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Lu S, Shen J, Fan C, Li Q, Yang X. DNA Assembly-Based Stimuli-Responsive Systems. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2021; 8:2100328. [PMID: 34258165 PMCID: PMC8261508 DOI: 10.1002/advs.202100328] [Citation(s) in RCA: 38] [Impact Index Per Article: 12.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/26/2021] [Revised: 03/05/2021] [Indexed: 05/06/2023]
Abstract
Stimuli-responsive designs with exogenous stimuli enable remote and reversible control of DNA nanostructures, which break many limitations of static nanostructures and inspired development of dynamic DNA nanotechnology. Moreover, the introduction of various types of organic molecules, polymers, chemical bonds, and chemical reactions with stimuli-responsive properties development has greatly expand the application scope of dynamic DNA nanotechnology. Here, DNA assembly-based stimuli-responsive systems are reviewed, with the focus on response units and mechanisms that depend on different exogenous stimuli (DNA strand, pH, light, temperature, electricity, metal ions, etc.), and their applications in fields of nanofabrication (DNA architectures, hybrid architectures, nanomachines, and constitutional dynamic networks) and biomedical research (biosensing, bioimaging, therapeutics, and theranostics) are discussed. Finally, the opportunities and challenges for DNA assembly-based stimuli-responsive systems are overviewed and discussed.
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Affiliation(s)
- Shasha Lu
- School of Chemistry and Chemical EngineeringFrontiers Science Center for Transformative MoleculesInstitute of Translational MedicineShanghai Jiao Tong UniversityShanghai200240China
| | - Jianlei Shen
- School of Chemistry and Chemical EngineeringFrontiers Science Center for Transformative MoleculesInstitute of Translational MedicineShanghai Jiao Tong UniversityShanghai200240China
| | - Chunhai Fan
- School of Chemistry and Chemical EngineeringFrontiers Science Center for Transformative MoleculesInstitute of Translational MedicineShanghai Jiao Tong UniversityShanghai200240China
- Institute of Molecular MedicineShanghai Key Laboratory for Nucleic Acid Chemistry and NanomedicineDepartment of UrologyRenji HospitalSchool of MedicineShanghai Jiao Tong UniversityShanghai200127China
| | - Qian Li
- School of Chemistry and Chemical EngineeringFrontiers Science Center for Transformative MoleculesInstitute of Translational MedicineShanghai Jiao Tong UniversityShanghai200240China
| | - Xiurong Yang
- School of Chemistry and Chemical EngineeringFrontiers Science Center for Transformative MoleculesInstitute of Translational MedicineShanghai Jiao Tong UniversityShanghai200240China
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2
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Minasyan AS, Chakravarthy S, Vardelly S, Joseph M, Nesterov EE, Nesterova IV. Rational design of guiding elements to control folding topology in i-motifs with multiple quadruplexes. NANOSCALE 2021; 13:8875-8883. [PMID: 33949568 PMCID: PMC8210535 DOI: 10.1039/d1nr00611h] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/05/2023]
Abstract
Nucleic acids are versatile scaffolds that accommodate a wide range of precisely defined operational characteristics. Rational design of sensing, molecular computing, nanotechnology, and other nucleic acid devices requires precise control over folding conformations in these macromolecules. Here, we report a new approach that empowers well-defined conformational transitions in DNA molecular devices. Specifically, we develop tools for precise folding of multiple DNA quadruplexes (i-motifs) within the same oligonucleotide strand. To accomplish this task, we modify a DNA strand with kinetic control elements (hairpins and double stranded stems) that fold on a much faster timescale and consequently guide quadruplexes toward the targeted folding topology. To demonstrate that such guiding elements indeed facilitate formation of the targeted folding topology, we thoroughly characterize the folding/unfolding transitions through a combination of thermodynamic techniques, size exclusion chromatography (SEC) and small-angle X-ray scattering (SAXS). Furthermore, we extend SAXS capabilities to produce a direct insight on the shape and dimensions of the folded quadruplexes by computing their electron density maps from solution scattering data.
