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Zhao J, Zhu J, Wang W, Qian Z, Fan S. CRISPR/Cas12a cleavage triggered nanoflower for fluorescence-free and target amplification-free biosensing of ctDNA in the terahertz frequencies. BIOMEDICAL OPTICS EXPRESS 2024; 15:5400-5410. [PMID: 39296404 PMCID: PMC11407253 DOI: 10.1364/boe.534511] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/01/2024] [Revised: 08/13/2024] [Accepted: 08/13/2024] [Indexed: 09/21/2024]
Abstract
The detection of tumor biomarkers in liquid biopsies requires high sensitivity and low-cost biosensing strategies. However, few traditional techniques can satisfy the requirements of target amplification-free and fluorescence-free at the same time. In this study, we have proposed a novel strategy for ctDNA detection with the combination of terahertz spectroscopy and the CRISPR/Cas12 system. The CRISPR/Cas12a system is activated by the target ctDNA, resulting in a series of reactions leading to the formation of an Au-Fe complex. This complex is easily extracted with magnets and when dropped onto the terahertz metamaterial sensor, it can enhance the frequency shift, providing sensitive and selective sensing of the target ctDNA. Results show that the proposed terahertz biosensor exhibits a relatively low detection limit of 0.8 fM and a good selectivity over interference species. This detection limit is improved by three orders of magnitude compared with traditional biosensing methods using terahertz waves. Furthermore, a ctDNA concentration of 100 fM has been successfully detected in bovine serum (corresponding to 50 fM in the final reaction system) without amplification.
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Affiliation(s)
- Jingjing Zhao
- Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Physics and Optoelectronic Engineering, Shenzhen University , Shenzhen 518060, China
| | - Jianfang Zhu
- Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Physics and Optoelectronic Engineering, Shenzhen University , Shenzhen 518060, China
| | - Weiqiang Wang
- Institute of Health Sciences and Technology, Institutes of Material Science and Information Technology, Anhui University, Hefei 230601, China
| | - Zhengfang Qian
- Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Physics and Optoelectronic Engineering, Shenzhen University , Shenzhen 518060, China
| | - Shuting Fan
- Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Physics and Optoelectronic Engineering, Shenzhen University , Shenzhen 518060, China
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2
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Yu W, Li J, Huang G, He Z, Tian H, Xie F, Jin W, Huang Q, Fu W, Yang X. Rapid and sensitive detection of Staphylococcus aureus using a THz metamaterial biosensor based on aptamer-functionalized Fe 3O 4@Au nanocomposites. Talanta 2024; 272:125760. [PMID: 38364563 DOI: 10.1016/j.talanta.2024.125760] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2023] [Revised: 01/19/2024] [Accepted: 02/06/2024] [Indexed: 02/18/2024]
Abstract
Staphylococcus aureus (S. aureus) poses a serious threat to global public health, necessitating the establishment of rapid and simple tools for its accurate identification. Herein, we developed a terahertz (THz) metamaterial biosensor based on aptamer-functionalized Fe3O4@Au nanocomposites for quantitative S. aureus assays in different clinical samples. Fe3O4@Au@Cys@Apt has the dual advantages of magnetism and a high refractive index in the THz range and was used to rapidly separate and enrich target bacteria in a complex environmental solution. Furthermore, conjugation to the nanocomposites significantly increased the resonance frequency shift of the THz metamaterial after target loading. Our results showed that the shifts in the metamaterial resonance frequency were linearly related to S. aureus concentrations ranging from 1.0 × 103 to 1.0 × 107 CFU/mL, with a detection limit of 4.78 × 102 CFU/mL. The biosensor was further applied to S. aureus detection in spiked human urine and blood with satisfactory recoveries (82.4-109.6%). Our approach also demonstrated strong concordance with traditional plate counting (R2 = 0.99306) while significantly lowering the analysis time from 24 h to <1 h. In conclusion, the proposed biosensor can not only perform culture-free and extraction-free detection of target bacteria but can also be easily extended to the determination of other pathogenic bacteria, rendering it suitable for various bacteria-related disease diagnoses.
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Affiliation(s)
- Wenjing Yu
- Department of Laboratory Medicine, Southwest Hospital, Army Medical University (Third Military Medical University), Chongqing, 400038, China
| | - Jining Li
- Institute of Laser and Opto-electronics, School of Precision Instrument and Opto-electronics Engineering, Tianjin University, Tianjin, 300072, China
| | - Guorong Huang
- Department of Laboratory Medicine, Southwest Hospital, Army Medical University (Third Military Medical University), Chongqing, 400038, China
| | - Zhe He
- Department of Laboratory Medicine, Southwest Hospital, Army Medical University (Third Military Medical University), Chongqing, 400038, China
| | - Huiyan Tian
- Department of Laboratory Medicine, Southwest Hospital, Army Medical University (Third Military Medical University), Chongqing, 400038, China
| | - Fengxin Xie
- Department of Laboratory Medicine, Southwest Hospital, Army Medical University (Third Military Medical University), Chongqing, 400038, China
| | - Weidong Jin
- Department of Laboratory Medicine, Southwest Hospital, Army Medical University (Third Military Medical University), Chongqing, 400038, China
| | - Qing Huang
- Department of Laboratory Medicine, Daping Hospital, Army Medical University (Third Military Medical University), Chongqing, 400042, China.
| | - Weiling Fu
- Department of Laboratory Medicine, Southwest Hospital, Army Medical University (Third Military Medical University), Chongqing, 400038, China.
| | - Xiang Yang
- Department of Laboratory Medicine, Southwest Hospital, Army Medical University (Third Military Medical University), Chongqing, 400038, China.
