Guangzhou 510006, China
| | - Lefei Zhou
- Key Laboratory of Sensing Technology and Biomedical Instruments (Guangdong Province), School of Biomedical Engineering, Sun Yat-sen University, Guangzhou 510006, China
| | - Jun Yang
- Guangdong Provincial People’s Hospital, Guangzhou 510080, China
| | - Junkai Zhao
- Key Laboratory of Sensing Technology and Biomedical Instruments (Guangdong Province), School of Biomedical Engineering, Sun Yat-sen University, Guangzhou 510006, China
| | - Yali Zhang
- Key Laboratory of Sensing Technology and Biomedical Instruments (Guangdong Province), School of Biomedical Engineering, Sun Yat-sen University, Guangzhou 510006, China
| | - Changqing Yi
- Key Laboratory of Sensing Technology and Biomedical Instruments (Guangdong Province), School of Biomedical Engineering, Sun Yat-sen University, Guangzhou 510006, China
- Research Institute of Sun Yat-sen University in Shenzhen, Shenzhen 518057, China
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15
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Zhao S, Liu Y, Wang B, Zhou C, Zhang Q. DNA logic circuits based on FokI enzyme regulation. NEW J CHEM 2020. [DOI: 10.1039/c9nj05510j] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
A series of DNA logic devices was constructed based on the allosteric strategy of the enzyme-assisted cleavage regulation system, which are simple in scale, modular, and work efficiently.
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Affiliation(s)
- Sue Zhao
- Key Laboratory of Advanced Design and Intelligent Computing
- Ministry of Education
- School of Software Engineering
- Dalian University
- Dalian 116622
| | - Yuan Liu
- School of Computer Science and Technology
- Dalian University of Technology
- Dalian 116024
- China
| | - Bin Wang
- Key Laboratory of Advanced Design and Intelligent Computing
- Ministry of Education
- School of Software Engineering
- Dalian University
- Dalian 116622
| | - Changjun Zhou
- College of Computer Science and Engineering
- Dalian Minzu University
- Dalian
- China
| | - Qiang Zhang
- Key Laboratory of Advanced Design and Intelligent Computing
- Ministry of Education
- School of Software Engineering
- Dalian University
- Dalian 116622
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16
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Chai Y, Leonard P, Guo X, Seela F. Silver-Mediated Homochiral and Heterochiral α-dC/β-dC Base Pairs: Synthesis of α-dC through Glycosylation and Impact of Consecutive, Isolated, and Multiple Metal Ion Pairs on DNA Stability. Chemistry 2019; 25:16639-16651. [PMID: 31583755 PMCID: PMC6972701 DOI: 10.1002/chem.201903915] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2019] [Revised: 10/02/2019] [Indexed: 02/05/2023]
Abstract
Isolated and consecutive heterochiral α-dC- base pairs have been incorporated into 12-mer oligonucleotide duplexes at various positions, thereby replacing Watson-Crick pairs. To this end, a new synthesis of the α-d anomer of dC has been developed, and oligonucleotides containing α-dC residues have been synthesized. Silver-mediated base pairs were formed upon the addition of silver ions. Furthermore, we have established that heterochiral α-dC-dC base pairs can approach the stability of a Watson-Crick pair, whereas homochiral dC-dC pairs are significantly less stable. A positional change of the silver-mediated base pairs affects the duplex stability and reveals the nearest-neighbor influence. When the number of silver ions was equivalent to the number of duplex base pairs (12), non-melting silver-rich complexes were formed. Structural changes have been supported by circular dichroism (CD) spectra, which showed that the B-DNA structure was maintained whilst the silver ion concentration was low. At high silver ion concentration, silver-rich complexes displaying different CD spectra were formed.
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Affiliation(s)
- Yingying Chai
- Laboratory of Bioorganic Chemistry and Chemical BiologyCenter for NanotechnologyHeisenbergstrasse 1148149MünsterGermany
- Department of Respiratory and Critical Care MedicineTargeted Tracer Research and Development LaboratoryWest China HospitalSichuan UniversitySichuan610041P. R. China
| | - Peter Leonard
- Laboratory of Bioorganic Chemistry and Chemical BiologyCenter for NanotechnologyHeisenbergstrasse 1148149MünsterGermany
| | - Xiurong Guo
- Laboratory of Bioorganic Chemistry and Chemical BiologyCenter for NanotechnologyHeisenbergstrasse 1148149MünsterGermany
| | - Frank Seela
- Laboratory of Bioorganic Chemistry and Chemical BiologyCenter for NanotechnologyHeisenbergstrasse 1148149MünsterGermany
- Laboratorium für Organische und Bioorganische ChemieInstitut für Chemie neuer MaterialienUniversität OsnabrückBarbarastrasse 749069OsnabrückGermany
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17
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Peng H, Newbigging AM, Reid MS, Uppal JS, Xu J, Zhang H, Le XC. Signal Amplification in Living Cells: A Review of microRNA Detection and Imaging. Anal Chem 2019; 92:292-308. [DOI: 10.1021/acs.analchem.9b04752] [Citation(s) in RCA: 94] [Impact Index Per Article: 18.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Affiliation(s)
- Hanyong Peng
- Division of Analytical and Environmental Toxicology, Department of Laboratory Medicine and Pathology, Faculty of Medicine and Dentistry, University of Alberta, 10-102 Clinical
Sciences Building, Edmonton, Alberta T6G 2G3, Canada
| | - Ashley M. Newbigging
- Division of Analytical and Environmental Toxicology, Department of Laboratory Medicine and Pathology, Faculty of Medicine and Dentistry, University of Alberta, 10-102 Clinical
Sciences Building, Edmonton, Alberta T6G 2G3, Canada
| | - Michael S. Reid
- Division of Analytical and Environmental Toxicology, Department of Laboratory Medicine and Pathology, Faculty of Medicine and Dentistry, University of Alberta, 10-102 Clinical
Sciences Building, Edmonton, Alberta T6G 2G3, Canada
| | - Jagdeesh S. Uppal
- Division of Analytical and Environmental Toxicology, Department of Laboratory Medicine and Pathology, Faculty of Medicine and Dentistry, University of Alberta, 10-102 Clinical
Sciences Building, Edmonton, Alberta T6G 2G3, Canada
| | - Jingyang Xu
- Division of Analytical and Environmental Toxicology, Department of Laboratory Medicine and Pathology, Faculty of Medicine and Dentistry, University of Alberta, 10-102 Clinical
Sciences Building, Edmonton, Alberta T6G 2G3, Canada
| | - Hongquan Zhang
- Division of Analytical and Environmental Toxicology, Department of Laboratory Medicine and Pathology, Faculty of Medicine and Dentistry, University of Alberta, 10-102 Clinical
Sciences Building, Edmonton, Alberta T6G 2G3, Canada
| | - X. Chris Le
- Division of Analytical and Environmental Toxicology, Department of Laboratory Medicine and Pathology, Faculty of Medicine and Dentistry, University of Alberta, 10-102 Clinical
Sciences Building, Edmonton, Alberta T6G 2G3, Canada
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18
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Lu HJ, Xu CH, Xu JJ, Chen HY. Metallic Inverse Opals: An Electrochemiluminescence enhanced Substrate for Sensitive Bioanalysis. Anal Chem 2019; 91:14757-14764. [DOI: 10.1021/acs.analchem.9b04228] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Affiliation(s)
- Hai-Jie Lu
- State Key Laboratory of Analytical Chemistry for Life Science and Collaborative Innovation Center of Chemistry for Life Sciences, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China
| | - Cong-Hui Xu
- State Key Laboratory of Analytical Chemistry for Life Science and Collaborative Innovation Center of Chemistry for Life Sciences, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China
| | - Jing-Juan Xu
- State Key Laboratory of Analytical Chemistry for Life Science and Collaborative Innovation Center of Chemistry for Life Sciences, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China
| | - Hong-Yuan Chen
- State Key Laboratory of Analytical Chemistry for Life Science and Collaborative Innovation Center of Chemistry for Life Sciences, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China
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19
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Kogikoski S, Paschoalino WJ, Cantelli L, Silva W, Kubota LT. Electrochemical sensing based on DNA nanotechnology. Trends Analyt Chem 2019. [DOI: 10.1016/j.trac.2019.06.021] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
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20
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Sun C, Ou X, Cheng Y, Zhai T, Liu B, Lou X, Xia F. Coordination-induced structural changes of DNA-based optical and electrochemical sensors for metal ions detection. Dalton Trans 2019; 48:5879-5891. [PMID: 30681098 DOI: 10.1039/c8dt04733b] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Metal ions play a critical role in human health and abnormal levels are closely related to various diseases. Therefore, the detection of metal ions with high selectivity, sensitivity and accuracy is particularly important. This article highlights and comments on the coordination-induced structural changes of DNA-based optical, electrochemical and optical-electrochemical-combined sensors for metal ions detection. Challenges and potential solutions of DNA-based sensors for the simultaneous detection of multiple metal ions are also discussed for further development and exploitation.