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Affiliation(s)
- Alexander S Minasyan
- Department of Chemistry and Biochemistry, Northern Illinois University, DeKalb, IL 60115, USA.
| | | | - Suchitra Vardelly
- Department of Chemistry and Biochemistry, Northern Illinois University, DeKalb, IL 60115, USA.
| | - Mark Joseph
- Department of Natural Science, University of Maryland Eastern Shore, Princess Anne, MD 21853, USA
| | - Evgueni E Nesterov
- Department of Chemistry and Biochemistry, Northern Illinois University, DeKalb, IL 60115, USA.
| | - Irina V Nesterova
- Department of Chemistry and Biochemistry, Northern Illinois University, DeKalb, IL 60115, USA.
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3
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Nwokolo OA, Kidd B, Allen T, Minasyan AS, Vardelly S, Johnson KD, Nesterova IV. Rational Design of Memory‐Based Sensors: the Case of Molecular Calorimeters. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202011422] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Obianuju A. Nwokolo
- Department of Chemistry and Biochemistry Northern Illinois University DeKalb IL 60115 USA
| | - Brant Kidd
- Department of Chemistry and Biochemistry Northern Illinois University DeKalb IL 60115 USA
| | - Te'Kara Allen
- Department of Chemistry and Biochemistry Northern Illinois University DeKalb IL 60115 USA
| | - Alexander S. Minasyan
- Department of Chemistry and Biochemistry Northern Illinois University DeKalb IL 60115 USA
| | - Suchitra Vardelly
- Department of Chemistry and Biochemistry Northern Illinois University DeKalb IL 60115 USA
| | - Kristopher D. Johnson
- Department of Chemistry and Biochemistry Northern Illinois University DeKalb IL 60115 USA
| | - Irina V. Nesterova
- Department of Chemistry and Biochemistry Northern Illinois University DeKalb IL 60115 USA
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4
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Nwokolo OA, Kidd B, Allen T, Minasyan AS, Vardelly S, Johnson KD, Nesterova IV. Rational Design of Memory-Based Sensors: the Case of Molecular Calorimeters. Angew Chem Int Ed Engl 2020; 60:1610-1614. [PMID: 32996657 DOI: 10.1002/anie.202011422] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2020] [Revised: 09/22/2020] [Indexed: 12/11/2022]
Abstract
Thermodynamic characterization is crucial for understanding molecular interactions. However, methodologies for measuring heat changes in small open systems are extremely limited. We document a new approach for designing molecular sensors, that function as calorimeters: sensors based on memory. To design a memory-based sensor, we take advantage of the unique kinetic properties of nucleic acid scaffolds. Particularly, we elaborate on the differences in folding and unfolding rates in nucleic acid quadruplexes. DNA-based i-motifs unfold fast in response to small heats but do not fold back when the system is equilibrated with surroundings. We translated this behavior into a molecular memory function that enables the measurement of heat changes in open environments. The new sensors are biocompatible, operate homogeneously, and measure small heats released over long time periods. As a proof-of-concept, we demonstrate how the molecular calorimeters report heat changes generated in water/propanol mixing and in ligand/protein binding.