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3
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Yan X, Liang L, Zhang R, Wu G, Yao H, Li Z, Wang Z, Hu X, Li Y, Zhang Y. Fano resonance-integrated metal nanoparticles' enhanced sensing for pesticide detection. OPTICS EXPRESS 2024; 32:1295-1304. [PMID: 38297684 DOI: 10.1364/oe.507681] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/06/2023] [Accepted: 12/12/2023] [Indexed: 02/02/2024]
Abstract
The combined application of metasurface and terahertz (THz) time-domain spectroscopy techniques has received considerable attention in the fields of sensing and detection. However, to detect trace samples, the THz wave must still be enhanced locally using certain methods to improve the detection sensitivity. In this study, we proposed and experimentally demonstrated a fano resonance metasurface-based silver nanoparticles (FaMs-AgNPs) sensor. AgNPs can enhance the sensitivity of the sensor by generating charge accumulation and inducing localized electric field enhancement through the tip effect, thereby enhancing the interaction between the THz waves and analytes. We investigated the effects of four different contents of AgNPs, 10 µl, 20 µl, 30 µl and 40 µl, on the detection of acetamiprid. At 30 µl of AgNPs, the amplitude change of the FaMs-AgNPs sensor was more pronounced and the sensitivity was higher, which could detect acetamiprid solutions as low as 100 pg/ml. The FaMs-AgNPs sensor has the advantages of a simple structure, easy processing, and excellent sensing performance, and has a great potential application value in the field of THz trace detection and other fields.
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Bi H, You R, Bian X, Li P, Zhao X, You Z. A magnetic control enrichment technique combined with terahertz metamaterial biosensor for detecting SARS-CoV-2 spike protein. Biosens Bioelectron 2024; 243:115763. [PMID: 37890389 DOI: 10.1016/j.bios.2023.115763] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2023] [Revised: 10/12/2023] [Accepted: 10/15/2023] [Indexed: 10/29/2023]
Abstract
The highly contagious SARS-CoV-2 virus, responsible for the COVID-19 pandemic continues to pose significant challenges to public health. Developing new methods for early detection and diagnosis is crucial in combatting the disease, mitigating its impact and be prepared for future challenges in pandemic diseases. In this study, we propose a terahertz (THz) biosensing technology that capitalizes on the properties of THz metamaterial in conjunction with magnetic nanoparticles. This approach can accurately identify the SARS-CoV-2 spike protein by pinpointing its location on the THz resonance sources grooved surface. The magnetic nanoparticles are employed to selectively bind with target molecules, and migrate towards the THz metamaterial unit cell when exposed to an applied magnetic field. The presence of target molecules in to the metamaterial variation in the frequency, amplitude, and phase of the resonance response, thus enabling swift, accurate and sensitive detection. To assess the effectiveness of the proposed technique, we have conducted a comparative analysis between real samples on platforms controlled by magnetic manipulation and those without the control. It was confirmed that the proposed THz sensing method demonstrated a linear detection range spanning from 0.005 ng mL-1 to 1000 ng mL-1 with a detection limit of 0.002 ng mL-1. Furthermore, it exhibited a frequency shift of 24 GHz and a stability index of 95%. The THz biosensing technique may pave a new avenue in identifying and preempting the spread of potential pandemic diseases.
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Affiliation(s)
- Hao Bi
- Beijing Laboratory of Biomedical Detection Technology and Instrument, Beijing Information Science & Technology University, Beijing, 10029, PR China; School of Instrument Science and Opto-Electronics Engineering, Beijing Information Science and Technology University, Beijing, 100029, PR China
| | - Rui You
- Beijing Laboratory of Biomedical Detection Technology and Instrument, Beijing Information Science & Technology University, Beijing, 10029, PR China; School of Instrument Science and Opto-Electronics Engineering, Beijing Information Science and Technology University, Beijing, 100029, PR China.
| | - Xiaomeng Bian
- Beijing Laboratory of Biomedical Detection Technology and Instrument, Beijing Information Science & Technology University, Beijing, 10029, PR China; School of Instrument Science and Opto-Electronics Engineering, Beijing Information Science and Technology University, Beijing, 100029, PR China
| | - Peng Li
- State Key Laboratory of Precision Measurement Technology and Instruments, Department of Precision Instruments, Tsinghua University, Beijing, 100084, PR China; Key Laboratory of Smart Microsystem, Ministry of Education, Tsinghua University, Beijing, 100084, PR China; Beijing Advanced Innovation Center for Integrated Circuits, Beijing, 100084, PR China.