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Affiliation(s)
- Chunli Sun
- State Key Laboratory of Material Processing and Die & Mould Technology, School of Materials Science and Engineering; Hubei Key Laboratory of Bioinorganic Chemistry & Materia Medica, School of Chemistry and Chemical Engineering; National Engineering Research Center for Nanomedicine, Department of Biomedical Engineering, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan 430074, China.
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21
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Xiao F, Tan H, Wu Y, Liao S, Wu Z, Shen G, Yu R. A novel logic gate based on liquid-crystals responding to the DNA conformational transition. Analyst 2018; 141:2870-3. [PMID: 27102781 DOI: 10.1039/c6an00504g] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Described herein is a novel liquid crystal (LC)-based DNA logic gate constructed via employing the reorientation of LCs triggered by metal-ion-mediated DNA probe conformational changes.
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Affiliation(s)
- Fubing Xiao
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, P. R. China.
| | - Hui Tan
- Technology Center of Juhua Group, Quzhou, 324004, P. R. China.
| | - Yan Wu
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, P. R. China.
| | - Shuzhen Liao
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, P. R. China.
| | - Zhaoyang Wu
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, P. R. China.
| | - Guoli Shen
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, P. R. China.
| | - Ruqin Yu
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, P. R. China.
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22
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Guo X, Leonard P, Ingale SA, Liu J, Mei H, Sieg M, Seela F. 5-Aza-7-deaza-2'-deoxyguanosine and 2'-Deoxycytidine Form Programmable Silver-Mediated Base Pairs with Metal Ions in the Core of the DNA Double Helix. Chemistry 2018; 24:8883-8892. [PMID: 29573347 DOI: 10.1002/chem.201801273] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2018] [Indexed: 02/05/2023]
Abstract
5-Aza-7-deaza-2'-deoxyguanosine (dZ) forms a silver-mediated base pair with dC. The metal ion pair represents a mimic of the H-bonded Watson-Crick dG-dC pair. The modified nucleoside displays a similar shape as the parent 2'-deoxyguanosine from which it can be constructed by transposition of nitrogen-7 to the bridgehead position-5. It lacks the major groove binding site as the positional change moves the dG- acceptor position from nitrogen-7 to nitrogen-1. As a shape mimic of dG, it fits nicely in the DNA double helix. The purine-pyrimidine dZ-dC hetero pair shows a relationship to the pyrimidine-pyrimidine dC-dC homo base pair. The dZ-dC pair forms a mismatch in the absence of silver ions and matches after addition of metal ions. Base-pair formation was verified on self-complementary 6-mer duplexes and 12-mer DNA with random composition by UV-dependent Tm measurements. Modified silver-mediated and hydrogen-bonded canonical base pairs can coexist. The dZ-Ag+ -dC base pair is slightly less stable than the dG-dC pair, shows sequence dependence, and consumes one or two silver ions. These properties make the dZ-Ag+ -dC pair suitable for programmable incorporation of silver ions in DNA which cannot be achieved by canonical base pairs. If the silver ion content is higher than the total number of base pairs the duplexes turn into very stable structures in which all base pairs are considered to be in the silver-mediated pairing mode.
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Affiliation(s)
- Xiurong Guo
- Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, Heisenbergstraße 11, 48149, Münster, Germany
| | - Peter Leonard
- Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, Heisenbergstraße 11, 48149, Münster, Germany
| | - Sachin A Ingale
- Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, Heisenbergstraße 11, 48149, Münster, Germany.,Laboratorium für Organische und Bioorganische Chemie, Institut für Chemie neuer Materialien, Universität Osnabrück, Barbarastraße 7, 49069, Osnabrück, Germany
| | - Jiang Liu
- Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, Heisenbergstraße 11, 48149, Münster, Germany.,State Key Laboratory of Oral Diseases and National Clinical, Research Center for Oral Diseases and Department of Oral Medicine, of West China Hospital of Stomatology, Sichuan University, Chengdu, Sichuan, 610041, P.R. China
| | - Hui Mei
- Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, Heisenbergstraße 11, 48149, Münster, Germany
| | - Martha Sieg
- Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, Heisenbergstraße 11, 48149, Münster, Germany
| | - Frank Seela
- Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, Heisenbergstraße 11, 48149, Münster, Germany.,Laboratorium für Organische und Bioorganische Chemie, Institut für Chemie neuer Materialien, Universität Osnabrück, Barbarastraße 7, 49069, Osnabrück, Germany
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23
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San Sebastian E, Rodríguez-Diéguez A, Seco JM, Cepeda J. Coordination Polymers with Intriguing Photoluminescence Behavior: The Promising Avenue for Greatest Long-Lasting Phosphors. Eur J Inorg Chem 2018. [DOI: 10.1002/ejic.201800124] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Affiliation(s)
- Eider San Sebastian
- Departamento de Química Aplicada; Facultad de Química; Universidad del Pais Vasco (UPV/EHU); 20018 Donostia Spain
| | - Antonio Rodríguez-Diéguez
- Departamento de Química Inorgánica; Facultad de Ciencias; Universidad de Granada; 18071 Granada Spain
| | - Jose M. Seco
- Departamento de Química Aplicada; Facultad de Química; Universidad del Pais Vasco (UPV/EHU); 20018 Donostia Spain
| | - Javier Cepeda
- Departamento de Química Aplicada; Facultad de Química; Universidad del Pais Vasco (UPV/EHU); 20018 Donostia Spain
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24
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Abstract
Herein, we report a carbazole (Cz) ligand that displays distinct turn-on fluorescence signals upon interaction with human telomeric G-quadruplex ( h-TELO) and nuclease enzymes. Interestingly, Cz selectively binds and stabilizes the mixed hybrid topology of h-TELO G-quadruplex that withstands digestion by exonucleases and nuclease S1. The distinct fluorescence signatures of Cz-stabilized h-TELO with nucleases are used to design conceptually novel DNA devices for selectively detecting the enzymatic activity of DNase I as well as performing logic operations. An INHIBIT logic gate is constructed using h-TELO and DNase I as the inputs while the inputs of h-TELO and nuclease S1 form a YES logic gate. Furthermore, a two-input two-output reusable logic device with "multireset" function is developed by using h-TELO and DNase I as inputs. On the basis of this platform, combinatorial logic systems (INHIBIT-INHIBIT and NOR-OR) have been successfully installed using different combinations of nucleases as inputs. Moreover, this new strategy of using a synthetic dual emissive probe and enzyme/DNA inputs for constructing reusable logic device may find important applications in biological computing and information processing.
