1
|
Kotova O, O’Reilly C, Barwich ST, Mackenzie LE, Lynes AD, Savyasachi AJ, Ruether M, Pal R, Möbius ME, Gunnlaugsson T. Lanthanide luminescence from supramolecular hydrogels consisting of bio-conjugated picolinic-acid-based guanosine quadruplexes. Chem 2022. [DOI: 10.1016/j.chempr.2022.01.015] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
|
2
|
Huang Y, Wang C, Wei Q, Song Y, Chen P, Wang L, Yang X, Chen X. A sensitive aptasensor based on rolling circle amplification and G-rich ssDNA/terbium (III) luminescence enhancement for ofloxacin detection in food. Talanta 2021; 235:122783. [PMID: 34517641 DOI: 10.1016/j.talanta.2021.122783] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2021] [Revised: 05/10/2021] [Accepted: 08/02/2021] [Indexed: 11/24/2022]
Abstract
As the light-harvesting "antenna", G-rich oligonucleotides (such as the G-quadruplex) can interact with lanthanide (III) to bring a luminescent enhancement response. In this study, phenomenon of luminescent enhancement of G-triplex/terbium (III) (G3/Tb3+) and interaction between G3 and Tb3+ were first reported and characterized. Based on G3/Tb3+ luminescence, a label-free aptasensor for the detection of ofloxacin (OFL) residues in the food was developed. The OFL triggered the action of rolling circle amplification (RCA) allowed for the amplification product of G3-forming sequences in the single-stranded DNA, which promoted the conformational transition of the G3/Tb3+ complexes once the addition of Tb3+. Under the optimal conditions, the logarithmic correlation between the G3/Tb3+ luminescence intensity and the concentration of OFL was found to be linear in the range of 5-1000 pmol L-1 (R2 = 0.9949). The limit of detection was 0.18 pmol L-1 (3σ/slope). Additionally, the good recoveries of 90.19-108.89 % and the relative standard deviations values of 0.59-5.87 % were obtained in the application of the aptasensor detecting OFL in the practical samples. These results confirmed that the present aptasensor has a good analytical performance and bright prospect for detecting ofloxacin residues in food.
Collapse
Affiliation(s)
- Yukun Huang
- School of Food and Biological Engineering, Xihua University, Chengdu, 610039, China; Key Laboratory of Food Non Thermal Processing, Engineering Technology Research Center of Food Non Thermal Processing, Yibin Xihua University Research Institute, Yibin, Sichuan, 644004, China.
| | - Chong Wang
- School of Food and Biological Engineering, Xihua University, Chengdu, 610039, China
| | - Qiming Wei
- School of Food and Biological Engineering, Xihua University, Chengdu, 610039, China
| | - Yaning Song
- School of Food and Biological Engineering, Xihua University, Chengdu, 610039, China
| | - Pengfei Chen
- School of Food and Biological Engineering, Xihua University, Chengdu, 610039, China
| | - Lijun Wang
- School of Food and Biological Engineering, Xihua University, Chengdu, 610039, China
| | - Xiao Yang
- School of Food and Biological Engineering, Xihua University, Chengdu, 610039, China
| | - Xianggui Chen
- School of Food and Biological Engineering, Xihua University, Chengdu, 610039, China; Key Laboratory of Food Non Thermal Processing, Engineering Technology Research Center of Food Non Thermal Processing, Yibin Xihua University Research Institute, Yibin, Sichuan, 644004, China.