| | - Xiaoguang Zhao
- State Key Laboratory of Precision Measurement Technology and Instruments, Department of Precision Instruments, Tsinghua University, Beijing, 100084, PR China; Key Laboratory of Smart Microsystem, Ministry of Education, Tsinghua University, Beijing, 100084, PR China; Beijing Advanced Innovation Center for Integrated Circuits, Beijing, 100084, PR China.
| | - Zheng You
- State Key Laboratory of Precision Measurement Technology and Instruments, Department of Precision Instruments, Tsinghua University, Beijing, 100084, PR China; Key Laboratory of Smart Microsystem, Ministry of Education, Tsinghua University, Beijing, 100084, PR China; Beijing Advanced Innovation Center for Integrated Circuits, Beijing, 100084, PR China
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Bi H, Yang M, You R. Advances in terahertz metasurface graphene for biosensing and application. DISCOVER NANO 2023; 18:63. [PMID: 37091985 PMCID: PMC10105365 DOI: 10.1186/s11671-023-03814-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/17/2022] [Accepted: 02/23/2023] [Indexed: 04/25/2023]
Abstract
Based on the extraordinary electromagnetic properties of terahertz waves, such as broadband, low energy, high permeability, and biometric fingerprint spectra, terahertz sensors show great application prospects in the biochemical field. However, the sensitivity of terahertz sensing technology is increasingly required by modern sensing demands. With the development of terahertz technology and functional materials, graphene-based terahertz metasurface sensors with the advantages of high sensitivity, fingerprint identification, nondestructive and anti-interference are gradually gaining attention. In addition to providing ideas for terahertz biosensors, these devices have attracted in-depth research and development by scientists. An overview of graphene-based terahertz metasurfaces and their applications in the detection of biochemical molecules is presented. This includes sensor mechanism research, graphene metasurface index evaluation, protein and nucleic acid sensors, and other chemical molecule sensing. A comparative analysis of graphene, nanomaterials, silicon, and metals to develop material-integrated metasurfaces. Furthermore, a brief summary of the main performance results of this class of devices is presented, along with suggestions for improvements to the existing shortcoming.
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Affiliation(s)
- Hao Bi
- Beijing Key Laboratory of Optoelectronic Measurement Technology, Beijing Information Science and Technology University, Beijing, China
- Beijing Advanced Innovation Center for Integrated Circuits, 100084, Beijing, China
| | - Maosheng Yang
- School of Electrical and Optoelectronic Engineering, West Anhui University, Lu’an, 237012 China
| | - Rui You
- Beijing Key Laboratory of Optoelectronic Measurement Technology, Beijing Information Science and Technology University, Beijing, China
- Beijing Laboratory of Biomedical Detection Technology and Instrument, Beijing Information Science and Technology University, Beijing, China
- Beijing Advanced Innovation Center for Integrated Circuits, 100084, Beijing, China
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Gennari F, Pagano M, Toncelli A, Lisanti MT, Paoletti R, Roversi PF, Tredicucci A, Giaccone M. Terahertz imaging for non-invasive classification of healthy and cimiciato-infected hazelnuts. Heliyon 2023; 9:e19891. [PMID: 37809509 PMCID: PMC10559270 DOI: 10.1016/j.heliyon.2023.e19891] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2023] [Revised: 09/04/2023] [Accepted: 09/05/2023] [Indexed: 10/10/2023] Open
Abstract
The development of new non-invasive approaches able to recognize defective food is currently a lively field of research. In particular, a simple and non-destructive method able to recognize defective hazelnuts, such as cimiciato-infected ones, in real-time is still missing. This study has been designed to detect the presence of such damaged hazelnuts. To this aim, a measurement setup based on terahertz (THz) radiation has been developed. Images of a sample of 150 hazelnuts have been acquired in the low THz range by a compact and portable active imaging system equipped with a 0.14 THz source and identified as Healthy Hazelnuts (HH) or Cimiciato Hazelnut (CH) after visual inspection. All images have been analyzed to find the average transmission of the THz radiation within the sample area. The differences in the distribution of the two populations have been used to set up a classification scheme aimed at the discrimination between healthy and injured samples. The performance of the classification scheme has been assessed through the use of the confusion matrix on 50 samples. The False Positive Rate (FPR) and True Negative Rate (TNR) are 0% and 100%, respectively. On the other hand, the True Positive Rate (TPR) and False Negative Rate (FNR) are 75% and 25%, respectively. These results are relevant from the perspective of the development of a simple, automatic, real-time method for the discrimination of cimiciato-infected hazelnuts in the processing industry.