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Affiliation(s)
- Obianuju A Nwokolo
- Department of Chemistry and Biochemistry, Northern Illinois University, DeKalb, IL, 60115, USA
| | - Brant Kidd
- Department of Chemistry and Biochemistry, Northern Illinois University, DeKalb, IL, 60115, USA
| | - Te'Kara Allen
- Department of Chemistry and Biochemistry, Northern Illinois University, DeKalb, IL, 60115, USA
| | - Alexander S Minasyan
- Department of Chemistry and Biochemistry, Northern Illinois University, DeKalb, IL, 60115, USA
| | - Suchitra Vardelly
- Department of Chemistry and Biochemistry, Northern Illinois University, DeKalb, IL, 60115, USA
| | - Kristopher D Johnson
- Department of Chemistry and Biochemistry, Northern Illinois University, DeKalb, IL, 60115, USA
| | - Irina V Nesterova
- Department of Chemistry and Biochemistry, Northern Illinois University, DeKalb, IL, 60115, USA
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5
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Spectroscopic studies upon chimeric molecular beacons with i-motif forming sequence in the loop. J Mol Struct 2020. [DOI: 10.1016/j.molstruc.2020.128436] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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6
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Ma W, Yan L, He X, Qing T, Lei Y, Qiao Z, He D, Huang K, Wang K. Hairpin-Contained i-Motif Based Fluorescent Ratiometric Probe for High-Resolution and Sensitive Response of Small pH Variations. Anal Chem 2018; 90:1889-1896. [DOI: 10.1021/acs.analchem.7b03972] [Citation(s) in RCA: 44] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Wenjie Ma
- State Key Laboratory of Chemo/Biosensing
and Chemometrics, College of Biology, College of Chemistry and Chemical
Engineering, Hunan University, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Changsha 410082, China
| | - Lv’an Yan
- State Key Laboratory of Chemo/Biosensing
and Chemometrics, College of Biology, College of Chemistry and Chemical
Engineering, Hunan University, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Changsha 410082, China
| | - Xiaoxiao He
- State Key Laboratory of Chemo/Biosensing
and Chemometrics, College of Biology, College of Chemistry and Chemical
Engineering, Hunan University, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Changsha 410082, China
| | - Taiping Qing
- State Key Laboratory of Chemo/Biosensing
and Chemometrics, College of Biology, College of Chemistry and Chemical
Engineering, Hunan University, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Changsha 410082, China
| | - Yanli Lei
- State Key Laboratory of Chemo/Biosensing
and Chemometrics, College of Biology, College of Chemistry and Chemical
Engineering, Hunan University, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Changsha 410082, China
| | - Zhenzhen Qiao
- State Key Laboratory of Chemo/Biosensing
and Chemometrics, College of Biology, College of Chemistry and Chemical
Engineering, Hunan University, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Changsha 410082, China
| | - Dinggeng He
- State Key Laboratory of Chemo/Biosensing
and Chemometrics, College of Biology, College of Chemistry and Chemical
Engineering, Hunan University, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Changsha 410082, China
| | - Kaihang Huang
- State Key Laboratory of Chemo/Biosensing
and Chemometrics, College of Biology, College of Chemistry and Chemical
Engineering, Hunan University, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Changsha 410082, China
| | - Kemin Wang
- State Key Laboratory of Chemo/Biosensing
and Chemometrics, College of Biology, College of Chemistry and Chemical
Engineering, Hunan University, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Changsha 410082, China
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7
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Dembska A, Kierzek E, Juskowiak B. Studying the influence of stem composition in pH-sensitive molecular beacons onto their sensing properties. Anal Chim Acta 2017; 990:157-167. [PMID: 29029739 DOI: 10.1016/j.aca.2017.07.040] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2017] [Revised: 06/21/2017] [Accepted: 07/17/2017] [Indexed: 01/04/2023]
Abstract
Intracellular sensing using fluorescent molecular beacons is a potentially useful strategy for real-time, in vivo monitoring of important cellular events. This work is focused on evaluation of pyrene excimer signaling molecular beacons (MBs) for the monitoring of pH changes in vitro as well as inside living cells. The recognition element in our MB called pHSO (pH-sensitive oligonucleotide) is the loop enclosing cytosine-rich fragment that is able to form i-motif structure in a specific pH range. However, alteration of a sequence of the 6 base pairs containing stem of MB allowed the design of pHSO probes that exhibited different dynamic pH range and possessed slightly different transition midpoint between i-motif and open loop configuration. Moreover, this conformational transition was accompanied by spectral changes showing developed probes different pyrene excimer-monomer emission ratio triggered by pH changes. The potential of these MBs for intracellular pH sensing is demonstrated on the example of HeLa cells line.
