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Jiang W, Han L, Li G, Yang Y, Shen Q, Fan B, Wang Y, Yu X, Sun Y, He S, Du H, Miao J, Wang Y, Jia L. Baits-trap chip for accurate and ultrasensitive capture of living circulating tumor cells. Acta Biomater 2023; 162:226-239. [PMID: 36940769 DOI: 10.1016/j.actbio.2023.03.019] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2022] [Revised: 02/17/2023] [Accepted: 03/13/2023] [Indexed: 03/22/2023]
Abstract
Accurate analysis of living circulating tumor cells (CTCs) plays a crucial role in cancer diagnosis and prognosis evaluation. However, it is still challenging to develop a facile method for accurate, sensitive, and broad-spectrum isolation of living CTCs. Herein, inspired by the filopodia-extending behavior and clustered surface-biomarker of living CTCs, we present a unique baits-trap chip to achieve accurate and ultrasensitive capture of living CTCs from peripheral blood. The baits-trap chip is designed with the integration of nanocage (NCage) structure and branched aptamers. The NCage structure could "trap" the extended filopodia of living CTCs and resist the adhesion of filopodia-inhibited apoptotic cells, thus realizing the accurate capture (∼95% accuracy) of living CTCs independent of complex instruments. Using an in-situ rolling circle amplification (RCA) method, branched aptamers were easily modified onto the NCage structure, and served as "baits" to enhance the multi-interactions between CTC biomarker and chips, leading to ultrasensitive (99%) and reversible cell capture performance. The baits-trap chip successfully detects living CTCs in broad-spectrum cancer patients and achieves high diagnostic sensitivity (100%) and specificity (86%) of early prostate cancer. Therefore, our baits-trap chip provides a facile, accurate, and ultrasensitive strategy for living CTC isolation in clinical. STATEMENT OF SIGNIFICANCE: A unique baits-trap chip integrated with precise nanocage structure and branched aptamers was developed for the accurate and ultrasensitive capture of living CTCs. Compared with the current CTC isolation methods that are unable to distinguish CTC viability, the nanocage structure could not only "trap" the extended-filopodia of living CTCs, but also resist the adhesion of filopodia-inhibited apoptotic cells, thus realizing the accurate capture of living CTCs. Additionally, benefiting from the "baits-trap" synergistic effects generated by aptamer modification and nanocage structure, our chip achieved ultrasensitive, reversible capture of living CTCs. Moreover, this work provided a facile strategy for living CTC isolation from the blood of patients with early-stage and advanced cancer, exhibiting high consistency with the pathological diagnosis.
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Affiliation(s)
- Wenning Jiang
- Liaoning Key Laboratory of Molecular Recognition and Imaging, School of Bioengineering, Dalian University of Technology, Dalian 116023, P. R. China
| | - Lulu Han
- Liaoning Key Laboratory of Molecular Recognition and Imaging, School of Bioengineering, Dalian University of Technology, Dalian 116023, P. R. China.
| | - Guorui Li
- Liaoning Key Laboratory of Molecular Recognition and Imaging, School of Bioengineering, Dalian University of Technology, Dalian 116023, P. R. China
| | - Ying Yang
- Liaoning Key Laboratory of Molecular Recognition and Imaging, School of Bioengineering, Dalian University of Technology, Dalian 116023, P. R. China
| | - Qidong Shen
- Liaoning Key Laboratory of Molecular Recognition and Imaging, School of Bioengineering, Dalian University of Technology, Dalian 116023, P. R. China
| | - Bo Fan
- Department of Urology, The Second Hospital Affiliated of Dalian Medical University, Dalian 116023, P. R. China
| | - Yuchao Wang
- Department of Urology, The Second Hospital Affiliated of Dalian Medical University, Dalian 116023, P. R. China
| | - Xiaomin Yu
- Department of Oncology, The Dalian Municipal Central Hospital Affiliated of Dalian University of Technology, Dalian 116033, P.R. China
| | - Yan Sun
- Department of Oncology, The Dalian Municipal Central Hospital Affiliated of Dalian University of Technology, Dalian 116033, P.R. China
| | - Shengxiu He
- Department of Oncology, The Dalian Municipal Central Hospital Affiliated of Dalian University of Technology, Dalian 116033, P.R. China
| | - Huakun Du
- Department of Oncology, The Dalian Municipal Central Hospital Affiliated of Dalian University of Technology, Dalian 116033, P.R. China
| | - Jian Miao
- Hepatobiliary Pancreatic Surgery II, The Second Hospital Affiliated of Dalian Medical University, Dalian 116023, P. R. China
| | - Yuefeng Wang
- Hepatobiliary Pancreatic Surgery II, The Second Hospital Affiliated of Dalian Medical University, Dalian 116023, P. R. China
| | - Lingyun Jia
- Liaoning Key Laboratory of Molecular Recognition and Imaging, School of Bioengineering, Dalian University of Technology, Dalian 116023, P. R. China.