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Affiliation(s)
- Fulvia Gennari
- Dipartimento di Fisica “E. Fermi”, Università di Pisa, Largo B. Pontecorvo 3, 56127, Pisa, Italy
| | - Mario Pagano
- Institute of Research on Terrestrial Ecosystems (IRET), National Research Council (CNR), Via Madonna del Piano 10, 50019, Sesto Fiorentino, Italy
| | - Alessandra Toncelli
- Dipartimento di Fisica “E. Fermi”, Università di Pisa, Largo B. Pontecorvo 3, 56127, Pisa, Italy
- Centro per l’Integrazione della Strumentazione dell’Università di Pisa (CISUP), Lungarno Pacinotti 43/44, 56126, Pisa, Italy
- Istituto Nazionale di Fisica Nucleare, Sezione di Pisa, Largo B. Pontecorvo 3, 56127, Pisa, Italy
- Istituto Nanoscienze – CNR, Piazza S. Silvestro 12, 56127, Pisa, Italy
| | - Maria Tiziana Lisanti
- Università degli Studi di Napoli Federico II, Dipartimento di Agraria, Sezione di Scienze della Vigna e del Vino, viale Italia 60, 83100, Avellino, Italy
| | - Riccardo Paoletti
- Istituto Nazionale di Fisica Nucleare, Sezione di Pisa, Largo B. Pontecorvo 3, 56127, Pisa, Italy
- Dipartimento di Scienze Fisiche, della Terra e dell’Ambiente, Sezione di Fisica, Università di Siena, via Roma 56, 53100, Siena, Italy
| | - Pio Federico Roversi
- CREA, Research Centre for Plant Protection and Certification, 50125, Firenze, Italy
| | - Alessandro Tredicucci
- Dipartimento di Fisica “E. Fermi”, Università di Pisa, Largo B. Pontecorvo 3, 56127, Pisa, Italy
- Centro per l’Integrazione della Strumentazione dell’Università di Pisa (CISUP), Lungarno Pacinotti 43/44, 56126, Pisa, Italy
- Istituto Nanoscienze – CNR, Piazza S. Silvestro 12, 56127, Pisa, Italy
| | - Matteo Giaccone
- Institute for Mediterranean Agricultural and Forestry Systems, National Research Council, 80055 P.le Enrico, Fermi 1 - Loc. Porto del Granatello, 80055, Portici, Naples, Italy
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Zhan X, Liu Y, Chen Z, Luo J, Yang S, Yang X. Revolutionary approaches for cancer diagnosis by terahertz-based spectroscopy and imaging. Talanta 2023; 259:124483. [PMID: 37019007 DOI: 10.1016/j.talanta.2023.124483] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2022] [Revised: 02/23/2023] [Accepted: 03/22/2023] [Indexed: 03/31/2023]
Abstract
Most tumors are easily missed and misdiagnosed due to the lack of specific clinical signs and symptoms in the early stage. Thus, an accurate, rapid and reliable early tumor detection method is highly desirable. The application of terahertz (THz) spectroscopy and imaging in biomedicine has made remarkable progress in the past two decades, which addresses the shortcomings of existing technologies and provides an alternative for early tumor diagnosis. Although issues such as size mismatch and strong absorption of THz waves by water have set hurdles for cancer diagnosis by THz technology, innovative materials and biosensors in recent years have led to possibilities for new THz biosensing and imaging methods. In this article, we reviewed the issues that need to be solved before THz technology is used for tumor-related biological sample detection and clinical auxiliary diagnosis. We focused on the recent research progress of THz technology, with an emphasis on biosensing and imaging. Finally, the application of THz spectroscopy and imaging for tumor diagnosis in clinical practice and the main challenges in this process were also mentioned. Collectively, THz-based spectroscopy and imaging reviewed here is envisioned as a cutting-edge approach for cancer diagnosis.
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Affiliation(s)
- Xinyu Zhan
- Department of Laboratory Medicine, Southwest Hospital, Army Medical University (Third Military Medical University), Chongqing, 400038, China
| | - Yu Liu
- Department of Gastroenterology, Chongqing Hospital of Traditional Chinese Medicine, Chongqing, 400037, China
| | - Zhiguo Chen
- Gastroenterology Department, Southwest Hospital, Army Medical University (Third Military Medical University), Chongqing, 400038, China
| | - Jie Luo
- Department of Laboratory Medicine, Southwest Hospital, Army Medical University (Third Military Medical University), Chongqing, 400038, China
| | - Sha Yang
- Department of Laboratory Medicine, Southwest Hospital, Army Medical University (Third Military Medical University), Chongqing, 400038, China.
| | - Xiang Yang
- Department of Laboratory Medicine, Southwest Hospital, Army Medical University (Third Military Medical University), Chongqing, 400038, China.
