1
|
Xiong X, Yin K, Bai J, Zhu P, Fan J, Zhang X, Shi Q, Guo Y, Wang Z, Ma D, Han J. Ordered Assembly of DNA on Topological Insulator Bi 2Se 3 and Octadecylamine for a Sensitive Biosensor. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2023; 39:4466-4474. [PMID: 36929878 DOI: 10.1021/acs.langmuir.3c00146] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
Abstract
Controlling the assembly of DNA in order on a suitable electrode surface is of great significance for biosensors and disease diagnosis, but it is full of challenges. In this work, we creatively assembled DNA on the surface of octadecylamine (ODA)-modified topological insulator (Tls) Bi2Se3 and developed an electrochemical biosensor to detect biomarker DNA of coronavirus disease 2019 (COVID-19). A high-quality Bi2Se3 sheet was obtained from a single crystal synthesized in our lab. A uniform ODA layer was coated in argon by chemical vapor deposition (CVD). We observed and analyzed the assembly and mechanism of single-strand DNA (ssDNA) and double-strand DNA (dsDNA) on the Bi2Se3 surface through atomic force microscopy (AFM) and molecular dynamics (MD) simulations. The electrochemical signal revealed that the biosensor based on the DNA/ODA/Bi2Se3 electrode has a wide linear detection range from 1.0 × 10-12 to 1.0 × 10-8 M, with the limit of detection as low as 5 × 10-13 M. Bi2Se3 has robust surface states and improves the electrochemical signal-to-noise ratio, while the uniform ODA layer guides high-density ordered DNA, enhancing the sensitivity of the biosensor. Our work demonstrates that the ordered DNA/ODA/Bi2Se3 electrode surface has great application potential in the field of biosensing and disease diagnosis.
Collapse
Affiliation(s)
- Xiaolu Xiong
- Centre for Quantum Physics, Key Laboratory of Advanced Optoelectronic Quantum Architecture and Measurement (MOE), School of Physics, Beijing Institute of Technology, Beijing 100081, China
- Yangtze Delta Region Academy of Beijing Institute of Technology, Jiaxing 314000, China
| | - Kangjie Yin
- Centre for Quantum Physics, Key Laboratory of Advanced Optoelectronic Quantum Architecture and Measurement (MOE), School of Physics, Beijing Institute of Technology, Beijing 100081, China
| | - Jiangyue Bai
- Centre for Quantum Physics, Key Laboratory of Advanced Optoelectronic Quantum Architecture and Measurement (MOE), School of Physics, Beijing Institute of Technology, Beijing 100081, China
| | - Peng Zhu
- Centre for Quantum Physics, Key Laboratory of Advanced Optoelectronic Quantum Architecture and Measurement (MOE), School of Physics, Beijing Institute of Technology, Beijing 100081, China
| | - Jing Fan
- Centre for Quantum Physics, Key Laboratory of Advanced Optoelectronic Quantum Architecture and Measurement (MOE), School of Physics, Beijing Institute of Technology, Beijing 100081, China
| | - Xu Zhang
- Centre for Quantum Physics, Key Laboratory of Advanced Optoelectronic Quantum Architecture and Measurement (MOE), School of Physics, Beijing Institute of Technology, Beijing 100081, China
| | - Qingfan Shi
- Centre for Quantum Physics, Key Laboratory of Advanced Optoelectronic Quantum Architecture and Measurement (MOE), School of Physics, Beijing Institute of Technology, Beijing 100081, China
| | - Yao Guo
- Centre for Quantum Physics, Key Laboratory of Advanced Optoelectronic Quantum Architecture and Measurement (MOE), School of Physics, Beijing Institute of Technology, Beijing 100081, China
| | - Zhiwei Wang
- Centre for Quantum Physics, Key Laboratory of Advanced Optoelectronic Quantum Architecture and Measurement (MOE), School of Physics, Beijing Institute of Technology, Beijing 100081, China
| | - Dashuai Ma
- Institute for Structure and Function & Department of Physics, Chongqing University, Chongqing 400044, China
| | - Junfeng Han
- Centre for Quantum Physics, Key Laboratory of Advanced Optoelectronic Quantum Architecture and Measurement (MOE), School of Physics, Beijing Institute of Technology, Beijing 100081, China
- Yangtze Delta Region Academy of Beijing Institute of Technology, Jiaxing 314000, China
| |
Collapse
|
2
|
Brindhadevi K, Garalleh HAL, Alalawi A, Al-Sarayreh E, Pugazhendhi A. Carbon nanomaterials: Types, synthesis strategies and their application as drug delivery system for Cancer therapy. Biochem Eng J 2023. [DOI: 10.1016/j.bej.2023.108828] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
|
3
|
Xiong X, Han J, Chen Y, Li S, Xiao W, Shi Q. DNA rearrangement on the octadecylamine modified graphite surface by heating and ultrasonic treatment. NANOTECHNOLOGY 2021; 32:055601. [PMID: 33179606 DOI: 10.1088/1361-6528/abb507] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
