1
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Algama CH, Basir J, Wijesinghe KM, Dhakal S. Fluorescence-Based Multimodal DNA Logic Gates. NANOMATERIALS (BASEL, SWITZERLAND) 2024; 14:1185. [PMID: 39057862 PMCID: PMC11280116 DOI: 10.3390/nano14141185] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/18/2024] [Revised: 07/02/2024] [Accepted: 07/03/2024] [Indexed: 07/28/2024]
Abstract
The use of DNA structures in creating multimodal logic gates bears high potential for building molecular devices and computation systems. However, due to the complex designs or complicated working principles, the implementation of DNA logic gates within molecular devices and circuits is still quite limited. Here, we designed simple four-way DNA logic gates that can serve as multimodal platforms for simple to complex operations. Using the proximity quenching of the fluorophore-quencher pair in combination with the toehold-mediated strand displacement (TMSD) strategy, we have successfully demonstrated that the fluorescence output, which is a result of gate opening, solely relies on the oligonucleotide(s) input. We further demonstrated that this strategy can be used to create multimodal (tunable displacement initiation sites on the four-way platform) logic gates including YES, AND, OR, and the combinations thereof. The four-way DNA logic gates developed here bear high promise for building biological computers and next-generation smart molecular circuits with biosensing capabilities.
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Affiliation(s)
| | | | | | - Soma Dhakal
- Department of Chemistry, Virginia Commonwealth University, Richmond, VA 23284, USA
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2
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Fan X, Gao Y, Zhang X, Li J, Song R, Feng X, Song W. "OR" logic gate multiplexed photoelectrochemical sensor for high-risk human papillomaviruses: "One pot" recombinase polymerase amplification and logic discrimination. Talanta 2024; 266:125090. [PMID: 37619470 DOI: 10.1016/j.talanta.2023.125090] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2023] [Revised: 08/10/2023] [Accepted: 08/17/2023] [Indexed: 08/26/2023]
Abstract
Multiple targets analysis in complex samples is of great importance in medical and health sciences. Limited by independent laborious operational procedures, multiple targets determination remains a challenge. Herein, we report an "OR" logic gate multiplexed photoelectrochemical (PEC) sensor based on "one pot" recombinase polymerase amplification (RPA) strategy. "One pot" RPA triggers exponential growth of multiple DNA in complex samples. Subsequently, the amplification products interact separately with lambda exonuclease (λ exo) or Cas12a-crRNA. Following the multiple targets recognition event, the dual enzyme-mediated cleavage separates the signal labels from the photocathode. The resulting photocurrent change is utilized for logical discrimination and detection. The feasibility of the sensor is verified by analyzing the two typical duplex DNA (high-risk human papillomaviruses (HPV)). Ultralow detection limit (0.088 fg/μL, 0.081 fg/μL) with broad detection range (0.1 fg/μL to 10 ng/μL, 0.1 fg/μL to 1 ng/μL) for HPV16 and HPV18 are obtained. Eliminating instrumentation constraints (light source/potential modulation) and simplifying operation procedures, this work opens an avenue for developing multiplexed sensing devices for clinical diagnosis and disease treatment.
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Affiliation(s)
- Xue Fan
- College of Chemistry, Jilin University, Changchun, 130012, China
| | - Yao Gao
- College of Chemistry, Jilin University, Changchun, 130012, China
| | - Xuechen Zhang
- College of Chemistry, Jilin University, Changchun, 130012, China
| | - Jiawen Li
- College of Chemistry, Jilin University, Changchun, 130012, China
| | - Renhuan Song
- College of Chemistry, Jilin University, Changchun, 130012, China
| | - Xun Feng
- Department of Sanitary Chemistry, School of Public Health, Shenyang Medical College, No.146 Yellow River North Street, Shenyang, 110034, China.
| | - Wenbo Song
- College of Chemistry, Jilin University, Changchun, 130012, China.