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Díaz-Betancor Z, Bañuls MJ, Maquieira Á. Photoclick chemistry to create dextran-based nucleic acid microarrays. Anal Bioanal Chem 2019; 411:6745-6754. [PMID: 31482291 DOI: 10.1007/s00216-019-02050-3] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2019] [Revised: 07/22/2019] [Accepted: 07/24/2019] [Indexed: 11/29/2022]
Abstract
In the literature, there are reports of the utilization of various hydrogels to create generic platforms for protein microarray applications. Here, a novel strategy was developed to obtain high-performance microarrays. In it, a dextran hydrogel is used to covalently immobilize oligonucleotides and proteins. This method employs aqueous solutions of dextran methacrylate (Dx-MA), which is a biocompatible photopolymerizable monomer. Capture probes are immobilized inside the hydrogel via a light-induced thiol-acrylate coupling reaction at the same time as the dextran polymer is formed. Hydrogel microarrays based on this technique were prepared on different surfaces, such as a Blu-ray Disk and polycarbonate or alkene-functionalized glass slides, and these systems showed high probe-loading capabilities and good biorecognition yields. This methodology presents advantages such as a low cost, a short analysis time, a low limit of detection, and multiplexing capabilities, among others. Confocal fluorescence microscopy analysis demonstrated that in these hydrogel-based microarrays, receptor immobilization and the biorecognition event occurred within the hydrogel and not merely on the surface.
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Affiliation(s)
- Zeneida Díaz-Betancor
- IDM, Instituto Interuniversitario de Investigación de Reconocimiento Molecular y Desarrollo Tecnológico, Universitat Politècnica de València, Universitat de València, Camino de Vera s/n, 46022, Valencia, Spain
| | - María-José Bañuls
- IDM, Instituto Interuniversitario de Investigación de Reconocimiento Molecular y Desarrollo Tecnológico, Universitat Politècnica de València, Universitat de València, Camino de Vera s/n, 46022, Valencia, Spain. .,Departamento de Química, Universitat Politècnica de València, Camino de Vera s/n, 46022, Valencia, Spain.
| | - Ángel Maquieira
- IDM, Instituto Interuniversitario de Investigación de Reconocimiento Molecular y Desarrollo Tecnológico, Universitat Politècnica de València, Universitat de València, Camino de Vera s/n, 46022, Valencia, Spain.,Departamento de Química, Universitat Politècnica de València, Camino de Vera s/n, 46022, Valencia, Spain
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3
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Qi Y, Wang Y, Zhao C, Ma Y, Yang W. Highly Transparent Cyclic Olefin Copolymer Film with a Nanotextured Surface Prepared by One-Step Photografting for High-Density DNA Immobilization. ACS APPLIED MATERIALS & INTERFACES 2019; 11:28690-28698. [PMID: 31322850 DOI: 10.1021/acsami.9b09662] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Compared with conventional glass slides and two-dimensional (2D) planar microarrays, polymer-based support materials and three-dimensional (3D) surface structures have attracted increasing attention in the field of biochips because of their good processability in microfabrication and low cost in mass production, as well as their improved sensitivity and specificity for the detection of biomolecules. In the present study, UV-induced emulsion graft polymerization was carried out on a cyclic olefin copolymer (COC) surface to generate 3D nanotextures composed of loosely stacked nanoparticles with a diameter of approximately 50 nm. The introduction of a hierarchical nanostructure on a COC surface only resulted in a 5% decrease in its transparency at a wavelength of 550 nm but significantly increased the surface area, which markedly improved immobilization density and efficiency of an oligonucleotide probe compared with the functional group and polymer brush-modified substrates. The highest immobilization efficiency of the probes reached 93%, and a limit of detection of 75 pM could be obtained. The hybridization experiment demonstrated that the 3D gene chip exhibited excellent sensitivity for target DNA detection and single-nucleotide polymorphism discrimination. This one-step approach to the construction of nanotextured surfaces on the COC has promising applications in the fields of biochips and immunoassays.