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Affiliation(s)
- Anna Dembska
- Faculty of Chemistry, Adam Mickiewicz University, Umultowska 89b, 61-614 Poznan, Poland.
| | - Elzbieta Kierzek
- Institute of Bioorganic Chemistry, Polish Academy of Science, Noskowskiego 12/14, 61-704 Poznan, Poland
| | - Bernard Juskowiak
- Faculty of Chemistry, Adam Mickiewicz University, Umultowska 89b, 61-614 Poznan, Poland
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8
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Fong FY, Oh SS, Hawker CJ, Soh HT. In Vitro Selection of pH-Activated DNA Nanostructures. Angew Chem Int Ed Engl 2016; 55:15258-15262. [PMID: 27809385 DOI: 10.1002/anie.201607540] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2016] [Revised: 09/19/2016] [Indexed: 12/21/2022]
Abstract
We report the first in vitro selection of DNA nanostructures that switch their conformation when triggered by change in pH. Previously, most pH-active nanostructures were designed using known pH-active motifs, such as the i-motif or the triplex structure. In contrast, we performed de novo selections starting from a random library and generated nanostructures that can sequester and release Mipomersen, a clinically approved antisense DNA drug, in response to pH change. We demonstrate extraordinary pH-selectivity, releasing up to 714-fold more Mipomersen at pH 5.2 compared to pH 7.5. Interestingly, none of our nanostructures showed significant sequence similarity to known pH-sensitive motifs, suggesting that they may operate via novel structure-switching mechanisms. We believe our selection scheme is general and could be adopted for generating DNA nanostructures for many applications including drug delivery, sensors and pH-active surfaces.
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Affiliation(s)
- Faye Yi Fong
- Materials Department, University of California at Santa Barbara, Santa Barbara, CA, 93106, USA
| | - Seung Soo Oh
- Materials Department, University of California at Santa Barbara, Santa Barbara, CA, 93106, USA.,Department of Materials Science and Engineering, Pohang University of Science and Technology, Pohang, Gyeongbuk, 37673, South Korea
| | - Craig J Hawker
- Department of Chemistry and Biochemistry, University of California at Santa Barbara, Santa Barbara, CA, 93106, USA
| | - H Tom Soh
- Department of Electrical Engineering and Department of Radiology, Canary Center at Stanford University, 3155 Porter Drive, Stanford, CA, 94305, USA
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9
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Fong FY, Oh SS, Hawker CJ, Soh HT. In Vitro Selection of pH-Activated DNA Nanostructures. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201607540] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Affiliation(s)
- Faye Yi Fong
- Materials Department; University of California at Santa Barbara; Santa Barbara CA 93106 USA
| | - Seung Soo Oh
- Materials Department; University of California at Santa Barbara; Santa Barbara CA 93106 USA
- Department of Materials Science and Engineering; Pohang University of Science and Technology; Pohang, Gyeongbuk 37673 South Korea
| | - Craig J. Hawker
- Department of Chemistry and Biochemistry; University of California at Santa Barbara; Santa Barbara CA 93106 USA
| | - H. Tom Soh
- Department of Electrical Engineering and Department of Radiology; Canary Center at Stanford University; 3155 Porter Drive Stanford CA 94305 USA
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10
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Alba JJ, Sadurní A, Gargallo R. Nucleic Acid i-Motif Structures in Analytical Chemistry. Crit Rev Anal Chem 2016; 46:443-54. [DOI: 10.1080/10408347.2016.1143347] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Joan Josep Alba
- Department of Analytical Chemistry, University of Barcelona, Barcelona, Spain
| | - Anna Sadurní
- Department of Analytical Chemistry, University of Barcelona, Barcelona, Spain
| | - Raimundo Gargallo
- Department of Analytical Chemistry, University of Barcelona, Barcelona, Spain
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11
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Dembska A. The analytical and biomedical potential of cytosine-rich oligonucleotides: A review. Anal Chim Acta 2016; 930:1-12. [PMID: 27265899 DOI: 10.1016/j.aca.2016.05.007] [Citation(s) in RCA: 43] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2015] [Revised: 04/30/2016] [Accepted: 05/04/2016] [Indexed: 02/04/2023]
Abstract
Polycytosine DNA strands are often found among natural sequences, including the ends of telomeres, centromeres, and introns or in the regulatory regions of genes. A characteristic feature of oligonucleotides that are rich in cytosine (C-rich) is their ability to associate under acidic conditions to form a tetraplex i-motif consisting of two parallel stranded cytosine-hemiprotonated cytosine (C·C+) base-paired duplexes that are mutually intercalated in an antiparallel orientation. Nanotechnology has been exploiting the advantages of i-motif pH-dependent formation to fabricate nanomachines, nanoswitches, electrodes and intelligent nanosurfaces or nanomaterials. Although a few reviews regarding the structure, properties and applications of i-motifs have been published, this review focuses on recently developed biosensors (e.g., to detect pH, glucose or silver ions) and drug-delivery biomaterials. Furthermore, we have included examples of sensors based on parallel C-rich triplexes and silver nanoclusters (AgNCs) fabricated on cytosine-rich DNA strands. The potential diagnostic and therapeutic applications of this type of material are discussed.