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Affiliation(s)
- Manish Debnath
- Department of Organic Chemistry, Indian Association for the Cultivation of Science, Kolkata 700032, India
| | - Rakesh Paul
- Department of Organic Chemistry, Indian Association for the Cultivation of Science, Kolkata 700032, India
| | - Deepanjan Panda
- Department of Organic Chemistry, Indian Association for the Cultivation of Science, Kolkata 700032, India
| | - Jyotirmayee Dash
- Department of Organic Chemistry, Indian Association for the Cultivation of Science, Kolkata 700032, India
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25
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Bhuyan T, Bhattacharjee M, Singh AK, Ghosh SS, Bandyopadhyay D. Boolean-chemotaxis of logibots deciphering the motions of self-propelling microorganisms. SOFT MATTER 2018; 14:3182-3191. [PMID: 29645047 DOI: 10.1039/c8sm00132d] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
We demonstrate the feasibility of a self-propelling mushroom motor, namely a 'logibot', as a functional unit for the construction of a host of optimized binary logic gates. Emulating the chemokinesis of unicellular prokaryotes or eukaryotes, the logibots made stimuli responsive conditional movements at varied speeds towards a pair of acid-alkali triggers. A series of integrative logic operations and cascaded logic circuits, namely, AND, NAND, NOT, OR, NOR, and NIMPLY, have been constructed employing the decisive chemotactic migrations of the logibot in the presence of the pH gradient established by the sole or coupled effects of acid (HCl-catalase) and alkali (NaOH) drips inside a peroxide bath. The imposed acid and/or alkali triggers across the logibots were realized as inputs while the logic gates were functionally reconfigured to several operational modes by varying the pH of the acid-alkali inputs. The self-propelling logibot could rapidly sense the external stimuli, decide, and act on the basis of intensities of the pH triggers. The impulsive responses of the logibots towards and away from the external acid-alkali stimuli were interpreted as the potential outputs of the logic gates. The external stimuli responsive self-propulsion of the logibots following different logic gates and circuits can not only be an eco-friendly alternative to the silicon-based computing operations but also be a promising strategy for the development of intelligent pH-responsive drug delivery devices.
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Affiliation(s)
- Tamanna Bhuyan
- Centre for Nanotechnology, Indian Institute of Technology Guwahati, Assam-781039, India.
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26
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Angell C, Kai M, Xie S, Dong X, Chen Y. Bioderived DNA Nanomachines for Potential Uses in Biosensing, Diagnostics, and Therapeutic Applications. Adv Healthc Mater 2018; 7:e1701189. [PMID: 29350489 DOI: 10.1002/adhm.201701189] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2017] [Revised: 11/23/2017] [Indexed: 12/28/2022]
Abstract
Beside its genomic properties, DNA is also recognized as a novel material in the field of nanoengineering. The specific bonding of base pairs can be used to direct the assembly of highly structured materials with specific nanoscale features such as periodic 2D arrays, 3D nanostructures, assembly of nanomaterials, and DNA nanomachines. In recent years, a variety of DNA nanomachines are developed because of their many potential applications in biosensing, diagnostics, and therapeutic applications. In this review, the fuel-powered motors and secondary structure motors, whose working mechanisms are inspired or derived from natural phenomena and nanomachines, are discussed. The combination of DNA motors with other platforms is then discussed. In each section of these motors, their mechanisms and their usage in the biomedical field are described. Finally, it is believed that these DNA-based nanomachines and hybrid motifs will become an integral point-of-care diagnostics and smart, site-specific therapeutic delivery.
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Affiliation(s)
- Chava Angell
- Department of NanoengineeringUniversity of California San Diego, La Jolla CA 92093 USA
| | - Mingxuan Kai
- Department of NanoengineeringUniversity of California San Diego, La Jolla CA 92093 USA
| | - Sibai Xie
- Department of NanoengineeringUniversity of California San Diego, La Jolla CA 92093 USA
| | - Xiangyi Dong
- Department of NanoengineeringUniversity of California San Diego, La Jolla CA 92093 USA
| | - Yi Chen
- Department of NanoengineeringUniversity of California San Diego, La Jolla CA 92093 USA
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27
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Hariharan S, Karthikeyan B. Environment dependent enhanced photoluminescence and Boolean logic gates like behavior of Bi 2O 3 and Ag:Bi 2O 3 nanostructures. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2018; 193:344-348. [PMID: 29268234 DOI: 10.1016/j.saa.2017.12.022] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/06/2017] [Revised: 12/01/2017] [Accepted: 12/04/2017] [Indexed: 06/07/2023]
Abstract
In the evolution of nanotechnology research for smart and precise sensor fabrication, here we report the implementation of simple logic gate operations performing by luminescent nanostructures in biomolecule environment based on photoluminescence (PL) technique. This present work deals with the luminescence property of α-Bi2O3 and Ag modified α-Bi2O3 nanostructures for d-glucose and Bovine serum albumin (BSA) sensing applications. These nanostructures are prepared by simple co-precipitation method and their morphology are examined using transmission electron microscope (TEM). We explore the PL characteristics of the prepared nanostructures and observe their change in PL intensity in the presence of d-glucose and BSA molecules. Enhancement in PL intensity is observed in the presence of d-glucose and BSA. Based on the PL response of prepared nanostructures in the biomolecule environment, we demonstrate biophotonic logic gates including YES, PASS 0, OR and INHIBIT gates.
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Affiliation(s)
- S Hariharan
- Nanophotonics Laboratory, Department of Physics, National Institute of Technology, Tiruchirappalli 620015, India
| | - B Karthikeyan
- Nanophotonics Laboratory, Department of Physics, National Institute of Technology, Tiruchirappalli 620015, India.
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28
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Liu S, Tan Y. Detection of microalgae superoxide dismutase (SOD) using a GNRs-based resonance light scattering system. Integr Biol (Camb) 2018; 10:159-165. [PMID: 29480311 DOI: 10.1039/c7ib00206h] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A novel and label-free, gold nanorods (GNRs)-based resonance light scattering system assay has been developed for the detection of microalgae superoxide dismutase (SOD). The method relies on the fact that interactions between microalgae SOD and GNRs can emit strong fluorescence signals. The prepared GNRs were well dispersed in the solution and intracellular SOD was extracted from Microcystis aeruginosa; the SOD was then absorbed on the surface of the GNRs. The results demonstrated that the intensity of the fluorescence signals increased at 595 nm with an increase in the SOD concentration, the optimum pH value was concluded to be 7.8, the optimum concentration of inorganic salt Na+ ions was 0.2 mol L-1, and the reaction system was stable for 50 min. This method offers the advantages of higher sensitivity and selectivity in microalgae protein detection and exhibits great potential for biological diagnosis.