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Hlongwane GN, Dodoo-Arhin D, Wamwangi D, Daramola MO, Moothi K, Iyuke SE. DNA hybridisation sensors for product authentication and tracing: State of the art and challenges. SOUTH AFRICAN JOURNAL OF CHEMICAL ENGINEERING 2019. [DOI: 10.1016/j.sajce.2018.11.002] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/27/2022] Open
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Arshavsky-Graham S, Massad-Ivanir N, Segal E, Weiss S. Porous Silicon-Based Photonic Biosensors: Current Status and Emerging Applications. Anal Chem 2018; 91:441-467. [DOI: 10.1021/acs.analchem.8b05028] [Citation(s) in RCA: 110] [Impact Index Per Article: 18.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Affiliation(s)
- Sofia Arshavsky-Graham
- Department of Biotechnology and Food Engineering, Technion − Israel Institute of Technology, Haifa 3200003, Israel
- Institute of Technical Chemistry, Leibniz Universität Hannover, Callinstrasse 5, 30167 Hanover, Germany
| | - Naama Massad-Ivanir
- Department of Biotechnology and Food Engineering, Technion − Israel Institute of Technology, Haifa 3200003, Israel
| | - Ester Segal
- Department of Biotechnology and Food Engineering, Technion − Israel Institute of Technology, Haifa 3200003, Israel
- The Russell Berrie Nanotechnology Institute, Technion − Israel Institute of Technology, Haifa 3200003, Israel
| | - Sharon Weiss
- Department of Electrical Engineering and Computer Science, Vanderbilt University, Nashville, Tennessee 37235, United States
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Zhang B, Wang Q, Wu J, Chen Y, Wang J. Detection of nucleic acids with a novel stem-loop primer rolling circle amplification technique. Biotechniques 2018; 64:69-80. [PMID: 29571284 DOI: 10.2144/btn-2017-0104] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2017] [Accepted: 01/19/2018] [Indexed: 11/23/2022] Open
Abstract
This paper presents a new rolling circle amplification (RCA) technique using stem-loop primers (SLP). The technique enables detection of target DNA by either linear or exponential amplification (SLP-lRCA and SLP-eRCA) in both liquid and solid phases. For solid-phase detection, SLP-eRCA detects nucleic acids in four steps: (1) covalently immobilize an array of capture probes (CP) on a solid support; (2) hybridize the CP array with the DNA sample; (3) incubate the CP array with an RCA reaction containing two SLPs; (4) image the CP array. SLP-eRCA detects nucleic acids in liquid phase in one step: a real-time RCA reaction containing the DNA sample and two SLPs. Both liquid- and solid-phase detection methods employ a general rolling circle and an SLP. The other SLP is specific to the target. The technique was verified by detecting synthesized oligonucleotides and six different human papillomaviruses (HPVs), both in liquid phase and on a solid surface. The technique also detected two high-risk HPVs (HPV16 and HPV18) in cervical carcinoma cells (HeLa and SiHa) and clinical samples. This study provides proof-of-concept for the new RCA technique for nucleic acid detection, which overcomes major limitations of current RCA approaches.