| |
Collapse
|
3
|
Fluorescent functional nucleic acid: Principles, properties and applications in bioanalyzing. Trends Analyt Chem 2021. [DOI: 10.1016/j.trac.2021.116292] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
|
4
|
Conformational rearrangements of G-quadruplex topology promoted by Cu(II) 12-MC Cu(II)PyrAcHA-4 metallacrown. Int J Biol Macromol 2019; 156:1258-1269. [PMID: 31759020 DOI: 10.1016/j.ijbiomac.2019.11.163] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2019] [Revised: 11/18/2019] [Accepted: 11/19/2019] [Indexed: 11/20/2022]
Abstract
Cu(II) 12-MCCu(II)PyrAcHA-4 metallacrown was studied by several spectroscopic techniques as an interacting ligand with G-quadruplex DNA structures. Investigations were performed on oligonucleotides bearing human telomeric and protooncogenic c-myc sequences in buffered solution mimicking ionic conditions in cellular environment. The planar square-based Cu(II) 12-MC-4 metallacrown interacts with GQ via an end-stacking mode with 1:1 stoichiometry. Circular dichroism (CD) titration revealed capability of this metallacrown to induce transformation of the GQ hybrid topology into the parallel form. Thermal melting experiment indicated higher thermal stability of both antiparallel (ΔTm = +15 °C) and parallel (ΔTm = ≥27 °C) G-quadruplexes in the presence of Cu (II) 12-MC-4. Indirect GQ FID assay let to determine high binding affinity of the Cu(II) 12-MC-4 to antiparallel 22Htel/Na+ GQ (KMC = 3.9 (±0.4) x 106 M-1). Comparing with lower binding constants previously reported for Ln (III) 15-MC-5 and Sm (III) 12-MC-4, one can conclude that the square planar geometry and the positive charge of metallacrown play an important role in MC/GQ interactions.
Collapse
|
5
|
Qiu H, Pu F, Ran X, Ren J, Qu X. A DNA-Based Label-Free Artificial Tongue for Pattern Recognition of Metal Ions. Chemistry 2017; 23:9258-9261. [DOI: 10.1002/chem.201702342] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2017] [Indexed: 12/19/2022]
Affiliation(s)
- Hao Qiu
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization; Changchun Institute of Applied Chemistry; Chinese Academy of Sciences, Changchun; Jilin 130022 P. R. China), Fax:(+86) 0431-85262625
- University of Science and Technology of China, Hefei; Anhui 230026 P. R. China
| | - Fang Pu
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization; Changchun Institute of Applied Chemistry; Chinese Academy of Sciences, Changchun; Jilin 130022 P. R. China), Fax:(+86) 0431-85262625
| | - Xiang Ran
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization; Changchun Institute of Applied Chemistry; Chinese Academy of Sciences, Changchun; Jilin 130022 P. R. China), Fax:(+86) 0431-85262625
- University of Science and Technology of China, Hefei; Anhui 230026 P. R. China
| | - Jinsong Ren
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization; Changchun Institute of Applied Chemistry; Chinese Academy of Sciences, Changchun; Jilin 130022 P. R. China), Fax:(+86) 0431-85262625
| | - Xiaogang Qu
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization; Changchun Institute of Applied Chemistry; Chinese Academy of Sciences, Changchun; Jilin 130022 P. R. China), Fax:(+86) 0431-85262625
| |
Collapse
|
6
|
Rajczak E, Pecoraro VL, Juskowiak B. Sm(iii)[12-MCGa(III)shi-4] as a luminescent probe for G-quadruplex structures. Metallomics 2017; 9:1735-1744. [DOI: 10.1039/c7mt00232g] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
The luminescent anionic metallacrown Sm12-MC-4 exhibits similarity in shape and size to the guanine tetrad and is able to form complexes with G-quadruplex assembly.