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Affiliation(s)
- Shuyu Liu
- School of Environment and Chemical Engineering, Shanghai University, Shanghai, 201800, P. R. China. and Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, P. R. China and State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, Harbin 150090, P. R. China
| | - Yan Tan
- School of Environment and Chemical Engineering, Shanghai University, Shanghai, 201800, P. R. China.
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29
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Huang M, Zhou X, Wang H, Xing D. Clustered Regularly Interspaced Short Palindromic Repeats/Cas9 Triggered Isothermal Amplification for Site-Specific Nucleic Acid Detection. Anal Chem 2018; 90:2193-2200. [PMID: 29260561 DOI: 10.1021/acs.analchem.7b04542] [Citation(s) in RCA: 172] [Impact Index Per Article: 28.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
A novel CRISPR/Cas9 triggered isothermal exponential amplification reaction (CAS-EXPAR) strategy based on CRISPR/Cas9 cleavage and nicking endonuclease (NEase) mediated nucleic acids amplification was developed for rapid and site-specific nucleic acid detection. CAS-EXPAR was primed by the target DNA fragment produced by cleavage of CRISPR/Cas9, and the amplification reaction performed cyclically to generate a large number of DNA replicates which were detected using a real-time fluorescence monitoring method. This strategy that combines the advantages of CRISPR/Cas9 and exponential amplification showed high specificity as well as rapid amplification kinetics. Unlike conventional nucleic acids amplification reactions, CAS-EXPAR does not require exogenous primers, which often cause target-independent amplification. Instead, primers are first generated by Cas9/sgRNA directed site-specific cleavage of target and accumulated during the reaction. It was demonstrated this strategy gave a detection limit of 0.82 amol and showed excellent specificity in discriminating single-base mismatch. Moreover, the applicability of this method to detect DNA methylation and L. monocytogenes total RNA was also verified. Therefore, CAS-EXPAR may provide a new paradigm for efficient nucleic acid amplification and hold the potential for molecular diagnostic applications.
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Affiliation(s)
- Mengqi Huang
- MOE Key Laboratory of Laser Life Science & Institute of Laser Life Science, College of Biophotonics, South China Normal University , Guangzhou 510631, PR China
| | - Xiaoming Zhou
- MOE Key Laboratory of Laser Life Science & Institute of Laser Life Science, College of Biophotonics, South China Normal University , Guangzhou 510631, PR China
| | - Huiying Wang
- MOE Key Laboratory of Laser Life Science & Institute of Laser Life Science, College of Biophotonics, South China Normal University , Guangzhou 510631, PR China
| | - Da Xing
- MOE Key Laboratory of Laser Life Science & Institute of Laser Life Science, College of Biophotonics, South China Normal University , Guangzhou 510631, PR China
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30
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Shi Y, Sun H, Xiang J, Chen H, Zhang S, Guan A, Li Q, Xu S, Tang Y. Reversible regulation of the supramolecular chirality of a cyanine dye by using the G-quadruplex structure as a template. Chem Commun (Camb) 2018; 52:7302-5. [PMID: 27181338 DOI: 10.1039/c6cc02930b] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
Multiple cycle regulation of the supramolecular chirality of a cyanine dye has been successfully achieved by using DNA G-quadruplexes as templates, which is easily controllable by repeated addition of Ag(+) and cysteine (Cys). This work provides an easy and controllable strategy for the chiral regulation of supramolecules.
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Affiliation(s)
- Yunhua Shi
- National Laboratory for Molecular Sciences, Center for Molecular Sciences, State Key Laboratory for Structural Chemistry of Unstable and Stable Species, Institute of Chemistry Chinese Academy of Sciences, Beijing 100190, P. R. China. and University of the Chinese Academy of Sciences, Beijing 100049, P. R. China
| | - Hongxia Sun
- National Laboratory for Molecular Sciences, Center for Molecular Sciences, State Key Laboratory for Structural Chemistry of Unstable and Stable Species, Institute of Chemistry Chinese Academy of Sciences, Beijing 100190, P. R. China.
| | - Junfeng Xiang
- National Laboratory for Molecular Sciences, Center for Molecular Sciences, State Key Laboratory for Structural Chemistry of Unstable and Stable Species, Institute of Chemistry Chinese Academy of Sciences, Beijing 100190, P. R. China.
| | - Hongbo Chen
- National Laboratory for Molecular Sciences, Center for Molecular Sciences, State Key Laboratory for Structural Chemistry of Unstable and Stable Species, Institute of Chemistry Chinese Academy of Sciences, Beijing 100190, P. R. China.
| | - Suge Zhang
- National Laboratory for Molecular Sciences, Center for Molecular Sciences, State Key Laboratory for Structural Chemistry of Unstable and Stable Species, Institute of Chemistry Chinese Academy of Sciences, Beijing 100190, P. R. China. and University of the Chinese Academy of Sciences, Beijing 100049, P. R. China
| | - Aijiao Guan
- National Laboratory for Molecular Sciences, Center for Molecular Sciences, State Key Laboratory for Structural Chemistry of Unstable and Stable Species, Institute of Chemistry Chinese Academy of Sciences, Beijing 100190, P. R. China.
| | - Qian Li
- National Laboratory for Molecular Sciences, Center for Molecular Sciences, State Key Laboratory for Structural Chemistry of Unstable and Stable Species, Institute of Chemistry Chinese Academy of Sciences, Beijing 100190, P. R. China.
| | - Shujuan Xu
- National Laboratory for Molecular Sciences, Center for Molecular Sciences, State Key Laboratory for Structural Chemistry of Unstable and Stable Species, Institute of Chemistry Chinese Academy of Sciences, Beijing 100190, P. R. China. and University of the Chinese Academy of Sciences, Beijing 100049, P. R. China
| | - Yalin Tang
- National Laboratory for Molecular Sciences, Center for Molecular Sciences, State Key Laboratory for Structural Chemistry of Unstable and Stable Species, Institute of Chemistry Chinese Academy of Sciences, Beijing 100190, P. R. China. and University of the Chinese Academy of Sciences, Beijing 100049, P. R. China
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31
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Minus MB, Kang MK, Knudsen SE, Liu W, Krueger MJ, Smith ML, Redell MS, Ball ZT. Assessing the intracellular fate of rhodium(ii) complexes. Chem Commun (Camb) 2018; 52:11685-11688. [PMID: 27709185 DOI: 10.1039/c6cc05192h] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
Rhodium(ii)-fluorophore conjugates have strong rhodium-based fluorescence quenching that can be harnessed to report on a conjugate's cellular uptake and the intracellular decomposition rate. Information gleened from this study allowed the design of an improved STAT3 metalloinhibitor.
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Affiliation(s)
- Matthew B Minus
- Department of Chemistry, Rice University, Houston, Texas 77005, USA.
| | - Marci K Kang
- Department of Chemistry, Rice University, Houston, Texas 77005, USA.
| | - Sarah E Knudsen
- Department of Chemistry, Rice University, Houston, Texas 77005, USA.
| | - Wei Liu
- Texas Children's Cancer Center, Baylor College of Medicine, Houston, TX, USA
| | - Michael J Krueger
- Texas Children's Cancer Center, Baylor College of Medicine, Houston, TX, USA
| | - Morgen L Smith
- Department of Chemistry, Rice University, Houston, Texas 77005, USA.
| | - Michele S Redell
- Texas Children's Cancer Center, Baylor College of Medicine, Houston, TX, USA
| | - Zachary T Ball
- Department of Chemistry, Rice University, Houston, Texas 77005, USA.