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Affiliation(s)
- Beibei Zhang
- State Key Laboratory of Bioelectronics, Southeast University, 210096, Nanjing, China
| | - Qiao Wang
- State Key Laboratory of Bioelectronics, Southeast University, 210096, Nanjing, China
| | - Jian Wu
- State Key Laboratory of Bioelectronics, Southeast University, 210096, Nanjing, China
| | - Yin Chen
- School of Medical Technology, Xuzhou Medical University, 221004, Xuzhou, China
| | - Jinke Wang
- State Key Laboratory of Bioelectronics, Southeast University, 210096, Nanjing, China
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7
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Krittayavathananon A, Sawangphruk M. Impedimetric Sensor of ss-HSDNA/Reduced Graphene Oxide Aerogel Electrode toward Aflatoxin B1 Detection: Effects of Redox Mediator Charges and Hydrodynamic Diffusion. Anal Chem 2017; 89:13283-13289. [PMID: 29171757 DOI: 10.1021/acs.analchem.7b03329] [Citation(s) in RCA: 37] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Abstract
Here, an impedimetric biosensor for determination and quantification of an aflatoxin B1 (AFB1) level using a reduced graphene oxide aerogel labeled with a single strand DNA (ss-HSDNA/rGOae) modified on a rotating disk electrode (RDE) is presented. Owing to the large biomolecule biding on the electrode, an electron transfer is interrupted and not easily accessible to a target molecule. To address this issue, we aim to study two effects; one considers electro-redox mediators and the other considers the hydrodynamic effect. By observing a cyclic voltammetric response from the ss-HSDNA/rGOae electrode in three different charges of the redox mediators (i.e., neutral FcCH2OH, cationic Ru(NH3)63+, and anionic Fe(CN)64-) in a phosphate buffer solution (PBS) containing AFB1, the magnitude of anodic current at 50 mV s-1 is 825, 615, and 550 mA cm-1, respectively, which is significant dominated by the charge of the redox probe. The effect of hydrodynamic diffusion of the ss-HSDNA/rGOae rotating disk electrode (RDE) toward AFB1 detection using FcCH2OH as the redox mediator was recorded by applying a range of rotating speed from 500 to 4000 rpm. Increasing rotating speed reduces the charge transfer resistance resulting in the lower detectable level for AFB1 quantification. In the case of 4000 rpm, the AFB1 can be detected with a limit of detection of 0.04 ng/mL and a linear range of 1 × 10-10 to 7 × 10-8g/mL.
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Affiliation(s)
- Atiweena Krittayavathananon
- Department of Chemical and Biomolecular Engineering, School of Energy Science and Technology, Vidyasirimedhi Institute of Science and Technology , Rayong 21210, Thailand
| | - Montree Sawangphruk
- Department of Chemical and Biomolecular Engineering, School of Energy Science and Technology, Vidyasirimedhi Institute of Science and Technology , Rayong 21210, Thailand
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Li C, Jia Z, Li P, Wen H, Lv G, Huang X. Parallel Detection of Refractive Index Changes in a Porous Silicon Microarray Based on Digital Images. SENSORS 2017; 17:s17040750. [PMID: 28368332 PMCID: PMC5421710 DOI: 10.3390/s17040750] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/18/2017] [Revised: 03/30/2017] [Accepted: 03/31/2017] [Indexed: 11/16/2022]
Abstract
A new technique for the refractive index change with high-sensitivity measurements was proposed by the digital image of porous silicon (PSi) microarray utilization in this paper. Under the irradiation of a He-Ne laser, the surface images of the PSi array cells with the microcavity structure were obtained by the digital imaging equipment, whereas the refractive index change of each array cells was detected by calculating the average gray value of the image and the refractive index change measurement sensitivity was 10-4. This technique could be utilized in the label-free and parallel detection of refraction index changes induced by a biological reaction in the microarray or the chip.
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Affiliation(s)
- Chuanxi Li
- School of Physical Science and Technology, Xinjiang University, Urumqi 830046, China.
| | - Zhenhong Jia
- College of Information Science and Engineering, Xinjiang University, Urumqi 830046, China.
| | - Peng Li
- School of Physical Science and Technology, Xinjiang University, Urumqi 830046, China.
| | - Hao Wen
- The First Affiliated Hospital of Xinjiang Medical University, Urumqi 830054, China.
| | - Guodong Lv
- The First Affiliated Hospital of Xinjiang Medical University, Urumqi 830054, China.
| | - Xiaohui Huang
- College of Information Science and Engineering, Xinjiang University, Urumqi 830046, China.
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9
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Song Y, Takahashi T, Kim S, Heaney YC, Warner J, Chen S, Heller MJ. A Programmable DNA Double-Write Material: Synergy of Photolithography and Self-Assembly Nanofabrication. ACS APPLIED MATERIALS & INTERFACES 2017; 9:22-28. [PMID: 28032747 DOI: 10.1021/acsami.6b11361] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
We demonstrate a DNA double-write process that uses UV to pattern a uniquely designed DNA write material, which produces two distinct binding identities for hybridizing two different complementary DNA sequences. The process requires no modification to the DNA by chemical reagents and allows programmed DNA self-assembly and further UV patterning in the UV exposed and nonexposed areas. Multilayered DNA patterning with hybridization of fluorescently labeled complementary DNA sequences, biotin probe/fluorescent streptavidin complexes, and DNA patterns with 500 nm line widths were all demonstrated.