Collapse
Affiliation(s)
- Ewa Rajczak
- Faculty of Chemistry
- Adam Mickiewicz University in Poznan
- 61-614 Poznan
- Poland
| | | | - Bernard Juskowiak
- Faculty of Chemistry
- Adam Mickiewicz University in Poznan
- 61-614 Poznan
- Poland
| |
Collapse
|
7
|
Zhao C, Sun Y, Ren J, Qu X. Recent progress in lanthanide complexes for DNA sensing and targeting specific DNA structures. Inorganica Chim Acta 2016. [DOI: 10.1016/j.ica.2016.04.014] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
|
8
|
Interaction of metallacrown complexes with G-quadruplex DNA. J Inorg Biochem 2016; 155:105-14. [DOI: 10.1016/j.jinorgbio.2015.11.025] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2015] [Revised: 11/06/2015] [Accepted: 11/30/2015] [Indexed: 11/19/2022]
|
9
|
Tan H, Tang G, Ma C, Li Q. Luminescence detection of cysteine based on Ag⁺-mediated conformational change of terbium ion-promoted G-quadruplex. Anal Chim Acta 2016; 908:161-7. [PMID: 26826698 DOI: 10.1016/j.aca.2015.12.035] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2015] [Revised: 12/20/2015] [Accepted: 12/27/2015] [Indexed: 10/22/2022]
Abstract
In this work, we developed a simple and sensitive method for the detection of cysteine (Cys) by employing terbium ion (Tb(3+))-promoted G-qudraplex (G4/Tb) as a luminescent probe, which is based on Ag(+)-mediated conformational change of G4/Tb. Due to Ag(+) is able to compete with Tb(3+) to bind guanine at G4, the presence of Ag(+) can lead to the formation of G4/Tb-Ag(+) complex and disrupt the structure of G4/Tb. Meanwhile, the binding of Ag(+) with G4/Tb will also cause the alteration of the excited state of G4 and more efficient energy transfer from G4 to Tb(3+), enhancing the luminescence of G4/Tb. However, upon the addition of Cys, Ag(+) will be released from G4/Tb-Ag(+) complex because of the high affinity of Cys to Ag(+). This results in the re-formation of the conformation of G4/Tb and the decrease of the luminescence of G4/Tb. So, Ag(+)-enhanced luminescence of G4/Tb is associated with its conformational transformation. As a luminescent probe for Cys, G4/Tb not only shows excellent selectivity and sensitivity with a detection limit of 20 nM, but also possesses the features of simple preparation, easy reproducibility, and eliminating the interferences from background fluorescence. We envision that the presented strategy might provide new insight into the biosensing applications of lanthanide complex.
Collapse
Affiliation(s)
- Hongliang Tan
- Key Laboratory of Functional Small Organic Molecule, Ministry of Education, Key Laboratory of Chemical Biology, Jiangxi Province, College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang, 330022, PR China.
| | - Gonge Tang
- Key Laboratory of Functional Small Organic Molecule, Ministry of Education, Key Laboratory of Chemical Biology, Jiangxi Province, College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang, 330022, PR China
| | - Chanjiao Ma
- Key Laboratory of Functional Small Organic Molecule, Ministry of Education, Key Laboratory of Chemical Biology, Jiangxi Province, College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang, 330022, PR China
| | - Qian Li
- Key Laboratory of Functional Small Organic Molecule, Ministry of Education, Key Laboratory of Chemical Biology, Jiangxi Province, College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang, 330022, PR China
| |
Collapse
|
10
|
Largy E, Mergny JL, Gabelica V. Role of Alkali Metal Ions in G-Quadruplex Nucleic Acid Structure and Stability. Met Ions Life Sci 2016; 16:203-58. [PMID: 26860303 DOI: 10.1007/978-3-319-21756-7_7] [Citation(s) in RCA: 105] [Impact Index Per Article: 13.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
G-quadruplexes are guanine-rich nucleic acids that fold by forming successive quartets of guanines (the G-tetrads), stabilized by intra-quartet hydrogen bonds, inter-quartet stacking, and cation coordination. This specific although highly polymorphic type of secondary structure deviates significantly from the classical B-DNA duplex. G-quadruplexes are detectable in human cells and are strongly suspected to be involved in a number of biological processes at the DNA and RNA levels. The vast structural polymorphism exhibited by G-quadruplexes, together with their putative biological relevance, makes them attractive therapeutic targets compared to canonical duplex DNA. This chapter focuses on the essential and specific coordination of alkali metal cations by G-quadruplex nucleic acids, and most notably on studies highlighting cation-dependent dissimilarities in their stability, structure, formation, and interconversion. Section 1 surveys G-quadruplex structures and their interactions with alkali metal ions while Section 2 presents analytical methods used to study G-quadruplexes. The influence of alkali cations on the stability, structure, and kinetics of formation of G-quadruplex structures of quadruplexes will be discussed in Sections 3 and 4. Section 5 focuses on the cation-induced interconversion of G-quadruplex structures. In Sections 3 to 5, we will particularly emphasize the comparisons between cations, most often K(+) and Na(+) because of their prevalence in the literature and in cells.