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32
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Peng H, Newbigging AM, Wang Z, Tao J, Deng W, Le XC, Zhang H. DNAzyme-Mediated Assays for Amplified Detection of Nucleic Acids and Proteins. Anal Chem 2017; 90:190-207. [DOI: 10.1021/acs.analchem.7b04926] [Citation(s) in RCA: 145] [Impact Index Per Article: 20.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Hanyong Peng
- Division of Analytical and Environmental
Toxicology, Department of Laboratory Medicine and Pathology, Faculty
of Medicine and Dentistry, University of Alberta, 10-102 Clinical
Sciences Building, Edmonton, Alberta T6G 2G3, Canada
| | - Ashley M. Newbigging
- Division of Analytical and Environmental
Toxicology, Department of Laboratory Medicine and Pathology, Faculty
of Medicine and Dentistry, University of Alberta, 10-102 Clinical
Sciences Building, Edmonton, Alberta T6G 2G3, Canada
| | - Zhixin Wang
- Division of Analytical and Environmental
Toxicology, Department of Laboratory Medicine and Pathology, Faculty
of Medicine and Dentistry, University of Alberta, 10-102 Clinical
Sciences Building, Edmonton, Alberta T6G 2G3, Canada
| | - Jeffrey Tao
- Division of Analytical and Environmental
Toxicology, Department of Laboratory Medicine and Pathology, Faculty
of Medicine and Dentistry, University of Alberta, 10-102 Clinical
Sciences Building, Edmonton, Alberta T6G 2G3, Canada
| | - Wenchan Deng
- Division of Analytical and Environmental
Toxicology, Department of Laboratory Medicine and Pathology, Faculty
of Medicine and Dentistry, University of Alberta, 10-102 Clinical
Sciences Building, Edmonton, Alberta T6G 2G3, Canada
| | - X. Chris Le
- Division of Analytical and Environmental
Toxicology, Department of Laboratory Medicine and Pathology, Faculty
of Medicine and Dentistry, University of Alberta, 10-102 Clinical
Sciences Building, Edmonton, Alberta T6G 2G3, Canada
| | - Hongquan Zhang
- Division of Analytical and Environmental
Toxicology, Department of Laboratory Medicine and Pathology, Faculty
of Medicine and Dentistry, University of Alberta, 10-102 Clinical
Sciences Building, Edmonton, Alberta T6G 2G3, Canada
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33
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Jana J, Aditya T, Negishi Y, Pal T. Solvent Polarity-Dependent Behavior of Aliphatic Thiols and Amines toward Intriguingly Fluorescent AuAgGSH Assembly. ACS OMEGA 2017; 2:8086-8098. [PMID: 31457357 PMCID: PMC6645147 DOI: 10.1021/acsomega.7b01560] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/16/2017] [Accepted: 11/02/2017] [Indexed: 06/10/2023]
Abstract
Highly stable fluorescent glutathione (GSH)-protected AuAg assembly has been synthesized in water under UV irradiation. The assembly is composed of small Ag2/Ag3 clusters. These clusters gain stability through synergistic interaction with Au(I) present within the assembly. This makes the overall assembly fluorescent. Here, GSH acts as a reducing as well as stabilizing agent. The assembly is so robust that it can be vacuum-dried to solid particles. The as-obtained solid is dispersible in nonaqueous solvents. The interaction between solvent and the assembly provides stability to the assembly, and the assembly shows fluorescence. It is interesting to see that the behavior of long-chain aliphatic thiols or amines toward the fluorescent assembly is altogether a different phenomenon in aqueous and nonaqueous mediums. The assembly gets ruptured in water due to direct interaction with long-chain thiols or amines, whereas in nonaqueous medium, solvation of added thiols or amines becomes pronounced, which hinders the interaction of solvent with the assembly. However, the fluorescence of the assembly is always quenched with thiols or amines no matter what the solvent medium is. In aqueous medium, the fluorescence quenching by aliphatic thiol or amine becomes pronounced with successive decrease in their chain length, whereas in nonaqueous medium, the trend is just reversed with chain length. The reasons behind such an interesting reversal of fluorescence quenching in aqueous and nonaqueous solvents have been discussed explicitly. Again, in organic solvents, thiol or amine-induced quenched fluorescence is selectively recovered by Pb(II) ion without any alteration of excitation and emission maxima. This phenomenon is not observed in water because of the ruptured fluorescent assembly. The fluorescence recovery by Pb(II) and unaltered emission peak only in nonaqueous solvent unequivocally prove the engagement of Pb(II) with thiols or amines, which in turn revert the original solvent-supported stabilization of the assembly.
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Affiliation(s)
- Jayasmita Jana
- Department
of Chemistry, Indian Institute of Technology, Kharagpur 721302, India
| | - Teresa Aditya
- Department
of Chemistry, Indian Institute of Technology, Kharagpur 721302, India
| | - Yuichi Negishi
- Department
of Applied Chemistry, Tokyo University of
Science, Tokyo 1628601, Japan
| | - Tarasankar Pal
- Department
of Chemistry, Indian Institute of Technology, Kharagpur 721302, India
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34
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Guo X, Leonard P, Ingale SA, Seela F. Gemcitabine, Pyrrologemcitabine, and 2'-Fluoro-2'-Deoxycytidines: Synthesis, Physical Properties, and Impact of Sugar Fluorination on Silver Ion Mediated Base Pairing. Chemistry 2017; 23:17740-17754. [PMID: 28906062 DOI: 10.1002/chem.201703427] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2017] [Revised: 09/05/2017] [Indexed: 01/06/2023]
Abstract
The stability of silver-mediated "dC-dC" base pairs relies not only on the structure of the nucleobase, but is also sensitive to structural modification of the sugar moiety. 2'-Fluorinated 2'-deoxycytidines with fluorine atoms in the arabino (up) and ribo (down) configuration as well as with geminal fluorine substitution (anticancer drug gemcitabine) and the novel fluorescent phenylpyrrolo-gemcitabine (ph PyrGem) have been synthesized. All the nucleosides display the recognition face of naturally occurring 2'-deoxycytidine. The nucleosides were converted into phosphoramidites and incorporated into 12-mer oligonucleotides by solid-phase synthesis. The addition of silver ions to DNA duplexes with a fluorine-modified "dC-dC" pair near the central position led to significant duplex stabilization. The increase in stability was higher for duplexes with fluorinated sugar residues than for those with an unchanged 2'-deoxyribose moiety. Similar observations were made for "dC-dT" pairs and to a minor extent for "dC-dA" pairs. The increase in silver ion mediated base-pair stability was reversed by annulation of a pyrrole ring to the cytosine moiety, as shown for 2'-fluorinated ph PyrGem in comparison with phenylpyrrolo-dC (ph PyrdC). This phenomenon results from stereoelectronic effects induced by fluoro substitution, which are transmitted from the sugar moiety to the silver ion mediated base pairs. The extent of the effect depends on the number of fluorine substituents, their configuration, and the structure of the nucleobase.