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Affiliation(s)
- Youngjun Song
- Department of Electrical and Computer Engineering, ‡Department of Mechanical Engineering, §Department of Materials Science and Engineering, ∥Department of Nanoengineering, and ⊥Department of Bioengineering, University of California San Diego , La Jolla, California 92093-0448, United States
| | - Tsukasa Takahashi
- Department of Electrical and Computer Engineering, ‡Department of Mechanical Engineering, §Department of Materials Science and Engineering, ∥Department of Nanoengineering, and ⊥Department of Bioengineering, University of California San Diego , La Jolla, California 92093-0448, United States
| | - Sejung Kim
- Department of Electrical and Computer Engineering, ‡Department of Mechanical Engineering, §Department of Materials Science and Engineering, ∥Department of Nanoengineering, and ⊥Department of Bioengineering, University of California San Diego , La Jolla, California 92093-0448, United States
| | - Yvonne C Heaney
- Department of Electrical and Computer Engineering, ‡Department of Mechanical Engineering, §Department of Materials Science and Engineering, ∥Department of Nanoengineering, and ⊥Department of Bioengineering, University of California San Diego , La Jolla, California 92093-0448, United States
| | - John Warner
- Department of Electrical and Computer Engineering, ‡Department of Mechanical Engineering, §Department of Materials Science and Engineering, ∥Department of Nanoengineering, and ⊥Department of Bioengineering, University of California San Diego , La Jolla, California 92093-0448, United States
| | - Shaochen Chen
- Department of Electrical and Computer Engineering, ‡Department of Mechanical Engineering, §Department of Materials Science and Engineering, ∥Department of Nanoengineering, and ⊥Department of Bioengineering, University of California San Diego , La Jolla, California 92093-0448, United States
| | - Michael J Heller
- Department of Electrical and Computer Engineering, ‡Department of Mechanical Engineering, §Department of Materials Science and Engineering, ∥Department of Nanoengineering, and ⊥Department of Bioengineering, University of California San Diego , La Jolla, California 92093-0448, United States
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10
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Horner IJ, Kraut ND, Richardson CA, Jean B, Rook AM, Bright FV. Contact Pin-Printing onto Porous Silicon for Creating Microarrays with High Chemical Diversity. APPLIED SPECTROSCOPY 2016; 70:1662-1675. [PMID: 27329832 DOI: 10.1177/0003702816647963] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/05/2016] [Accepted: 12/29/2015] [Indexed: 06/06/2023]
Abstract
We explore the size and spatial microheterogeneity of contact pin-printed spots formed on porous silicon (pSi). Glycerol was contact printed at room temperature onto as-prepared, hydrogen-passivated pSi (ap-pSi) using 50 or 200 µm diameter solid pins. The pSi was then subjected to a strong oxidizing environment (gaseous O3) and washed to remove the glycerol masks. The glycerol-free regions were converted to oxidized pSi (ox-pSi); the glycerol-coated regions were protected from O3, but not entirely. The final array is described as circularly shaped "ap-pSi" regions on a field of ox-pSi. When comparing the areas outside and inside the glycerol-masked pSi spots, one finds dramatic differences in the Si-O-Si, SiHx (x = 1-3) and OySiHx (y, x = 1-3) levels with a spatially dependent continuum of compositions across the spot diameter. Experimental conditions could be adjusted to tune the final ap-pSi spot diameter and edge widths from 90 µm to 520 µm and 20 µm to 130 µm, respectively. The resulting ap-pSi spot diameter is explained by using molecular kinetic theory and time-dependent glycerol imbibement into the pSi within a one-dimensional Darcy's law model.