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Zheng S, Yang Q, Yang H, Zhang Y, Guo W, Zhang W. An ultrasensitive and specific ratiometric electrochemical biosensor based on SRCA-CRISPR/Cas12a system for detection of Salmonella in food. Food Control 2022. [DOI: 10.1016/j.foodcont.2022.109528] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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Yin C, Yuan N, Zhang Y, Guo W, Liu J, Yang Q, Zhang W. Electrochemical Biosensor Based on Single Primer Isothermal Amplification (SPIA) for Sensitive Detection of Salmonella in Food. FOOD ANAL METHOD 2022. [DOI: 10.1007/s12161-022-02387-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
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Li Y, Wang X, Liu Y, Jin W, Tian H, Xie F, Xia K, Zhang X, Fu W, Zhang Y. Flexible Terahertz Metamaterial Biosensor for Ultra-Sensitive Detection of Hepatitis B Viral DNA Based on the Metal-Enhanced Sandwich Assay. Front Bioeng Biotechnol 2022; 10:930800. [PMID: 35992361 PMCID: PMC9388765 DOI: 10.3389/fbioe.2022.930800] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2022] [Accepted: 06/23/2022] [Indexed: 11/24/2022] Open
Abstract
The high sensitivity and specificity of terahertz (THz) biosensing are both promising and challenging in DNA sample detection. This study produced and refined a flexible THz MM biosensor for ultrasensitive detection of HBV in clinical serum samples based on a gold magnetic nanoparticle-mediated rolling circle amplification (GMNPs@RCA) sandwich assay under isothermal conditions. Typically, solid-phase RCA reactions mediated by circular padlock probes (PLPs) are triggered under isothermal conditions in the presence of HBV DNA, resulting in long single-stranded DNA (ssDNA) with high fidelity and specificity. Then, the resultant ssDNA was conjugated with detection probes (DPs) immobilized on gold nanoparticles (DP@AuNPs) to form GMNPs-RCA-AuNPs sandwich complexes. The HBV DNA concentrations were quantified by introducing GMNPs-RCA-AuNPs complexes into the metasurface of a flexible THz metamaterial-based biosensor chip and resulting in a red shift of the resonance peak of the THz metamaterials. This biosensor can lead to highly specific and sensitive detection with one-base mismatch discrimination and a limit of detection (LOD) down to 1.27E + 02 IU/ml of HBV DNA from clinical serum samples. The HBV DNA concentration was linearly correlated with the frequency shift of the THz metamaterials within the range of 1.27E + 02∼1.27E + 07 IU/ml, illustrating the applicability and accuracy of our assay in real clinical samples. This strategy constitutes a promising THz sensing method to identify virus DNA. In the future, it is hoped it can assist with pathogen identification and clinical diagnosis.
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Affiliation(s)
- Yumin Li
- Medical Laboratory of the Third affiliated Hospital of Shenzhen University, Shenzhen, China
- Department of Laboratory Medicine, Southwest Hospital, Third Military Medical University (Army Medical University), Chongqing, China
| | - Xiaojing Wang
- Department of Laboratory Medicine, Chifeng Municipal Hospital, Chifeng, China
| | - Yu Liu
- Department of Laboratory Medicine, Southwest Hospital, Third Military Medical University (Army Medical University), Chongqing, China
| | - Weidong Jin
- Department of Laboratory Medicine, Southwest Hospital, Third Military Medical University (Army Medical University), Chongqing, China
| | - Huiyan Tian
- Department of Laboratory Medicine, Southwest Hospital, Third Military Medical University (Army Medical University), Chongqing, China
| | - Fengxin Xie
- Department of Laboratory Medicine, Southwest Hospital, Third Military Medical University (Army Medical University), Chongqing, China
| | - Ke Xia
- Department of Laboratory Medicine, Southwest Hospital, Third Military Medical University (Army Medical University), Chongqing, China
| | - Xiuming Zhang
- Medical Laboratory of the Third affiliated Hospital of Shenzhen University, Shenzhen, China
- *Correspondence: Xiuming Zhang, ; Weiling Fu, ; Yang Zhang,
| | - Weiling Fu
- Department of Laboratory Medicine, Southwest Hospital, Third Military Medical University (Army Medical University), Chongqing, China
- *Correspondence: Xiuming Zhang, ; Weiling Fu, ; Yang Zhang,
| | - Yang Zhang
- Department of Laboratory Medicine, Chongqing University Cancer Hospital, Chongqing, China
- *Correspondence: Xiuming Zhang, ; Weiling Fu, ; Yang Zhang,
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11
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Wang W, Yuan W, Wang D, Mai X, Wang D, Zhu Y, Liu F, Sun Z. Dual-mode sensor based on the synergy of magnetic separation and functionalized probes for the ultrasensitive detection of Clostridium perfringens. RSC Adv 2022; 12:25744-25752. [PMID: 36199343 PMCID: PMC9460978 DOI: 10.1039/d2ra04344k] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2022] [Accepted: 08/24/2022] [Indexed: 12/01/2022] Open
Abstract