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Affiliation(s)
- Xiurong Guo
- Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, Heisenbergstraße 11, 48149, Münster, Germany.,Laboratorium für Organische und Bioorganische Chemie, Institut für Chemie neuer Materialien, Universität Osnabrück, Barbarastraße 7, 49069, Osnabrück, Germany
| | - Peter Leonard
- Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, Heisenbergstraße 11, 48149, Münster, Germany
| | - Sachin A Ingale
- Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, Heisenbergstraße 11, 48149, Münster, Germany.,Laboratorium für Organische und Bioorganische Chemie, Institut für Chemie neuer Materialien, Universität Osnabrück, Barbarastraße 7, 49069, Osnabrück, Germany
| | - Frank Seela
- Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, Heisenbergstraße 11, 48149, Münster, Germany.,Laboratorium für Organische und Bioorganische Chemie, Institut für Chemie neuer Materialien, Universität Osnabrück, Barbarastraße 7, 49069, Osnabrück, Germany
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35
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Zhang S, Wang K, Li KB, Chen F, Shi W, Jia WP, Zhang J, Han DM. A label-free and universal platform for the construction of an odd/even detector for decimal numbers based on graphene oxide and DNA-stabilized silver nanoclusters. NANOSCALE 2017; 9:11912-11919. [PMID: 28786459 DOI: 10.1039/c7nr03670a] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Molecular logic devices with different functions can perform various tasks in the areas of biological molecule detection, disease diagnosis, multivariate analysis, and bioimaging. Herein, a series of logic circuits based on silver nanoclusters (AgNCs)/graphene oxide (GO) are constructed to execute nonarithmetic functions, including 3-, 4-, and 5-bit odd/even checking. The resulting devices can differentiate between even and odd decimal numbers in the range from 0 to 31. Moreover, the devices can be expanded to operate with wider ranges of numbers when more inputs are added. The signal reporter is structured using AgNCs and GO, preventing laborious modification of biomolecules. The designed DNA-based logic nanodevices share the same DNA platform and a constant threshold value, showing great potential for application in information processing at the molecular level. Additionally, these devices can stably carry out their logic operations in a biological matrix, indicating that the AgNC/GO-based system can operate in a complicated biological environment. Given the biocompatibility and design flexibility of DNA, this study provides novel outcomes towards the development of label-free intelligent nanodevices. This may open a new path for the application of AgNCs/GO in molecular logic circuits and fluorescence imaging.
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Affiliation(s)
- Siqi Zhang
- Department of Chemistry, Taizhou University, Jiaojiang, 318000, China.
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36
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Gao RR, Yao TM, Lv XY, Zhu YY, Zhang YW, Shi S. Integration of G-quadruplex and DNA-templated Ag NCs for nonarithmetic information processing. Chem Sci 2017; 8:4211-4222. [PMID: 28626564 PMCID: PMC5469004 DOI: 10.1039/c7sc00361g] [Citation(s) in RCA: 46] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2017] [Accepted: 04/05/2017] [Indexed: 11/30/2022] Open
Abstract
To create sophisticated molecular logic circuits from scratch, you may not believe how common the building blocks can be and how diverse and powerful such circuits can be when scaled up. Using the two simple building blocks of G-quadruplex and silver nanoclusters (Ag NCs), we experimentally construct a series of multifunctional, label-free, and multi-output logic circuits to perform nonarithmetic functions: a 1-to-2 decoder, a 4-to-2 encoder, an 8-to-3 encoder, dual transfer gates, a 2 : 1 multiplexer, and a 1 : 2 demultiplexer. Moreover, a parity checker which is capable of identifying odd and even numbers from natural numbers is constructed conceptually. Finally, a multi-valued logic gate (ternary inhibit gate) is readily achieved by taking this DNA/Ag NC system as a universal platform. All of the above logic circuits share the same building blocks, indicating the great prospects of the assembly of nanomaterials and DNA for biochemical logic devices. Considering its biocompatibility, the novel prototypes developed here may have potential applications in the fields of biological computers and medical diagnosis and serve as a promising proof of principle in the not-too-distant future.
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Affiliation(s)
- Ru-Ru Gao
- Shanghai Key Laboratory of Chemical Assessment and Sustainability , School of Chemical Science and Engineering , Tongji University , Shanghai , 200092 , P. R. China . ;
| | - Tian-Ming Yao
- Shanghai Key Laboratory of Chemical Assessment and Sustainability , School of Chemical Science and Engineering , Tongji University , Shanghai , 200092 , P. R. China . ;
| | - Xiao-Yan Lv
- Shanghai Key Laboratory of Chemical Assessment and Sustainability , School of Chemical Science and Engineering , Tongji University , Shanghai , 200092 , P. R. China . ;
| | - Yan-Yan Zhu
- Shanghai Key Laboratory of Chemical Assessment and Sustainability , School of Chemical Science and Engineering , Tongji University , Shanghai , 200092 , P. R. China . ;
| | - Yi-Wei Zhang
- Shanghai Key Laboratory of Chemical Assessment and Sustainability , School of Chemical Science and Engineering , Tongji University , Shanghai , 200092 , P. R. China . ;
| | - Shuo Shi
- Shanghai Key Laboratory of Chemical Assessment and Sustainability , School of Chemical Science and Engineering , Tongji University , Shanghai , 200092 , P. R. China . ;
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37
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Yang Y, Wang KZ, Yan D. Smart Luminescent Coordination Polymers toward Multimode Logic Gates: Time-Resolved, Tribochromic and Excitation-Dependent Fluorescence/Phosphorescence Emission. ACS APPLIED MATERIALS & INTERFACES 2017; 9:17399-17407. [PMID: 28441860 DOI: 10.1021/acsami.7b00594] [Citation(s) in RCA: 60] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
In this work, we propose that lanthanide cations (such as Eu3+ and Tb3+)-doped long-afterglow coordination polymers (CPs) can be an effective tool for designing multimode optical logic gates based on their tunable fluorescence/phosphorescence transformation and state-dependent emission. First, multicolor and white-light luminescence across the blue/green/yellow/red visible regions can be obtained by balancing the co-doping ratio of Eu3+/Tb3+ cations and suitable excitations. Additionally, a new tribochromic Eu-Cd-CP was developed based on the mechanism of a change in structural symmetry. Benefitting from long-afterglow, tribochromism, and excitation-dependent emission on the same luminescent CP, a new three-input and three-output logic gate was obtained. Therefore, this work not only provides detailed insights into the interesting fields of tribochromism and tunable photoemission, but also confirms that long-afterglow CPs can serve as a new platform for the construction of smart luminescent systems and multimode optical logic gates.