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Affiliation(s)
- Anna Dembska
- Faculty of Chemistry, Adam Mickiewicz University, Umultowska 89b, 61-614 Poznan, Poland.
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12
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Lannes L, Halder S, Krishnan Y, Schwalbe H. Tuning the pH Response of i-Motif DNA Oligonucleotides. Chembiochem 2015; 16:1647-56. [PMID: 26032298 DOI: 10.1002/cbic.201500182] [Citation(s) in RCA: 45] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2015] [Indexed: 12/19/2022]
Abstract
Cytosine-rich single-stranded DNA oligonucleotides are able to adopt an i-motif conformation, a four-stranded structure, near a pH of 6. This unique pH-dependent conformational switch is reversible and hence can be controlled by changing the pH. Here, we show that the pH response range of the human telomeric i-motif can be shifted towards more basic pH values by introducing 5-methylcytidines (5-MeC) and towards more acidic pH values by introducing 5-bromocytidines (5-BrC). No thermal destabilisation was observed in these chemically modified i-motif sequences. The time required to attain the new conformation in response to sudden pH changes was slow for all investigated sequences but was found to be ten times faster in the 5-BrC derivative of the i-motif.
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Affiliation(s)
- Laurie Lannes
- Institute for Organic Chemistry and Chemical Biology, Center for Biomolecular Magnetic Resonance (BMRZ), Johann Wolfgang Goethe-University Frankfurt, Max-von-Laue-Strasse 7, 60438 Frankfurt/Main (Germany)
| | - Saheli Halder
- National Centre for Biological Sciences, TIFR, GKVK Campus, Bellary Road, Bangalore 560065 (India)
| | - Yamuna Krishnan
- National Centre for Biological Sciences, TIFR, GKVK Campus, Bellary Road, Bangalore 560065 (India).,Department of Chemistry, University of Chicago, E305, GCIS, 929 E, 57th Street, Chicago, IL 60637 (USA)
| | - Harald Schwalbe
- Institute for Organic Chemistry and Chemical Biology, Center for Biomolecular Magnetic Resonance (BMRZ), Johann Wolfgang Goethe-University Frankfurt, Max-von-Laue-Strasse 7, 60438 Frankfurt/Main (Germany).
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13
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Dembska A, Juskowiak B. Pyrene functionalized molecular beacon with pH-sensitive i-motif in a loop. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2015; 150:928-933. [PMID: 26123509 DOI: 10.1016/j.saa.2015.06.041] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/18/2015] [Accepted: 06/11/2015] [Indexed: 06/04/2023]
Abstract
In this work, we present a spectral characterization of pH-sensitive system, which combines the i-motif properties with the spatially sensitive fluorescence signal of pyrene molecules attached to hairpin ends. The excimer production (fluorescence max. ∼480 nm) by pyrene labels at the ends of the molecular beacon is driven by pH-dependent i-motif formation in the loop. To illustrate the performance and reversible work of our systems, we performed the experiments with repeatedly pH cycling between pH values of 7.5±0.3 and 6.5±0.3. The sensor gives analytical response in excimer-monomer switching mode in narrow pH range (1.5 pH units) and exhibits high pH resolution (0.1 pH unit).