Clostridium perfringens is an important foodborne pathogen, which has caused serious public health problems worldwide. So, there is an urgent need for rapid and ultrasensitive detection of C. perfringens. In this paper, a dual-mode sensing platform using the synergy between fluorescent and electrochemical signals for Clostridium perfringens detection was proposed. An electrochemical aptasensor was constructed by a dual-amplification technology based on a DNA walker and hybridization chain reaction (HCR). When the C. perfringens genomic DNA was present, it specifically bonded with FAM-labeled aptamer which triggered the DNA walker on hairpin DNA (hDNA) tracks to start the synthesis of double-stranded DNA. HCR occurred subsequently and produced long-chain DNA to absorb more methylene blue (MB). In this cycle, the fluorescent signals of released FAM-labeled aptamer could also be detected. The synergistic effects of MB and FAM significantly improved the sensitivity and accuracy of the dual-mode sensor. As a result, the biosensor displayed an excellent analytical performance for C. perfringens at a concentration of 1 to 108 CFU g−1. A minimum concentration of 1 CFU g−1 and good accuracy were detected in real samples. The proposed ultrasensitive detection method for detecting C. perfringens in food showed great potential in controlling foodborne diseases. Clostridium perfringens is an important foodborne pathogen, which has caused serious public health problems worldwide.![]()
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Affiliation(s)
- Wenzhuo Wang
- School of Food and Biological Engineering, Jiangsu University, Zhenjiang 212013, China
- Jiangsu Key Laboratory for Food Quality and Safety-State Key Laboratory Cultivation Base, Ministry of Science and Technology, Nanjing 210014, PR China
- Institute of Agricultural Products Processing, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014, PR China
| | - Wei Yuan
- Jiangsu Key Laboratory for Food Quality and Safety-State Key Laboratory Cultivation Base, Ministry of Science and Technology, Nanjing 210014, PR China
- Institute of Agricultural Products Processing, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014, PR China
| | - Debao Wang
- Institute of Agricultural and Livestock Products Processing, Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences, Hohhot 010031, China
| | - Xutao Mai
- Jiangsu Key Laboratory for Food Quality and Safety-State Key Laboratory Cultivation Base, Ministry of Science and Technology, Nanjing 210014, PR China
- Institute of Agricultural Products Processing, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014, PR China
| | - Daoying Wang
- Jiangsu Key Laboratory for Food Quality and Safety-State Key Laboratory Cultivation Base, Ministry of Science and Technology, Nanjing 210014, PR China
- Institute of Agricultural Products Processing, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014, PR China
- Key Laboratory of Cold Chain Logistics Technology for Agro-product, Ministry of Agriculture and Rural Affairs, PR China
| | - Yongzhi Zhu
- Jiangsu Key Laboratory for Food Quality and Safety-State Key Laboratory Cultivation Base, Ministry of Science and Technology, Nanjing 210014, PR China
- Institute of Agricultural Products Processing, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014, PR China
- Key Laboratory of Cold Chain Logistics Technology for Agro-product, Ministry of Agriculture and Rural Affairs, PR China
| | - Fang Liu
- Jiangsu Key Laboratory for Food Quality and Safety-State Key Laboratory Cultivation Base, Ministry of Science and Technology, Nanjing 210014, PR China
- Institute of Agricultural Products Processing, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014, PR China
- Key Laboratory of Cold Chain Logistics Technology for Agro-product, Ministry of Agriculture and Rural Affairs, PR China
| | - Zhilan Sun
- Jiangsu Key Laboratory for Food Quality and Safety-State Key Laboratory Cultivation Base, Ministry of Science and Technology, Nanjing 210014, PR China
- Institute of Agricultural Products Processing, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014, PR China
- Key Laboratory of Cold Chain Logistics Technology for Agro-product, Ministry of Agriculture and Rural Affairs, PR China
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12
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Garafutdinov RR, Sakhabutdinova AR, Gilvanov AR, Chemeris AV. Rolling Circle Amplification as a Universal Method for the Analysis of a Wide Range of Biological Targets. RUSSIAN JOURNAL OF BIOORGANIC CHEMISTRY 2021; 47:1172-1189. [PMID: 34931113 PMCID: PMC8675116 DOI: 10.1134/s1068162021060078] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/26/2021] [Revised: 04/14/2021] [Accepted: 04/16/2021] [Indexed: 11/23/2022]
Abstract
Detection and quantification of biotargets are important analytical tasks, which are solved using a wide range of various methods. In recent years, methods based on the isothermal amplification of nucleic acids (NAs) have been extensively developed. Among them, a special place is occupied by rolling circle amplification (RCA), which is used not only for the detection of a specific NA but also for the analysis of other biomolecules, and is also a versatile platform for the development of highly sensitive methods and convenient diagnostic devices. The present review reveals a number of methodical aspects of RCA-mediated analysis; in particular, the data on its key molecular participants are presented, the methods for increasing the efficiency and productivity of RCA are described, and different variants of reporter systems are briefly characterized. Differences in the techniques of RCA-mediated analysis of biotargets of various types are shown. Some examples of using different RCA variants for the solution of specific diagnostic problems are given.