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Affiliation(s)
- Yongsheng Yang
- Beijing Key Laboratory of Energy Conversion and Storage Materials College of Chemistry, Beijing Normal University , Beijing 100875, P. R. China
| | - Ke-Zhi Wang
- Beijing Key Laboratory of Energy Conversion and Storage Materials College of Chemistry, Beijing Normal University , Beijing 100875, P. R. China
| | - Dongpeng Yan
- Beijing Key Laboratory of Energy Conversion and Storage Materials College of Chemistry, Beijing Normal University , Beijing 100875, P. R. China
- State Key Laboratory of Chemical Resource Engineering, Beijing University of Chemical Technology , Beijing 100029, P. R. China
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38
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Hou T, Zhao T, Li W, Li F, Gai P. A label-free visual platform for self-correcting logic gate construction and sensitive biosensing based on enzyme-mimetic coordination polymer nanoparticles. J Mater Chem B 2017; 5:4607-4613. [PMID: 32264303 DOI: 10.1039/c7tb00791d] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
In molecular logic gates, the occurrence of erroneous procedures is a frequently encountered and critical problem in data transmission, and thus it is highly desirable to develop novel logic systems with self-correction abilities. Herein, based on the horseradish peroxidase (HRP)-like activity of the novel metal coordination polymer nanoparticles formed between Cu2+ and guanosine monophosphate (GMP), denoted as Cu-GMP CPNs, a label-free visual platform was constructed and successfully utilized for both self-correcting logic gate construction and sensitive biosensing. The HRP-mimicking ability of Cu-GMP CPNs was verified and utilized for the sensitive detection of both H2O2 and glucose. More importantly, a set of logic gates (AND, OR, NOR, INHIBIT, and XNOR) were fabricated, in which two intermediate outputs, i.e., color change and precipitate formation, were combined in an "AND" mode to produce the final output, and thus the as-proposed logic system exhibited the self-correction ability to automatically correct the erroneous intermediate outputs induced by interfering substances such as HRP. Moreover, in addition to the unique feature of self-correction, the as-proposed logic system also exhibited the advantages of simple operation, rapid response and easy detection of the visual outputs by the naked eye, thus expanding its practical applications to a variety of fields. Therefore, the label-free visual platform we have proposed here offers a promising strategy for logic gate fabrication and may pave the way for the development of novel molecular computing with self-correction abilities.
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Affiliation(s)
- Ting Hou
- College of Chemistry and Pharmaceutical Sciences, Qingdao Agricultural University, Qingdao 266109, P. R. China.
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39
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Fozooni T, Ravan H, Sasan H. Signal Amplification Technologies for the Detection of Nucleic Acids: from Cell-Free Analysis to Live-Cell Imaging. Appl Biochem Biotechnol 2017; 183:1224-1253. [DOI: 10.1007/s12010-017-2494-4] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2017] [Accepted: 04/24/2017] [Indexed: 12/15/2022]
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40
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Affiliation(s)
- Jingwei Sun
- Department of Materials Chemistry; Huzhou University; Huzhou 313000 P.R. China
| | - Hao Sun
- Department of Chemical Engineering; Zhejiang University of Technology; Hangzhou 310014 P.R. China
| | - Ziqi Liang
- Department of Materials Science; Fudan University; Shanghai 200433 P.R. China
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41
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Ma DL, Dong ZZ, Vellaisamy K, Cheung KM, Yang G, Leung CH. Luminescent Strategies for Label-Free G-Quadruplex-Based Enzyme Activity Sensing. CHEM REC 2017; 17:1135-1145. [PMID: 28467681 DOI: 10.1002/tcr.201700014] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2017] [Indexed: 12/30/2022]
Abstract
By catalyzing highly specific and tightly controlled chemical reactions, enzymes are essential to maintaining normal cellular physiology. However, aberrant enzymatic activity can be linked to the pathogenesis of various diseases. Therefore, the unusual activity of particular enzymes can represent testable biomarkers for the diagnosis or screening of certain diseases. In recent years, G-quadruplex-based platforms have attracted wide attention for the monitoring of enzymatic activities. In this Personal Account, we discuss our group's works on the development of G-quadruplex-based sensing system for enzyme activities by using mainly iridium(III) complexes as luminescent label-free probes. These studies showcase the versatility of the G-quadruplex for developing assays for a variety of different enzymes.
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Affiliation(s)
- Dik-Lung Ma
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong
| | - Zhen-Zhen Dong
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong
| | | | - Ka-Man Cheung
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong
| | - Guanjun Yang
- State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Macao
| | - Chung-Hang Leung
- State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Macao
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42
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Bhatta SR, Bheemireddy V, Thakur A. A Redox-Driven Fluorescence “Off–On” Molecular Switch Based on a 1,1′-Unsymmetrically Substituted Ferrocenyl Coumarin System: Mimicking Combinational Logic Operation. Organometallics 2017. [DOI: 10.1021/acs.organomet.6b00883] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Sushil Ranjan Bhatta
- Department
of Chemistry, National Institute of Technology Rourkela, Odisha 769008, India
| | - Varun Bheemireddy
- Department
of Physical Science, Indian Institute of Science Education and Research-Kolkata, Mohanpur 741246, India
| | - Arunabha Thakur
- Department
of Chemistry, National Institute of Technology Rourkela, Odisha 769008, India
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43
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Zhang L, Bluhm AM, Chen KJ, Larkey NE, Burrows SM. Performance of nano-assembly logic gates with a DNA multi-hairpin motif. NANOSCALE 2017; 9:1709-1720. [PMID: 28090611 DOI: 10.1039/c6nr07814a] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
DNA nano-assemblies have far-reaching implications for molecular computers. Boolean logic gates made from DNA respond to specific combinations of chemical or molecular inputs. In complex samples an assortment of other chemicals and molecules may interfere with the gate's recognition and response mechanisms. For logic gates to accept an increasing number of inputs, while maintaining selectivity, their design must only respond when specific input combinations are available simultaneously. Here we present proof-of-principle for a fluorescent-based nano-assembly logic gate for three inputs. Central to the gate's design is a multi-hairpin motif that distinguishes it from other works in this area. The multi-hairpin motif facilitates a larger and increasing number of inputs and a place to generate FRET-based signal enhancement. We will show the nano-assembly logic gate worked in aqueous buffer and in crude MCF-7 cell lysate. We will demonstrate the gate's selectivity against off-analyte cocktails. Finally, multi-hairpin motifs with different chemical and physical properties were evaluated to test their logic capabilities. Future work will demonstrate the gate's ability to visually identify specific combinations of oligonucleotides called small non-coding RNAs (ncRNAs) in cells. This nano-assembly logic gate for small ncRNA has far reaching cellular computation and single-cell analysis applicability. The gate can be used for basic cellular analysis, computing and observing the unique molecular expression patterns in tumor microenvironments, and advancing the field of therapeutics.
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Affiliation(s)
- Lulu Zhang
- Department of Chemistry, Oregon State University, 153 Gilbert Hall, Corvallis, Oregon 97331, USA.
| | - Annie M Bluhm
- Department of Chemistry, Oregon State University, 153 Gilbert Hall, Corvallis, Oregon 97331, USA.
| | - Kuan-Jen Chen
- Department of Chemistry, Oregon State University, 153 Gilbert Hall, Corvallis, Oregon 97331, USA.
| | - Nicholas E Larkey
- Department of Chemistry, Oregon State University, 153 Gilbert Hall, Corvallis, Oregon 97331, USA.
| | - Sean M Burrows
- Department of Chemistry, Oregon State University, 153 Gilbert Hall, Corvallis, Oregon 97331, USA.