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Affiliation(s)
- Ian J Horner
- Department of Chemistry, Natural Sciences Complex, SUNY-Buffalo, USA
| | | | | | - Bernandie Jean
- Department of Chemistry and Biochemistry, Mellon Hall of Sciences, Duquesne University, USA
| | - Alyssa M Rook
- Department of Chemistry, Natural Sciences Complex, SUNY-Buffalo, USA
| | - Frank V Bright
- Department of Chemistry, Natural Sciences Complex, SUNY-Buffalo, USA
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11
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Chao J, Li Z, Li J, Peng H, Su S, Li Q, Zhu C, Zuo X, Song S, Wang L, Wang L. Hybridization chain reaction amplification for highly sensitive fluorescence detection of DNA with dextran coated microarrays. Biosens Bioelectron 2016; 81:92-96. [PMID: 26922047 DOI: 10.1016/j.bios.2016.01.093] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2015] [Revised: 01/29/2016] [Accepted: 01/30/2016] [Indexed: 12/25/2022]
Abstract
Microarrays of biomolecules hold great promise in the fields of genomics, proteomics, and clinical assays on account of their remarkably parallel and high-throughput assay capability. However, the fluorescence detection used in most conventional DNA microarrays is still limited by sensitivity. In this study, we have demonstrated a novel universal and highly sensitive platform for fluorescent detection of sequence specific DNA at the femtomolar level by combining dextran-coated microarrays with hybridization chain reaction (HCR) signal amplification. Three-dimensional dextran matrix was covalently coated on glass surface as the scaffold to immobilize DNA recognition probes to increase the surface binding capacity and accessibility. DNA nanowire tentacles were formed on the matrix surface for efficient signal amplification by capturing multiple fluorescent molecules in a highly ordered way. By quantifying microscopic fluorescent signals, the synergetic effects of dextran and HCR greatly improved sensitivity of DNA microarrays, with a detection limit of 10fM (1×10(5) molecules). This detection assay could recognize one-base mismatch with fluorescence signals dropped down to ~20%. This cost-effective microarray platform also worked well with samples in serum and thus shows great potential for clinical diagnosis.
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Affiliation(s)
- Jie Chao
- Key Laboratory for Organic Electronics & Information Displays (KLOEID), Institute of Advanced Materials (IAM), and School of Materials Science and Engineering, Nanjing University of Posts & Telecommunications, 9 Wenyuan Road, Nanjing 210046, China
| | - Zhenhua Li
- Division of Physical Biology & Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, 2019 Jialuo Road, Shanghai 201800, China
| | - Jing Li
- Pulmonary Medcine Department, Zhongshan Hospital, 180 Fenglin Road, Shanghai 200032, China
| | - Hongzhen Peng
- Division of Physical Biology & Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, 2019 Jialuo Road, Shanghai 201800, China
| | - Shao Su
- Key Laboratory for Organic Electronics & Information Displays (KLOEID), Institute of Advanced Materials (IAM), and School of Materials Science and Engineering, Nanjing University of Posts & Telecommunications, 9 Wenyuan Road, Nanjing 210046, China
| | - Qian Li
- Division of Physical Biology & Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, 2019 Jialuo Road, Shanghai 201800, China
| | - Changfeng Zhu
- Pulmonary Medcine Department, Zhongshan Hospital, 180 Fenglin Road, Shanghai 200032, China
| | - Xiaolei Zuo
- Division of Physical Biology & Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, 2019 Jialuo Road, Shanghai 201800, China
| | - Shiping Song
- Division of Physical Biology & Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, 2019 Jialuo Road, Shanghai 201800, China
| | - Lianhui Wang
- Key Laboratory for Organic Electronics & Information Displays (KLOEID), Institute of Advanced Materials (IAM), and School of Materials Science and Engineering, Nanjing University of Posts & Telecommunications, 9 Wenyuan Road, Nanjing 210046, China
| | - Lihua Wang
- Division of Physical Biology & Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, 2019 Jialuo Road, Shanghai 201800, China.