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Affiliation(s)
- R. R. Garafutdinov
- Institute of Biochemistry and Genetics, Ufa Federal Research Center, Russian Academy of Sciences, 450054 Ufa, Russia
| | - A. R. Sakhabutdinova
- Institute of Biochemistry and Genetics, Ufa Federal Research Center, Russian Academy of Sciences, 450054 Ufa, Russia
| | - A. R. Gilvanov
- Institute of Biochemistry and Genetics, Ufa Federal Research Center, Russian Academy of Sciences, 450054 Ufa, Russia
| | - A. V. Chemeris
- Institute of Biochemistry and Genetics, Ufa Federal Research Center, Russian Academy of Sciences, 450054 Ufa, Russia
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Saltatory Rolling Circle Amplification-Based Ratiometric Electrochemical Biosensor for Rapid Detection of Salmonella enterica serovar Typhimurium in Food. FOOD ANAL METHOD 2021. [DOI: 10.1007/s12161-021-02150-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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14
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Rolling Circle Amplification as an Efficient Analytical Tool for Rapid Detection of Contaminants in Aqueous Environments. BIOSENSORS-BASEL 2021; 11:bios11100352. [PMID: 34677308 PMCID: PMC8533700 DOI: 10.3390/bios11100352] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/12/2021] [Revised: 09/16/2021] [Accepted: 09/21/2021] [Indexed: 12/16/2022]
Abstract
Environmental contaminants are a global concern, and an effective strategy for remediation is to develop a rapid, on-site, and affordable monitoring method. However, this remains challenging, especially with regard to the detection of various contaminants in complex water environments. The application of molecular methods has recently attracted increasing attention; for example, rolling circle amplification (RCA) is an isothermal enzymatic process in which a short nucleic acid primer is amplified to form a long single-stranded nucleic acid using a circular template and special nucleic acid polymerases. Furthermore, this approach can be further engineered into a device for point-of-need monitoring of environmental pollutants. In this paper, we describe the fundamental principles of RCA and the advantages and disadvantages of RCA assays. Then, we discuss the recently developed RCA-based tools for environmental analysis to determine various targets, including heavy metals, organic small molecules, nucleic acids, peptides, proteins, and even microorganisms in aqueous environments. Finally, we summarize the challenges and outline strategies for the advancement of this technique for application in contaminant monitoring.
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15
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Zhan X, Yang S, Huang G, Yang L, Zhang Y, Tian H, Xie F, Lamy de la Chapelle M, Yang X, Fu W. Streptavidin-functionalized terahertz metamaterials for attomolar exosomal microRNA assay in pancreatic cancer based on duplex-specific nuclease-triggered rolling circle amplification. Biosens Bioelectron 2021; 188:113314. [PMID: 34030095 DOI: 10.1016/j.bios.2021.113314] [Citation(s) in RCA: 36] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2021] [Accepted: 05/04/2021] [Indexed: 12/22/2022]
Abstract
Exosomal microRNA (miRNA) is a promising non-invasive biomarker for liquid biopsies. Herein, we fabricated a terahertz (THz) metamaterial biosensor that comprises an array of gold (Au) discs surrounded by annular grooves for exosomal miRNA assays based on duplex-specific nuclease (DSN)-triggered rolling circle amplification (RCA). In this strategy, the target miRNA is captured by a probe P0 immobilized on magnetic beads (MBs); it then repeatedly releases a primer P1 under the action of DSN, which acts as a highly specific initiator of the subsequent RCA step utilizing biotin-dUTP. After target recycling and nucleic acid amplification, the biotinylated amplification products were captured by the streptavidin (SA)-functionalized THz metamaterials, and further conjugated to SA-modified AuNPs that permit formation of a trimeric complex of SA-biotinylated RCA products-AuNP. The complex population scales with the starting concentration of the target miR-21, resulting in a red shift of the resonance peak of the THz metamaterials. This biosensor can lead to highly specific and sensitive detection with one-base mismatch discrimination and a limit of detection (LOD) down to 84 aM. Significant distinctions are seen in the frequency shifts for exosomal miR-21 quantitation in clinical plasma samples between pancreatic cancer patients and healthy controls. The frequency shifts of the THz metamaterials are consistent versus the reverse transcription-polymerase chain reaction (RT-PCR) results, illustrating the applicability and accuracy of our assay in real clinical samples.
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Affiliation(s)
- Xinyu Zhan
- Department of Laboratory Medicine, Southwest Hospital, Third Military Medical University (Army Medical University), Chongqing, 400038, China
| | - Sha Yang
- Department of Laboratory Medicine, Southwest Hospital, Third Military Medical University (Army Medical University), Chongqing, 400038, China
| | - Guorong Huang
- Department of Laboratory Medicine, Southwest Hospital, Third Military Medical University (Army Medical University), Chongqing, 400038, China
| | - Lihua Yang
- Department of Laboratory Medicine, Southwest Hospital, Third Military Medical University (Army Medical University), Chongqing, 400038, China
| | - Yang Zhang
- Department of Laboratory Medicine, Chongqing University Cancer Hospital, Chongqing, 40038, China
| | - Huiyan Tian
- Department of Laboratory Medicine, Southwest Hospital, Third Military Medical University (Army Medical University), Chongqing, 400038, China
| | - Fengxin Xie
- Department of Laboratory Medicine, Southwest Hospital, Third Military Medical University (Army Medical University), Chongqing, 400038, China
| | - Marc Lamy de la Chapelle
- Institut des Molécules et Matériaux Du Mans (IMMM-UMR CNRS 6283), Université Du Mans, Avenue Olivier Messiaen, 72085, Le Mans, France
| | - Xiang Yang
- Department of Laboratory Medicine, Southwest Hospital, Third Military Medical University (Army Medical University), Chongqing, 400038, China.
| | - Weiling Fu
- Department of Laboratory Medicine, Southwest Hospital, Third Military Medical University (Army Medical University), Chongqing, 400038, China.