The evolution of single-stranded DNA (ssDNA) assembly on octadecylamine (ODA) modified highly oriented pyrolytic graphite (HOPG) surface by heating and ultrasonic treatment has been studied for the first time. We have observed that DNA on the ODA coated HOPG surface underwent dramatic morphological changes as a function of heating and ultrasonic treatment. Ordered DNA firstly changed to random aggregates by heating and then changed to three-dimensional (3D) networks by ultrasonic treatment. This finding points to previously unknown factors that impact graphite-DNA interaction and opens new opportunities to control the deposition of DNA onto graphitic substrates. In this way, we built a cost-effective method to produce large-scale 3D ssDNA networks. All of these studies pave the way to understand the properties of DNA-solid interface, design novel nanomaterials, and improve the sensitivity of DNA biosensors.
Collapse
Affiliation(s)
- Xiaolu Xiong
- Key laboratory of advanced optoelectronic quantum architecture and measurement, ministry of education, School of Physics, Beijing Institute of Technology, Beijing 100081, People's Republic of China
- Micronano Centre, Beijing Key Lab of Nanophotonics & Ultrafine Optoelectronic Systems, Beijing Institute of Technology, Beijing 100081, People's Republic of China
| | - Junfeng Han
- Key laboratory of advanced optoelectronic quantum architecture and measurement, ministry of education, School of Physics, Beijing Institute of Technology, Beijing 100081, People's Republic of China
- Micronano Centre, Beijing Key Lab of Nanophotonics & Ultrafine Optoelectronic Systems, Beijing Institute of Technology, Beijing 100081, People's Republic of China
| | - Yu Chen
- Institute of High Energy Physics, CAS. 19B Yuquan Road, Shijingshan District, Beijing 100081, People's Republic of China
| | - Shanshan Li
- Department of Rheumatology, China-Japan Friendship Hospital, Beijing 100029, People's Republic of China
| | - Wende Xiao
- Key laboratory of advanced optoelectronic quantum architecture and measurement, ministry of education, School of Physics, Beijing Institute of Technology, Beijing 100081, People's Republic of China
- Micronano Centre, Beijing Key Lab of Nanophotonics & Ultrafine Optoelectronic Systems, Beijing Institute of Technology, Beijing 100081, People's Republic of China
| | - Qingfan Shi
- Key laboratory of advanced optoelectronic quantum architecture and measurement, ministry of education, School of Physics, Beijing Institute of Technology, Beijing 100081, People's Republic of China
| |
Collapse
|
4
|
Cuevas-Flores MDR, Garcia-Revilla MA, Bartolomei M. Noncovalent interactions between cisplatin and graphene prototypes. J Comput Chem 2018; 39:71-80. [PMID: 28833256 DOI: 10.1002/jcc.24920] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2017] [Revised: 07/13/2017] [Accepted: 08/06/2017] [Indexed: 01/18/2023]
Abstract
Cisplatin (CP) has been widely used as an anticancer drug for more than 30 years despite severe side effects due to its low bioavailability and poor specificity. For this reason, it is paramount to study and design novel nanomaterials to be used as vectors capable to effectively deliver the drug to the biological target. The CP square-planar geometry, together with its low water solubility, suggests that it could be possibly easily adsorbed on 2D graphene nanostructures through the interaction with the related highly conjugated π-electron system. In this work, pyrene has been first selected as the minimum approximation to the graphene plane, which allows to properly study the noncovalent interactions determining the CP adsorption. In particular, electronic structure calculations at the MP2C and DFT-SAPT levels of theory have allowed to obtain benchmark interaction energies for some limiting configurations of the CP-pyrene complex, as well as to assess the role of the different contributions to the total interaction: it has been found that the parallel configurations of the aggregate are mainly stabilized around the minimum region by dispersion, in a similar way as for complexes bonded through π-π interactions. Then, the benchmark interaction energies have been used to test corresponding estimations obtained within the less expensive DFT to validate an optimal exchange-correlation functional which includes corrections to take properly into account for the dispersion contribution. Reliable DFT interaction energies have been therefore obtained for CP adsorbed on graphene prototypes of increasing size, ranging from coronene, ovalene, and up to C150 H30 . Finally, DFT geometry optimizations and frequency calculations have also allowed a reliable estimation of the adsorption enthalpy of CP on graphene, which is found particularly favorable (about -20 kcal/mol at 298 K and 1 bar) being twice that estimated for the corresponding benzene adsorption. © 2017 Wiley Periodicals, Inc.