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12
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Bilgic T, Klok HA. Oligonucleotide Immobilization and Hybridization on Aldehyde-Functionalized Poly(2-hydroxyethyl methacrylate) Brushes. Biomacromolecules 2015; 16:3657-65. [PMID: 26441148 DOI: 10.1021/acs.biomac.5b01116] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Abstract
DNA biosensing requires high oligonucleotide binding capacity interface chemistries that can be tuned to maximize probe presentation as well as hybridization efficiency. This contribution investigates the feasibility of aldehyde-functionalized poly(2-hydroxyethyl methacrylate) (PHEMA) brush-based interfaces for oligonucleotide binding and hybridization. These polymer brushes, which allow covalent immobilization of oligonucleotides, are prepared by surface-initiated atom transfer radical polymerization (SI-ATRP) of HEMA followed by a postpolymerization oxidation step to generate side chain aldehyde groups. A series of polymer brushes covering a range of film thicknesses and grafting densities was investigated with regard to their oligonucleotide binding capacity as well as their ability to support oligonucleotide hybridization. Densely grafted brushes were found to have probe oligonucleotide binding capacities of up to ∼30 pmol/cm(2). Increasing the thickness of these densely grafted brush films, however, resulted in a decrease in the oligonucleotide binding capacity. Less densely grafted brushes possess binding capacities of ∼10 pmol/cm(2), which did not significantly depend on film thickness. The oligonucleotide hybridization efficiencies, however, were highest (93%) on those brushes that present the lowest surface concentration of the probe oligonucleotide. These results highlight the importance of optimizing the probe oligonucleotide surface concentration and binding interface chemistry. The versatility and tunability of the PHEMA-based brushes presented herein makes these films a very attractive platform for the immobilization and hybridization of oligonucleotides.
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Affiliation(s)
- Tugba Bilgic
- Institut des Matériaux and Institut des Sciences et Ingénierie Chimiques, Laboratoire des Polymères, Ecole Polytechnique Fédérale de Lausanne (EPFL) , Bâtiment MXD, Station 12, CH-1015 Lausanne, Switzerland
| | - Harm-Anton Klok
- Institut des Matériaux and Institut des Sciences et Ingénierie Chimiques, Laboratoire des Polymères, Ecole Polytechnique Fédérale de Lausanne (EPFL) , Bâtiment MXD, Station 12, CH-1015 Lausanne, Switzerland
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13
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Xu Y, Yan H, Zhang Y, Jiang K, Lu Y, Ren Y, Wang H, Wang S, Xing W. A fully sealed plastic chip for multiplex PCR and its application in bacteria identification. LAB ON A CHIP 2015; 15:2826-2834. [PMID: 26016439 DOI: 10.1039/c5lc00244c] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Multiplex PCR is an effective tool for simultaneous multiple target detection but is limited by the intrinsic interference and competition among primer pairs when it is performed in one reaction tube. Dividing a multiplex PCR into many single PCRs is a simple strategy to overcome this issue. Here, we constructed a plastic, easy-to-use, fully sealed multiplex PCR chip based on reversible centrifugation for the simultaneous detection of 63 target DNA sequences. The structure of the chip is quite simple, which contains sine-shaped infusing channels and a number of reaction chambers connecting to one side of these channels. Primer pairs for multiplex PCR were sequentially preloaded in the different reaction chambers, and the chip was enclosed with PCR-compatible adhesive tape. For usage, the PCR master mix containing a DNA template is pipetted into the infusing channels and centrifuged into the reaction chambers, leaving the infusing channels filled with air to avoid cross-contamination of the different chambers. Then, the chip is sealed and placed on a flat thermal cycler for PCR. Finally, amplification products can be detected in situ using a fluorescence scanner or recovered by reverse centrifugation for further analyses. Therefore, our chip possesses two functions: 1) it can be used for multi-target detection based on end-point in situ fluorescence detection; and 2) it can work as a sample preparation unit for analyses that need multiplex PCR such as hybridization and target sequencing. The performance of this chip was carefully examined and further illustrated in the identification of 8 pathogenic bacterial genomic DNA samples and 13 drug-resistance genes. Due to simplicity of its structure and operation, accuracy and generality, high-throughput capacity, and versatile functions (i.e., for in situ detection and sample preparation), our multiplex PCR chip has great potential in clinical diagnostics and nucleic acid-based point-of-care testing.
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Affiliation(s)
- Youchun Xu
- School of Medicine, Tsinghua University, Beijing 100084, China.
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14
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Yan Q, Zheng HN, Jiang C, Li K, Xiao SJ. EDC/NHS activation mechanism of polymethacrylic acid: anhydride versus NHS-ester. RSC Adv 2015. [DOI: 10.1039/c5ra13844b] [Citation(s) in RCA: 43] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023] Open
Abstract
Both stable intermediates of anhydride and NHS-ester were observed after EDC/NHS activation of PMAA, where NHS-ester waxes, while anhydride wanes complementarily with increasing fragmentation degree of PMAA blocks in PMAA-associated polymer blends.