Collapse
Affiliation(s)
- Eric Largy
- ARNA Laboratory, Université Bordeaux, IECB, 2, rue Robert Escarpit, F-33600, Pessac, France.,ARNA Laboratory, INSERM, U869, F-33000, Bordeaux, France
| | - Jean-Louis Mergny
- ARNA Laboratory, Université Bordeaux, IECB, 2, rue Robert Escarpit, F-33600, Pessac, France. .,ARNA Laboratory, INSERM, U869, F-33000, Bordeaux, France.
| | - Valérie Gabelica
- ARNA Laboratory, Université Bordeaux, IECB, 2, rue Robert Escarpit, F-33600, Pessac, France. .,ARNA Laboratory, INSERM, U869, F-33000, Bordeaux, France.
| |
Collapse
|
11
|
Guo Y, Yao W, Xie Y, Zhou X, Hu J, Pei R. Logic gates based on G-quadruplexes: principles and sensor applications. Mikrochim Acta 2015. [DOI: 10.1007/s00604-015-1633-2] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
|
12
|
Pagano G, Guida M, Tommasi F, Oral R. Health effects and toxicity mechanisms of rare earth elements-Knowledge gaps and research prospects. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2015; 115:40-8. [PMID: 25679485 DOI: 10.1016/j.ecoenv.2015.01.030] [Citation(s) in RCA: 258] [Impact Index Per Article: 28.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/16/2014] [Revised: 01/24/2015] [Accepted: 01/31/2015] [Indexed: 05/26/2023]
Abstract
In the recent decades, rare earth elements (REE) have undergone a steady spread in several industrial and medical applications, and in agriculture. Relatively scarce information has been acquired to date on REE-associated biological effects, from studies of bioaccumulation and of bioassays on animal, plant and models; a few case reports have focused on human health effects following occupational REE exposures, in the present lack of epidemiological studies of occupationally exposed groups. The literature is mostly confined to reports on few REE, namely cerium and lanthanum, whereas substantial information gaps persist on the health effects of other REE. An established action mechanism in REE-associated health effects relates to modulating oxidative stress, analogous to the recognized redox mechanisms observed for other transition elements. Adverse outcomes of REE exposures include a number of endpoints, such as growth inhibition, cytogenetic effects, and organ-specific toxicity. An apparent controversy regarding REE-associated health effects relates to opposed data pointing to either favorable or adverse effects of REE exposures. Several studies have demonstrated that REE, like a number of other xenobiotics, follow hormetic concentration-related trends, implying stimulatory or protective effects at low levels, then adverse effects at higher concentrations. Another major role for REE-associated effects should be focused on pH-dependent REE speciation and hence toxicity. Few reports have demonstrated that environmental acidification enhances REE toxicity; these data may assume particular relevance in REE-polluted acidic soils and in REE mining areas characterized by concomitant REE and acid pollution. The likely environmental threats arising from REE exposures deserve a new line of research efforts.
Collapse
Affiliation(s)
- Giovanni Pagano
- Federico II University of Naples, Environmental Hygiene, I-80126 Naples, Italy.
| | - Marco Guida
- Federico II University of Naples, Environmental Hygiene, I-80126 Naples, Italy
| | - Franca Tommasi
- "Aldo Moro" Bari University, Department o f Plant Biology, I-70124 Bari, Italy
| | - Rahime Oral
- Ege University, Faculty of Fisheries, TR-35100 Bornova, Izmir, Turkey
| |
Collapse
|
13
|
Zhang J, Wu D, Chen Q, Chen M, Xia Y, Cai S, Zhang X, Wu F, Chen J. Label-free microRNA detection based on terbium and duplex-specific nuclease assisted target recycling. Analyst 2015; 140:5082-9. [DOI: 10.1039/c5an01042j] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In this paper, we describe a novel label-free fluorescence method for microRNA-21 (miR-21) detection based on terbium (Tb3+) and duplex-specific nuclease (DSN) assisted target recycling.