Collapse
Affiliation(s)
- Ma Del Refugio Cuevas-Flores
- Departamento de Química, División de Ciencias Naturales y Exactas, Universidad de Guanajuato, Noria Alta S/N, 36050, Guanajuato, México
| | - Marco Antonio Garcia-Revilla
- Departamento de Química, División de Ciencias Naturales y Exactas, Universidad de Guanajuato, Noria Alta S/N, 36050, Guanajuato, México
| | - Massimiliano Bartolomei
- Consejo Superior de Investigaciones Científicas (IFF-CSIC), Instituto de Física Fundamental, Serrano 123, 28006, Madrid, Spain
| |
Collapse
|
5
|
Ricardo KB, Xu A, Salim M, Zhou F, Liu H. Deposition of DNA Nanostructures on Highly Oriented Pyrolytic Graphite. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2017; 33:3991-3997. [PMID: 28406032 DOI: 10.1021/acs.langmuir.6b03836] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
We report the deposition of DNA origami nanostructures on highly oriented pyrolytic graphite (HOPG). The DNA origami goes through a structural rearrangement and the DNA base is exposed to interact with the graphite surface. Exposure to ambient air, which is known to result in a hydrophilic-to-hydrophobic wetting transition of HOPG, does not significantly impact the deposition yield or the shape deformation of DNA nanostructures. The deposited DNA nanostructures maintain their morphology for at least a week and promote site-selective chemical vapor deposition of SiO2. This process is potentially useful for a range of applications that include but are not limited to nanostructure fabrication, sensing, and electronic and surface engineering.
Collapse
Affiliation(s)
- Karen B Ricardo
- Department of Chemistry, University of Pittsburgh , Pittsburgh, Pennsylvania 15260, United States
| | - Anqin Xu
- Department of Chemistry, University of Pittsburgh , Pittsburgh, Pennsylvania 15260, United States
| | - Muhammad Salim
- Department of Chemistry, University of Pittsburgh , Pittsburgh, Pennsylvania 15260, United States
| | - Feng Zhou
- Department of Chemistry, University of Pittsburgh , Pittsburgh, Pennsylvania 15260, United States
| | - Haitao Liu
- Department of Chemistry, University of Pittsburgh , Pittsburgh, Pennsylvania 15260, United States
| |
Collapse
|
6
|
Zou Y, Biao L, Xu F, Liu R, Liu Z, Fu Y. Structural study on the interactions of oxaliplatin and linear DNA. SCANNING 2016; 38:880-888. [PMID: 27391259 DOI: 10.1002/sca.21337] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/11/2016] [Accepted: 06/27/2016] [Indexed: 06/06/2023]
Abstract
Damage to cellular DNA is believed to determine the cytotoxicity of oxaliplatin. However, high resolution structures formed by oxaliplatin and different linear DNA remain unclear. This study characterized, the key structures of different linear DNA in the platination process by UV absorption spectra and atomic force microscopy (AFM). Bathochromic shift and hyperchromicity in UV spectra after addition of oxaliplatin revealed that it can disrupt base stacking of DNA in the platination process. AFM results of different linear DNA indicated that, the platination process can induce DNA change from an extended conformation to the network structure with many kinks and finally to the compact particles, or toroids with increasing the incubation time. All AFM results confirmed that, platination of different linear DNA by oxaliplatin is a time depended process. The present AFM results provide, structural evidence about the interactions between oxaliplatin and different linear DNA containing multiple targets. SCANNING 38:880-888, 2016. © 2016 Wiley Periodicals, Inc.