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44
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Zhou C, Liu D, Wu C, Dong S, Wang E. Multifunctional Graphene/DNA-Based Platform for the Construction of Enzyme-Free Ternary Logic Gates. ACS APPLIED MATERIALS & INTERFACES 2016; 8:30287-30293. [PMID: 27750411 DOI: 10.1021/acsami.6b09021] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
In this work, we have successfully realized multivalued logic circuits including ternary INHIBIT and ternary OR logic gates in an enzyme-free condition by integration of graphene oxide and DNA for the first time. Compared to the binary logic gate with two states of "0" and "1", the multivalued logic gate contains three different states of "0", "1", and "2", which can increase the information content in a system and further improve the ability of information processing. Such types of multivalued logic operations provide a wider field of vision toward DNA-based algebra logical operations to make applications more accurate with complexity reduction and accelerate the development of advanced logic gates.
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Affiliation(s)
- Chunyang Zhou
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences , Changchun, Jilin 130022, P. R. China
- State Key Laboratory on Integrated Optoelectronics, College of Electronic Science and Engineering, Jilin University , Changchun, China
| | - Dali Liu
- State Key Laboratory on Integrated Optoelectronics, College of Electronic Science and Engineering, Jilin University , Changchun, China
| | - Changtong Wu
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences , Changchun, Jilin 130022, P. R. China
- Department of Chemistry and Environmental Engineering, Changchun University of Science and Technology , Changchun, China
| | - Shaojun Dong
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences , Changchun, Jilin 130022, P. R. China
| | - Erkang Wang
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences , Changchun, Jilin 130022, P. R. China
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45
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Lu L, Mao Z, Kang TS, Leung CH, Ma DL. A versatile nanomachine for the sensitive detection of platelet-derived growth factor-BB utilizing a G-quadruplex-selective iridium(III) complex. Biosens Bioelectron 2016; 85:300-309. [DOI: 10.1016/j.bios.2016.05.026] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2016] [Revised: 04/13/2016] [Accepted: 05/02/2016] [Indexed: 12/28/2022]
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46
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Zhu Q, Gao Y, Li Y. Split G-Quadruplex-Based Label-Free and Enzyme-Free System for the Construction of Multiple-Input Logic Gates. ChemistrySelect 2016. [DOI: 10.1002/slct.201600918] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Qi Zhu
- Department of Chemistry and Environmental Engineering; Changchun University of Science and Technology; Changchun 130022 P. R. China
| | - Ying Gao
- Department of Chemistry and Environmental Engineering; Changchun University of Science and Technology; Changchun 130022 P. R. China
| | - Yunhui Li
- Department of Chemistry and Environmental Engineering; Changchun University of Science and Technology; Changchun 130022 P. R. China
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47
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Ge L, Wang W, Sun X, Hou T, Li F. Versatile and Programmable DNA Logic Gates on Universal and Label-Free Homogeneous Electrochemical Platform. Anal Chem 2016; 88:9691-9698. [DOI: 10.1021/acs.analchem.6b02584] [Citation(s) in RCA: 69] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Affiliation(s)
- Lei Ge
- College of Chemistry
and
Pharmaceutical Sciences, Qingdao Agricultural University, Qingdao, 266109, People’s Republic of China
| | - Wenxiao Wang
- College of Chemistry
and
Pharmaceutical Sciences, Qingdao Agricultural University, Qingdao, 266109, People’s Republic of China
| | - Ximei Sun
- College of Chemistry
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Pharmaceutical Sciences, Qingdao Agricultural University, Qingdao, 266109, People’s Republic of China
| | - Ting Hou
- College of Chemistry
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Pharmaceutical Sciences, Qingdao Agricultural University, Qingdao, 266109, People’s Republic of China
| | - Feng Li
- College of Chemistry
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Pharmaceutical Sciences, Qingdao Agricultural University, Qingdao, 266109, People’s Republic of China
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48
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Gajera SB, Mehta JV, Patel MN. Design of Multifunctional IridiumIIICompounds as a Potential Therapeutic Agents from Basic Molecular Scaffolds. ChemistrySelect 2016. [DOI: 10.1002/slct.201600882] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Affiliation(s)
- Sanjay B. Gajera
- Department of Chemistry; Sardar Patel University; Vallabh Vidyanagar-388 120 Gujarat, India
| | - Jugal V. Mehta
- Department of Chemistry; Sardar Patel University; Vallabh Vidyanagar-388 120 Gujarat, India
| | - Mohan N. Patel
- Department of Chemistry; Sardar Patel University; Vallabh Vidyanagar-388 120 Gujarat, India
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49
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Kölmel DK, Barandun LJ, Kool ET. Efficient synthesis of fluorescent alkynyl C-nucleosides via Sonogashira coupling for the preparation of DNA-based polyfluorophores. Org Biomol Chem 2016; 14:6407-12. [PMID: 27296353 PMCID: PMC4935563 DOI: 10.1039/c6ob01199c] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A facile and general procedure for the preparation of alkynyl C-nucleosides with varied fluorophores is presented. Sonogashira coupling was used as a key reaction to conjugate the dyes to an easily accessible ethynyl functionalized deoxyribose derivative. The new C-nucleosides were used for the preparation of DNA-based polyfluorophores.
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Affiliation(s)
- Dominik K Kölmel
- Department of Chemistry, Stanford University, Stanford, California 94305, USA.
| | - Luzi J Barandun
- Department of Chemistry, Stanford University, Stanford, California 94305, USA.
| | - Eric T Kool
- Department of Chemistry, Stanford University, Stanford, California 94305, USA.
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50
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Xu L, Hong S, Shen X, Zhou L, Wang J, Zhang J, Pei R. DNA Triplexes-Guided Assembly of G-Quadruplexes for Constructing Label-free Fluorescent Logic Gates. Chem Asian J 2016; 11:1892-5. [DOI: 10.1002/asia.201600626] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2016] [Indexed: 12/11/2022]
Affiliation(s)
- Lijun Xu
- Key Laboratory of Nano-Bio Interface; Division of Nanobiomedicine; Suzhou Institute of Nano-Tech and Nano-Bionics; Chinese Academy of Sciences; Suzhou 215123 China
- University of Chinese Academy of Sciences; Beijing 100049 China
| | - Shanni Hong
- Key Laboratory of Nano-Bio Interface; Division of Nanobiomedicine; Suzhou Institute of Nano-Tech and Nano-Bionics; Chinese Academy of Sciences; Suzhou 215123 China
- University of Chinese Academy of Sciences; Beijing 100049 China
| | - Xiaoqiang Shen
- Key Laboratory of Nano-Bio Interface; Division of Nanobiomedicine; Suzhou Institute of Nano-Tech and Nano-Bionics; Chinese Academy of Sciences; Suzhou 215123 China
- School of Chemistry and Molecular Engineering; Zhengzhou University; Zhengzhou 450001 China
| | - Lu Zhou
- Key Laboratory of Nano-Bio Interface; Division of Nanobiomedicine; Suzhou Institute of Nano-Tech and Nano-Bionics; Chinese Academy of Sciences; Suzhou 215123 China
| | - Jine Wang
- Key Laboratory of Nano-Bio Interface; Division of Nanobiomedicine; Suzhou Institute of Nano-Tech and Nano-Bionics; Chinese Academy of Sciences; Suzhou 215123 China
| | - Jianye Zhang
- School of Chemistry and Molecular Engineering; Zhengzhou University; Zhengzhou 450001 China
| | - Renjun Pei
- Key Laboratory of Nano-Bio Interface; Division of Nanobiomedicine; Suzhou Institute of Nano-Tech and Nano-Bionics; Chinese Academy of Sciences; Suzhou 215123 China
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