Collapse
Affiliation(s)
- Jing Zhang
- The Ministry of Education Key Laboratory of Biopesticide and Chemical Biology
- and College of Life Sciences
- Fujian Agriculture and Forestry University
- Fuzhou
- China
| | - Dongzhi Wu
- Department of Pharmaceutical Analysis
- The School of Pharmacy
- Fujian Medical University
- Fuzhou
- China
| | - QiuXiang Chen
- Department of Pharmaceutical Analysis
- The School of Pharmacy
- Fujian Medical University
- Fuzhou
- China
| | - Mei Chen
- Department of Pharmaceutical Analysis
- The School of Pharmacy
- Fujian Medical University
- Fuzhou
- China
| | - Yaokun Xia
- Department of Pharmaceutical Analysis
- The School of Pharmacy
- Fujian Medical University
- Fuzhou
- China
| | - Shuxian Cai
- Department of Pharmaceutical Analysis
- The School of Pharmacy
- Fujian Medical University
- Fuzhou
- China
| | - Xi Zhang
- Department of Pharmaceutical Analysis
- The School of Pharmacy
- Fujian Medical University
- Fuzhou
- China
| | - Fang Wu
- Department of Pharmaceutical Analysis
- The School of Pharmacy
- Fujian Medical University
- Fuzhou
- China
| | - Jinghua Chen
- Department of Pharmaceutical Analysis
- The School of Pharmacy
- Fujian Medical University
- Fuzhou
- China
| |
Collapse
|
14
|
Ren J, Wang T, Wang E, Wang J. Versatile G-quadruplex-mediated strategies in label-free biosensors and logic systems. Analyst 2015; 140:2556-72. [DOI: 10.1039/c4an02282c] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
This review addresses how G-quadruplex (G4)-mediated biosensors convert the events of target recognition into a measurable physical signal. The application of label-free G4-strategies in the construction of logic systems is also discussed.
Collapse
Affiliation(s)
- Jiangtao Ren
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
| | - Tianshu Wang
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
| | - Erkang Wang
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
| | - Jin Wang
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
| |
Collapse
|
15
|
Yang W, Ruan Y, Wu W, Chen P, Xu L, Fu F. A "turn-on" and label-free fluorescent assay for the rapid detection of exonuclease III activity based on Tb(3+)-induced G-quadruplex conjugates. Anal Bioanal Chem 2014; 406:4535-40. [PMID: 24770805 DOI: 10.1007/s00216-014-7830-8] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2014] [Revised: 03/23/2014] [Accepted: 04/09/2014] [Indexed: 10/25/2022]
Abstract
A "turn-on" and label-free fluorescent assay for the specific, rapid, and sensitive detection of 3' → 5' exonuclease III activity is reported in this study. The assay is based on the Tb(3+)-promoted G-quadruplex, which lead to the enhancement of Tb(3+) fluorescence due to the energy transfer from guanines. The proposed assay is highly simple, rapid, and cost-effective, and does not require sophisticated experimental techniques such as gel-based equipment or radioactive labels. It can be used for the rapid detection of exonuclease III activity with a detection limit of 0.8 U and a RSD (n = 6) <5 %. Notably, no dye was covalently conjugated to the DNA strands, which offers the advantages of low-cost and being interference-free.
Collapse
Affiliation(s)
- WeiJuan Yang
- Key Lab of Analysis and Detection for Food Safety of Ministry of Education, Fujian Provincial Key Lab of Analysis and Detection for Food Safety, Department of Chemistry, Fuzhou University, Fuzhou, Fujian, 350108, China
| | | | | | | | | | | |
Collapse
|
16
|
Wei Y, Liu R, Wang Y, Zhao Y, Cai Z, Gao X. Hairpin oligonucleotides anchored terbium ion: a fluorescent probe to specifically detect lead(II) at sub-nM levels. Analyst 2014; 138:2302-7. [PMID: 23446487 DOI: 10.1039/c3an36795a] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
A terbium based fluorescent probe was synthesized by coordinating terbium ions with a designed oligonucleotides (5'-ATATGGGGGATAT-3', termed GH5). GH5 improved the fluorescence of terbium ions by four orders of magnitude. The fluorescence enhancement of terbium ions by different oligonucleotides sequences indicated that the polyguanine loop of the hairpin GH5 is key to enhance terbium ion emission. The quantum yield of Tb-GH5 probe was 10.5% and the probe was photo-stable. The result of conductivity titration indicated that the stoichiometry of the probe is 3.5 Tb: 1 GH5, which is confirmed by fluorescence titration. This probe had high sensitivity and specificity for the detection of lead ions. The fluorescence intensity of this probe was linear with respect to lead concentration over a range 0.3-2.1 nM (R(2) = 0.99). The limit of detection for lead ions was 0.1 nM at a signal-to-noise ratio of 3.