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Affiliation(s)
- Anna Dembska
- Faculty of Chemistry, Adam Mickiewicz University, Umultowska 89b, 61-614 Poznan, Poland.
| | - Bernard Juskowiak
- Faculty of Chemistry, Adam Mickiewicz University, Umultowska 89b, 61-614 Poznan, Poland
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14
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Nesterova IV, Elsiddieg SO, Nesterov EE. A dual input DNA-based molecular switch. MOLECULAR BIOSYSTEMS 2015; 10:2810-4. [PMID: 25099914 DOI: 10.1039/c4mb00363b] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
Abstract
We have designed and characterized a DNA-based molecular switch which processes two physiologically relevant inputs: pH (i.e. alkalinisation) and enzymatic activity, and generates a chemical output (in situ synthesized oligonucleotide). The design, based on allosteric interactions between i-motif and hairpin stem within the DNA molecule, addresses such critical physiological system parameters as molecular simplicity, tunability, orthogonality of the two input sensing domains, and compatibility with intracellular operation/delivery.
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Affiliation(s)
- Irina V Nesterova
- Department of Chemistry, Louisiana State University, Baton Rouge, LA 70803, USA.
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15
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Halder S, Krishnan Y. Design of ultrasensitive DNA-based fluorescent pH sensitive nanodevices. NANOSCALE 2015; 7:10008-10012. [PMID: 25990365 DOI: 10.1039/c5nr01158b] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Here we tune the pH sensitivity of a DNA-based conformational switch, called the I-switch, to yield a set of fluorescent pH sensitive nanodevices with a collective, expanded pH sensing regime from 5.3 to 7.5. The expanded pH regime of this new family of I-switches originates from a dramatic improvement in the overall percentage signal change in response to pH of these nanodevices.
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Affiliation(s)
- Saheli Halder
- National Centre for Biological Sciences, TIFR, GKVK, Bellary Road, Bangalore 560 065, India
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16
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Fu B, Huang J, Bai D, Xie Y, Wang Y, Wang S, Zhou X. Label-free detection of pH based on the i-motif using an aggregation-caused quenching strategy. Chem Commun (Camb) 2015; 51:16960-3. [DOI: 10.1039/c5cc04784f] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
A label-free and biocompatible pH sensor system based on the aggregation-caused quenching (ACQ) probe has been reported herein.
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Affiliation(s)
- Boshi Fu
- College of Chemistry and Molecular Sciences
- Key Laboratory of Biomedical Polymers of Ministry of Education
- Institute of Advanced Studies - 68756663
- China
| | - Jinguo Huang
- College of Chemistry and Molecular Sciences
- Key Laboratory of Biomedical Polymers of Ministry of Education
- Institute of Advanced Studies - 68756663
- China
| | - Dongsheng Bai
- College of Chemistry and Molecular Sciences
- Key Laboratory of Biomedical Polymers of Ministry of Education
- Institute of Advanced Studies - 68756663
- China
| | - Yalun Xie
- College of Chemistry and Molecular Sciences
- Key Laboratory of Biomedical Polymers of Ministry of Education
- Institute of Advanced Studies - 68756663
- China
| | - Yang Wang
- College of Chemistry and Molecular Sciences
- Key Laboratory of Biomedical Polymers of Ministry of Education
- Institute of Advanced Studies - 68756663
- China
| | - Shaoru Wang
- College of Chemistry and Molecular Sciences
- Key Laboratory of Biomedical Polymers of Ministry of Education
- Institute of Advanced Studies - 68756663
- China
| | - Xiang Zhou
- College of Chemistry and Molecular Sciences
- Key Laboratory of Biomedical Polymers of Ministry of Education
- Institute of Advanced Studies - 68756663
- China
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17
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Nesterova IV, Nesterov EE. Rational Design of Highly Responsive pH Sensors Based on DNA i-Motif. J Am Chem Soc 2014; 136:8843-6. [DOI: 10.1021/ja501859w] [Citation(s) in RCA: 117] [Impact Index Per Article: 11.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Affiliation(s)
- Irina V. Nesterova
- Department
of Chemistry, Louisiana State University, Baton Rouge, Louisiana 70803, United States
| | - Evgueni E. Nesterov
- Department
of Chemistry, Louisiana State University, Baton Rouge, Louisiana 70803, United States
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