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3
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Designing three digital logic circuits based on two-component molecular systems of a combination of BSA and N, N′-bis(salicylidene) - ethylenediamine. Chem Phys Lett 2023. [DOI: 10.1016/j.cplett.2022.140238] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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4
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Sharma H, Chaudhary S, Nirwan S, Kakkar R, Liew H, Low M, Mai C, Hii L, Leong C, Daisy Milton M. N, N’
‐Disubstituted Benzimidazolium Salts: Synthesis, Characterization, Micromolar Detection of Fe(III) ions in Aqueous system, Biological Evaluation and Molecular Docking Studies. ChemistrySelect 2022. [DOI: 10.1002/slct.202203239] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Affiliation(s)
- Himshikha Sharma
- Functional Organic Molecules Synthesis Laboratory Department of Chemistry University of Delhi Delhi 110007 India
| | - Shweta Chaudhary
- Functional Organic Molecules Synthesis Laboratory Department of Chemistry University of Delhi Delhi 110007 India
| | - Sonam Nirwan
- Computational Chemistry Laboratory Department of Chemistry University of Delhi Delhi 110007 India
| | - Rita Kakkar
- Computational Chemistry Laboratory Department of Chemistry University of Delhi Delhi 110007 India
| | - HuiShan Liew
- School of Postgraduate Studies and Research International Medical University, 126, Jalan Jalil Perkasa 19 57000 Bukit Jalil, Kuala Lumpur Malaysia
| | - May‐Lee Low
- Department of Pharmaceutical Chemistry School of Pharmacy International Medical University, 126, Jalan Jalil Perkasa 19 57000 Bukit Jalil Kuala Lumpur Malaysia
- Centre for Cancer and Stem Cell Research Institute for Research Development and Innovation International Medical University, 126, Jalan Jalil Perkasa 19 57000 Bukit Jalil, Kuala Lumpur Malaysia
| | - Chun‐Wai Mai
- Department of Pharmaceutical Chemistry School of Pharmacy International Medical University, 126, Jalan Jalil Perkasa 19 57000 Bukit Jalil Kuala Lumpur Malaysia
- Centre for Cancer and Stem Cell Research Institute for Research Development and Innovation International Medical University, 126, Jalan Jalil Perkasa 19 57000 Bukit Jalil, Kuala Lumpur Malaysia
- State Key Laboratory of Oncogenes and Related Genes Ren Ji-Med X Clinical Stem Cell Research Center Department of Urology Ren Ji Hospital School of Medicine Shanghai Jiao Tong University, 160, Pujian Road, Pudong New District 200127 Shanghai China
| | - Ling‐Wei Hii
- School of Postgraduate Studies and Research International Medical University, 126, Jalan Jalil Perkasa 19 57000 Bukit Jalil, Kuala Lumpur Malaysia
- Centre for Cancer and Stem Cell Research Institute for Research Development and Innovation International Medical University, 126, Jalan Jalil Perkasa 19 57000 Bukit Jalil, Kuala Lumpur Malaysia
- Department of Life Sciences School of Pharmacy International Medical University, 126, Jalan Jalil Perkasa 19 57000 Bukit Jalil, Kuala Lumpur Malaysia
| | - Chee‐Onn Leong
- Centre for Cancer and Stem Cell Research Institute for Research Development and Innovation International Medical University, 126, Jalan Jalil Perkasa 19 57000 Bukit Jalil, Kuala Lumpur Malaysia
- Department of Life Sciences School of Pharmacy International Medical University, 126, Jalan Jalil Perkasa 19 57000 Bukit Jalil, Kuala Lumpur Malaysia
| | - Marilyn Daisy Milton
- Functional Organic Molecules Synthesis Laboratory Department of Chemistry University of Delhi Delhi 110007 India
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5
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Wen X, Li F. Fluorescent Determination of Esterase in Living Cells by A Low-Dosage, Ultra-Sensitive Probe Based on Aggregation Induced Emission (AIE). ANAL LETT 2022. [DOI: 10.1080/00032719.2022.2151613] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Xiaoye Wen
- Department of Chemistry, Shanxi Normal University, Taiyuan, Shanxi, China
| | - Fang Li
- Department of Chemistry, Shanxi Normal University, Taiyuan, Shanxi, China
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6
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AIE based colorimetric and fluorescent sensor for the selective detection of CN− in aqueous media. INORG CHEM COMMUN 2022. [DOI: 10.1016/j.inoche.2022.109662] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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7
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Yang D, Diao X, Liu J, Chen Y, Leng Y, Cai X. A Novel and Reactive Fluorescent “Turn‐on” Probe Based on Benzimidazole Derivative for Selective CN
−
Detection. Z Anorg Allg Chem 2022. [DOI: 10.1002/zaac.202100311] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Di Yang
- School of Chemical Engineering Guizhou Minzu University Guizhou Guiyang 550025 P. R. China
| | - Xuewen Diao
- School of Chemical Engineering Guizhou Minzu University Guizhou Guiyang 550025 P. R. China
| | - Ji Liu
- School of Chemical Engineering Guizhou Minzu University Guizhou Guiyang 550025 P. R. China
| | - Yaxin Chen
- School of Chemical Engineering Guizhou Minzu University Guizhou Guiyang 550025 P. R. China
| | - Yanli Leng
- School of Chemical Engineering Guizhou Minzu University Guizhou Guiyang 550025 P. R. China
| | - Xiaohua Cai
- School of Chemical Engineering Guizhou Minzu University Guizhou Guiyang 550025 P. R. China
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8
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Singh G, Priyanka, Sushma, Pawan, Diksha, Suman, Mohit, Devi A, Gupta S. Tetrazole conjoined organosilane and organosilatrane via the ‘click approach’: a potent Mycobacterium tuberculosis enoyl ACP reductase inhibitor and a dual sensor for Fe(iii) and Cu(ii) ions. NEW J CHEM 2022. [DOI: 10.1039/d1nj05126a] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
This article includes the synthesis and characterization of tetrazole-allied organosilane and organosilatrane. The tetrazole-allied silatrane was explored for molecular docking and optical aspects.