Collapse
Affiliation(s)
- Yueteng Wei
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety, Institute of High Energy Physics, Chinese Academy of Sciences, Beijing 100049, People's Republic of China
| | | | | | | | | | | |
Collapse
|
17
|
Zhang M, Le HN, Jiang XQ, Yin BC, Ye BC. Time-Resolved Probes Based on Guanine/Thymine-Rich DNA-Sensitized Luminescence of Terbium(III). Anal Chem 2013; 85:11665-74. [DOI: 10.1021/ac4034054] [Citation(s) in RCA: 71] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Affiliation(s)
- Min Zhang
- Lab of Biosystems and Microanalysis, State Key Laboratory of Bioreactor Engineering, East China University of Science & Technology, Meilong Road 130, Shanghai, 200237, China
| | - Huynh-Nhu Le
- Lab of Biosystems and Microanalysis, State Key Laboratory of Bioreactor Engineering, East China University of Science & Technology, Meilong Road 130, Shanghai, 200237, China
| | - Xiao-Qin Jiang
- Lab of Biosystems and Microanalysis, State Key Laboratory of Bioreactor Engineering, East China University of Science & Technology, Meilong Road 130, Shanghai, 200237, China
| | - Bin-Cheng Yin
- Lab of Biosystems and Microanalysis, State Key Laboratory of Bioreactor Engineering, East China University of Science & Technology, Meilong Road 130, Shanghai, 200237, China
| | - Bang-Ce Ye
- Lab of Biosystems and Microanalysis, State Key Laboratory of Bioreactor Engineering, East China University of Science & Technology, Meilong Road 130, Shanghai, 200237, China
| |
Collapse
|
18
|
Elahi MY, Bathaie S, Mousavi M, Hoshyar R, Ghasemi S. A new DNA-nanobiosensor based on G-quadruplex immobilized on carbon nanotubes modified glassy carbon electrode. Electrochim Acta 2012. [DOI: 10.1016/j.electacta.2012.05.015] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
|
19
|
Crouse HF, Doudt A, Zerbe C, Basu S. Detection of quadruplex DNA by gold nanoparticles. JOURNAL OF ANALYTICAL METHODS IN CHEMISTRY 2012; 2012:327603. [PMID: 22567555 PMCID: PMC3335306 DOI: 10.1155/2012/327603] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/23/2011] [Revised: 01/24/2012] [Accepted: 01/25/2012] [Indexed: 05/03/2023]
Abstract
Gold nanoparticles have been used as a probe to detect low (<10 ppb) concentrations of quadruplex DNA. These nanoparticles display a tendency to form aggregates in the presence of certain quadruplex forms, as observed via enhanced plasmon resonance light scattering (PRLS) signals. These nanoparticles showed differing degrees of interactions with different types of quadruplex and mixed sequences but no interaction with duplex DNA. Enhancement of PRLS signals greater than 50% was observed at nanomolar DNA concentration, and a lower limit of detection of 2.1 nM was established for three different quadruplex DNA sequences, including the thrombin-inhibiting single-stranded 15 mer aptamer DNA, d(GGTTGGTGTGGTTGG), and the double-stranded 12 mer DNA, d(G4T4G4). Two different sample preparation protocols were used for the PRLS experiments, and they yielded similar results.