Collapse
Affiliation(s)
- Yongpeng Zou
- Department of Cardiology, 2nd Affiliated Hospital of Harbin Medical University, Harbin, People's Republic of China
- Key Laboratory of Forest Plant Ecology, Ministry of Education, Northeast Forestry University, Harbin, People's Republic of China
| | - Linhai Biao
- Key Laboratory of Forest Plant Ecology, Ministry of Education, Northeast Forestry University, Harbin, People's Republic of China
- State Engineering Laboratory of Bio-Resource Eco-Utilization, Northeast Forestry University, Harbin, People's Republic of China
| | - Fengjie Xu
- Key Laboratory of Forest Plant Ecology, Ministry of Education, Northeast Forestry University, Harbin, People's Republic of China
- State Engineering Laboratory of Bio-Resource Eco-Utilization, Northeast Forestry University, Harbin, People's Republic of China
| | - Ruisi Liu
- Key Laboratory of Forest Plant Ecology, Ministry of Education, Northeast Forestry University, Harbin, People's Republic of China
- State Engineering Laboratory of Bio-Resource Eco-Utilization, Northeast Forestry University, Harbin, People's Republic of China
| | - Zhiguo Liu
- Key Laboratory of Forest Plant Ecology, Ministry of Education, Northeast Forestry University, Harbin, People's Republic of China
- State Engineering Laboratory of Bio-Resource Eco-Utilization, Northeast Forestry University, Harbin, People's Republic of China
| | - Yujie Fu
- Key Laboratory of Forest Plant Ecology, Ministry of Education, Northeast Forestry University, Harbin, People's Republic of China
- State Engineering Laboratory of Bio-Resource Eco-Utilization, Northeast Forestry University, Harbin, People's Republic of China
| |
Collapse
|
7
|
Graphene in therapeutics delivery: Problems, solutions and future opportunities. Eur J Pharm Biopharm 2016; 104:235-50. [DOI: 10.1016/j.ejpb.2016.04.015] [Citation(s) in RCA: 163] [Impact Index Per Article: 20.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2015] [Revised: 04/12/2016] [Accepted: 04/18/2016] [Indexed: 01/05/2023]
|
8
|
Peng X, Fu H, Liu R, Zhao L, Zu Y, Xu F, Liu Z. Adsorption of human serum albumin onto highly orientated pyrolytic graphite surface studied by atomic force microscopy. SCANNING 2015; 37:158-164. [PMID: 25684275 DOI: 10.1002/sca.21193] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/19/2014] [Revised: 12/30/2014] [Accepted: 01/09/2015] [Indexed: 06/04/2023]
Abstract
It is important to know the adsorption behavior and assembly structure of human serum albumin (HSA) molecules onto a carbonaceous substrate for further application of carbon nanomaterials in biomedical field. Individual HSA molecules and oligmers (dimer and trimer) adsorbed onto HOPG surface have been imaged by atomic force microscopy (AFM). Individual HSA molecule appeared as an ellipsoid on HOPG surface with average length of 12.6, width of 6.5, and height of 1.9 nm when they were incubated at the physiological condition (pH 7.4). HSA molecules also can form the interconnected chains, uniform network, and monolayer by tuning the initial concentrations and adsorption time. Furthermore, HSA molecules can assemble into quite different network structures and irregular chains at pH of 2, 5, and 10. This study could expand our knowledge of the interactions between protein and carbonaceous surfaces.
Collapse
Affiliation(s)
- Xiao Peng
- State Engineering Laboratory of Bio-Resource Eco-Utilization, Harbin, People's Republic of China; Engineering Research Center of Forest Bio-preparation, Ministry of Education, Northeast Forestry University, Harbin, People's Republic of China; Key Laboratory of Forest Plant Ecology of Ministry of Education, Northeast Forestry University, Harbin, People's Republic of China
| | | | | | | | | | | | | |
Collapse
|