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Affiliation(s)
- Qin Yan
- State Key Laboratory of Coordination Chemistry
- School of Chemistry and Chemical Engineering
- Nanjing University
- Nanjing 210093
- China
| | - Hong-Ning Zheng
- State Key Laboratory of Coordination Chemistry
- School of Chemistry and Chemical Engineering
- Nanjing University
- Nanjing 210093
- China
| | - Chuan Jiang
- State Key Laboratory of Coordination Chemistry
- School of Chemistry and Chemical Engineering
- Nanjing University
- Nanjing 210093
- China
| | - Kun Li
- State Key Laboratory of Coordination Chemistry
- School of Chemistry and Chemical Engineering
- Nanjing University
- Nanjing 210093
- China
| | - Shou-Jun Xiao
- State Key Laboratory of Coordination Chemistry
- School of Chemistry and Chemical Engineering
- Nanjing University
- Nanjing 210093
- China
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15
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16
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Abstract
AbstractIn addition to its role as a carrier of genetic information, DNA has been recognized as a construction material for the assembly of different objects and structural arrangements with nanoscale features. As a result of DNA’s self-recognition properties (based on the specific base-pairing of G-C and T-A), monolayer films of nucleic acids on solid supports have attracted an escalating attentions. Recently, numerous novel materials based on two-dimensional (2D) and three-dimensional (3D) DNA structures have been reported, which extends their utility to a large number of appliations. This review paper intends to be a new and comprehensive overview of recent strategies to site-specifically immobilized DNA on various materials, including carbonaceous substances, gold, and silica substrate, emphasizing the applications of site-specific DNA nanostructure-based devices for diagnostic, bioanalytical, food safety and environmental monitoring. Additionally, an up-to-date perspective is proposed at the end of this review.
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17
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Direct patterning of poly(acrylic acid) on polymer surfaces by ion beam lithography for the controlled adhesion of mammalian cells. Biotechnol Lett 2014; 36:2135-42. [DOI: 10.1007/s10529-014-1569-3] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2014] [Accepted: 05/23/2014] [Indexed: 12/23/2022]
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18
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Escorihuela J, Bañuls MJ, Grijalvo S, Eritja R, Puchades R, Maquieira Á. Direct Covalent Attachment of DNA Microarrays by Rapid Thiol–Ene “Click” Chemistry. Bioconjug Chem 2014; 25:618-27. [DOI: 10.1021/bc500033d] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
Affiliation(s)
- Jorge Escorihuela
- Centro
de Reconocimiento Molecular y Desarrollo Tecnológico, Departamento
de Química, Universitat Politècnica de València, Camino
de Vera s/n, 46022 Valencia, Spain
| | - María-José Bañuls
- Centro
de Reconocimiento Molecular y Desarrollo Tecnológico, Departamento
de Química, Universitat Politècnica de València, Camino
de Vera s/n, 46022 Valencia, Spain
| | - Santiago Grijalvo
- Networking Center on Bioengineering, Biomaterials and Biomedicine (CIBER-BBN) and Institute for Advanced Chemistry of Catalonia (IQAC−CSIC), Chemical and Biomolecular Nanotechnology Department, Jordi Girona 18-26, 08034 Barcelona, Spain
| | - Ramón Eritja
- Networking Center on Bioengineering, Biomaterials and Biomedicine (CIBER-BBN) and Institute for Advanced Chemistry of Catalonia (IQAC−CSIC), Chemical and Biomolecular Nanotechnology Department, Jordi Girona 18-26, 08034 Barcelona, Spain
| | - Rosa Puchades
- Centro
de Reconocimiento Molecular y Desarrollo Tecnológico, Departamento
de Química, Universitat Politècnica de València, Camino
de Vera s/n, 46022 Valencia, Spain
| | - Ángel Maquieira
- Centro
de Reconocimiento Molecular y Desarrollo Tecnológico, Departamento
de Química, Universitat Politècnica de València, Camino
de Vera s/n, 46022 Valencia, Spain
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19
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Xiao M, Han H, Xiao S. High hydrosilylation efficiency of porous silicon SiHx species produced by Pt-assisted chemical etching for biochip fabrication. Sci China Chem 2013. [DOI: 10.1007/s11426-013-4849-1] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
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