Collapse
Affiliation(s)
- Heather F. Crouse
- Department of Chemistry, Susquehanna University, 514 University Avenue, Selinsgrove, PA 17870, USA
| | - Alex Doudt
- Department of Chemistry, Susquehanna University, 514 University Avenue, Selinsgrove, PA 17870, USA
| | - Cassie Zerbe
- Department of Chemistry, Susquehanna University, 514 University Avenue, Selinsgrove, PA 17870, USA
| | - Swarna Basu
- Department of Chemistry, Susquehanna University, 514 University Avenue, Selinsgrove, PA 17870, USA
- *Swarna Basu:
| |
Collapse
|
20
|
Visualizing the Quadruplex: From Fluorescent Ligands to Light-Up Probes. Top Curr Chem (Cham) 2012; 330:111-77. [DOI: 10.1007/128_2012_346] [Citation(s) in RCA: 106] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
|
21
|
|
22
|
Shang Q, Xiang JF, Zhang XF, Sun HX, Li L, Tang YL. Fishing potential antitumor agents from natural plant extracts pool by dialysis and G-quadruplex recognition. Talanta 2011; 85:820-3. [DOI: 10.1016/j.talanta.2011.04.011] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2011] [Revised: 03/30/2011] [Accepted: 04/05/2011] [Indexed: 12/13/2022]
|
23
|
Gray RD, Chaires JB. Linkage of cation binding and folding in human telomeric quadruplex DNA. Biophys Chem 2011; 159:205-9. [PMID: 21764207 DOI: 10.1016/j.bpc.2011.06.012] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2011] [Revised: 06/20/2011] [Accepted: 06/20/2011] [Indexed: 12/30/2022]
Abstract
Formation of DNA quadruplexes requires monovalent cation binding. To characterize the cation binding stoichiometry and linkage between binding and folding, we carried out KCl titrations of Tel22 (d[A(GGGTTA)(3)]), a model of the human telomere sequence, using a fluorescent indicator to determine [K(+)](free) and circular dichroism to assess the extent of folding. At [K(+)](free)=5 mM (sufficient for >95% folding), the apparent binding stoichiometry is 3K(+)/Tel22; at [K(+)](free)=20 mM, it increased to 8-10K(+)/Tel22. Thermodynamic analysis shows that at [K(+)](free)=5 mM, K(+) binding contributes approximately -4.9 kcal/mol for folding Tel22. The overall folding free energy is -2.4 kcal/mol, indicating that there are energetically unfavorable contributions to folding. Thus, quadruplex folding is driven almost entirely by the energy of cation binding with little or no contribution from other weak molecular interactions.
Collapse
Affiliation(s)
- Robert D Gray
- James Graham Brown Cancer Center, University of Louisville, Louisville, KY 40202, United States
| | | |
Collapse
|
24
|
Zhang J, Gao Q, Chen P, Chen J, Chen G, Fu F. A novel Tb3+-promoted G-quadruplex-hemin DNAzyme for the development of label-free visual biosensors. Biosens Bioelectron 2011; 26:4053-7. [DOI: 10.1016/j.bios.2011.03.029] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/25/2010] [Revised: 03/20/2011] [Accepted: 03/27/2011] [Indexed: 11/29/2022]
|
25
|
Lin YW, Liu CW, Chang HT. Fluorescence detection of mercury(II) and lead(II) ions using aptamer/reporter conjugates. Talanta 2011; 84:324-9. [DOI: 10.1016/j.talanta.2011.01.016] [Citation(s) in RCA: 68] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2010] [Revised: 12/21/2010] [Accepted: 01/07/2011] [Indexed: 12/19/2022]
|
26
|
An electrochemical biosensor for ultratrace terbium based on Tb3+ promoted conformational change of human telomeric G-quadruplex. Biosens Bioelectron 2009; 25:378-82. [DOI: 10.1016/j.bios.2009.07.029] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2009] [Revised: 07/23/2009] [Accepted: 07/23/2009] [Indexed: 11/20/2022]
|
27
|