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Affiliation(s)
- Gurjaspreet Singh
- Department of Chemistry, Panjab University, Chandigarh-160014, India
| | - Priyanka
- Department of Chemistry, Panjab University, Chandigarh-160014, India
| | - Sushma
- Department of Chemistry, Panjab University, Chandigarh-160014, India
| | - Pawan
- Department of Chemistry, Panjab University, Chandigarh-160014, India
| | - Diksha
- Department of Chemistry, Panjab University, Chandigarh-160014, India
| | - Suman
- Department of Chemistry, Panjab University, Chandigarh-160014, India
| | - Mohit
- Department of Chemistry, Panjab University, Chandigarh-160014, India
| | - Anita Devi
- Department of Chemistry, Panjab University, Chandigarh-160014, India
| | - Sofia Gupta
- Department of Chemistry, Panjab University, Chandigarh-160014, India
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9
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Liu L, Liu P, Ga L, Ai J. Advances in Applications of Molecular Logic Gates. ACS OMEGA 2021; 6:30189-30204. [PMID: 34805654 PMCID: PMC8600522 DOI: 10.1021/acsomega.1c02912] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/03/2021] [Accepted: 10/05/2021] [Indexed: 05/21/2023]
Abstract
Logic gates are devices that can perform Boolean logic operations and are the basic components of integrated circuits for information processing and storage. In recent years, molecular logic gates are gradually replacing traditional silicon-based electronic computers with their significant advantages and are used in research in water quality monitoring, heavy metal ion detection, disease diagnosis and treatment, food safety detection, and biological sensors. Logic gates at the molecular level have broad development prospects and huge development potential. In this review, the development and application of logic gates in various fields are used as the entry point to discuss the research progress of logic gates and logic circuits. At the same time, the application of logic gates in quite a few emerging fields is briefly summarized and predicted.
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Affiliation(s)
- Lijun Liu
- College
of Chemistry and Environmental Science, Inner Mongolian Key Laboratory
for Enviromental Chemistry, Inner Mongolia
Normal University, 81 Zhaowudalu, Hohhot 010022, People’s Republic of China
| | - Pingping Liu
- College
of Chemistry and Environmental Science, Inner Mongolian Key Laboratory
for Enviromental Chemistry, Inner Mongolia
Normal University, 81 Zhaowudalu, Hohhot 010022, People’s Republic of China
| | - Lu Ga
- College
of Pharmacy, Inner Mongolia Medical University, Jinchuankaifaqu, Hohhot 010110, People’s Republic of China
| | - Jun Ai
- College
of Chemistry and Environmental Science, Inner Mongolian Key Laboratory
for Enviromental Chemistry, Inner Mongolia
Normal University, 81 Zhaowudalu, Hohhot 010022, People’s Republic of China
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10
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Wen X, Yan L, Fan Z. One-step construction of a novel AIE probe based on diaminomaleonitrile and its application in double-detection of hypochlorites and formaldehyde gas. NEW J CHEM 2021. [DOI: 10.1039/d1nj00932j] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
A novel and efficient probe with AIE property was designed and synthesized for application in double-detection of hypochlorites and formaldehyde gas.
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Affiliation(s)
- Xiaoye Wen
- Department of Chemistry
- Shanxi Normal University
- Linfen 041004
- China
| | - Li Yan
- Department of Chemistry
- Shanxi Normal University
- Linfen 041004
- China
| | - Zhefeng Fan
- Department of Chemistry
- Shanxi Normal University
- Linfen 041004
- China
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