Langdon WB, Upton GJG, Harrison AP. Probes containing runs of guanines provide insights into the biophysics and bioinformatics of Affymetrix GeneChips. Brief Bioinform 2009; 10:259-77. [PMID: 19359259 DOI: 10.1093/bib/bbp018] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The reliable interpretation of Affymetrix GeneChip data is a multi-faceted problem. The interplay between biophysics, bioinformatics and mining of GeneChip surveys is leading to new insights into how best to analyse the data. Many of the molecular processes occurring on the surfaces of GeneChips result from the high surface density of probes. Interactions between neighbouring adjacent probes affect their rate and strength of hybridization to targets. Competing targets may hybridize to the same probe, and targets may partially bind to more than one probe. The formation of these partial hybrids results in a number of probes not reaching thermodynamic equilibrium during hybridization. Moreover, some targets fold up, or cross-hybridize to other targets. Furthermore, probes may fold and can undergo chemical saturation. There are also sequence-dependent differences in the rates of target desorption during the washing stage. Improvements in the mappings between probe sequence and biological databases are leading to more accurate gene expression profiles. Moreover, algorithms that combine the intensities of multiple probes into single measures of expression are increasingly dependent upon models of the hybridization processes occurring on GeneChips. The large repositories of GeneChip data can be searched for systematic effects across many experiments. This data mining has led to the discovery of a family of thousands of probes, which show correlated expression across thousands of GeneChip experiments. These probes contain runs of guanines, suggesting that G-quadruplexes are able to form on GeneChips. We discuss the impact of these structures on the interpretation of data from GeneChip experiments.
Collapse
Affiliation(s)
- William B Langdon
- Department of Mathematical Sciences and Department of Biological Sciences, University of Essex, Wivenhoe Park, Colchester, Essex CO4 3SQ, UK
| | | | | |
Collapse
|
28
|
Worlinsky JL, Basu S. Detection of Quadruplex DNA by Luminescence Enhancement of Lanthanide Ions and Energy Transfer from Lanthanide Chelates. J Phys Chem B 2009; 113:865-8. [DOI: 10.1021/jp8100464] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Jill L. Worlinsky
- Department of Chemistry, Susquehanna University, 514 University Avenue, Selinsgrove, Pennsylvania 17870
| | - Swarna Basu
- Department of Chemistry, Susquehanna University, 514 University Avenue, Selinsgrove, Pennsylvania 17870
| |
Collapse
|
29
|
Rapid determination of total hardness in water using fluorescent molecular aptamer beacon. Anal Chim Acta 2008; 610:105-11. [DOI: 10.1016/j.aca.2008.01.031] [Citation(s) in RCA: 46] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2007] [Revised: 12/30/2007] [Accepted: 01/05/2008] [Indexed: 11/15/2022]
|
30
|
Wei C, Tang Q, Li C. Structural transition from the random coil to quadruplex of AG(3)(T(2)AG(3))(3) induced by Zn(2+). Biophys Chem 2007; 132:110-3. [PMID: 18031921 DOI: 10.1016/j.bpc.2007.10.013] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2007] [Revised: 10/29/2007] [Accepted: 10/30/2007] [Indexed: 10/22/2022]
Abstract
Structures of G-quadruplex DNAs can be typically stabilized by monovalent cations such as K(+), Na(+). Some divalent and trivalent cations, such as Sr(2+), Pb(2+), Tb(3+) and Eu(3+), can also induce the formation of G-quadruplex DNA. Here we show that Zn(2+) can induce the human telomeric sequence AG(3)(T(2)AG(3))(3) to fold the G-quadruplex structure by UV absorbance difference spectra and circular dichroism (CD) spectroscopy. At micromolar concentrations, the Zn(2+)-induced changes in the UV absorbance difference spectra and CD spectra are the characteristics of antiparallel G-quadruplexes although the long wavelength CD maximum is around 285 nm rather than the typical value of 295 nm. The binding stoichometry of Zn(2+) per one AG(3)(T(2)AG(3))(3) molecule is four. To our knowledge, the structural transition of human telomeric sequence induced by Zn(2+) was observed for the first time.
Collapse
Affiliation(s)
- Chunying Wei
- Key Laboratory of Chemical Biology and Molecular Engineering of Ministry of Education, Institute of Molecular Science, Shanxi University, Taiyuan China.
| | | | | |
Collapse
|