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17
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Biosensors Based on Isothermal DNA Amplification for Bacterial Detection in Food Safety and Environmental Monitoring. SENSORS 2021; 21:s21020602. [PMID: 33467078 PMCID: PMC7831002 DOI: 10.3390/s21020602] [Citation(s) in RCA: 37] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/16/2020] [Revised: 01/11/2021] [Accepted: 01/14/2021] [Indexed: 02/06/2023]
Abstract
The easy and rapid spread of bacterial contamination and the risk it poses to human health makes evident the need for analytical methods alternative to conventional time-consuming laboratory-based techniques for bacterial detection. To tackle this demand, biosensors based on isothermal DNA amplification methods have emerged, which avoid the need for thermal cycling, thus facilitating their integration into small and low-cost devices for in situ monitoring. This review focuses on the breakthroughs made on biosensors based on isothermal amplification methods for the detection of bacteria in the field of food safety and environmental monitoring. Optical and electrochemical biosensors based on loop mediated isothermal amplification (LAMP), rolling circle amplification (RCA), recombinase polymerase amplification (RPA), helicase dependent amplification (HDA), strand displacement amplification (SDA), and isothermal strand displacement polymerisation (ISDPR) are described, and an overview of their current advantages and limitations is provided. Although further efforts are required to harness the potential of these emerging analytical techniques, the coalescence of the different isothermal amplification techniques with the wide variety of biosensing detection strategies provides multiple possibilities for the efficient detection of bacteria far beyond the laboratory bench.
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A terahertz metamaterial biosensor for sensitive detection of microRNAs based on gold-nanoparticles and strand displacement amplification. Biosens Bioelectron 2020; 175:112874. [PMID: 33293192 DOI: 10.1016/j.bios.2020.112874] [Citation(s) in RCA: 51] [Impact Index Per Article: 12.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2020] [Revised: 11/26/2020] [Accepted: 11/27/2020] [Indexed: 12/14/2022]
Abstract
Terahertz (THz) spectroscopy has drawn great interest for the functional and conformational investigations of nucleic acids, but its intrinsic sensitivity hinders potential bio-sensing applications. Here, a novel THz biosensor was developed for detecting microRNA (miRNA) samples based on metamaterials coupled with nanoparticles and strand displacement amplification (SDA). In this method, the SDA reaction amplifies the target miRNA and generates copious yields of secondary DNA molecules (Trigger DNA), which are subsequently conjugated to metallic nanoparticles that form nanoparticle-Trigger DNA complexes. These complexes produce remarkable frequency shifts of metamaterials when linked to a large refractive index metallic nanoparticle like Au. The dependence of the metamaterial resonance on the nanoparticle diameter and metal type was investigated experimentally and theoretically. Under optimal conditions, the THz metamaterial biosensor presents good detection sensitivity with a limit of detection of 14.54 aM and exhibits a linear response for miRNA-21 at a concentration range from 1 fM to 10 pM. By measuring the miRNA-21 in spiked clinical serum samples, the sample recoveries were determined to be in the range between 90.92% and 107.01%. These findings demonstrate that the novel THz biosensor offers the capability for highly sensitive miRNA detection, with noteworthy potential applications in nucleic acid analysis and cancer diagnosis.
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19
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Developments in the integration and application of terahertz spectroscopy with microfluidics. Biosens Bioelectron 2020; 165:112393. [DOI: 10.1016/j.bios.2020.112393] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2020] [Revised: 06/11/2020] [Accepted: 06/13/2020] [Indexed: 11/17/2022]
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Mechanistic investigation of bead-based padlock rolling circle amplification under molecular crowding conditions. Anal Biochem 2020; 593:113596. [DOI: 10.1016/j.ab.2020.113596] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2019] [Revised: 01/15/2020] [Accepted: 01/20/2020] [Indexed: 12/28/2022]
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21
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Li Y, Wang J, Wang S, Wang J. Rolling circle amplification based colorimetric determination of Staphylococcus aureus. Mikrochim Acta 2020; 187:119. [PMID: 31927667 DOI: 10.1007/s00604-019-4082-5] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2019] [Accepted: 12/10/2019] [Indexed: 11/30/2022]
Abstract
A colorimetric microplate assay for determination of Staphylococcus aureus DNA is described. Linear padlock probes were designed to recognize target sequences. After DNA binding, the linear padlock probes were circularized by ligation and then hybridize with biotin-labeled capture probes. Biotin-labeled capture probes act as primers to initiate the RCA. The biotin-labeled RCA products hybridize with digoxin-labeled signal probes fixed on streptavidin-functionalized wells of a 96-well plate. To enhance sensitivity, an AuNP-anti-digoxigenin-POx-HRP conjugate was added to the wells and then bound to digoxin-labeled signalling probes. The oxidation of tetramethylbenzidine (TMB) by H2O2 produces a color change from colorless to blue via HRP catalysis. After the reaction was terminated, absorbance is measured at 450 nm. For target sequences of Staphylococcus aureus, the detection limit is 1.2 pM. For genomic DNA, the detection limit is 7.4 pg.μL-1. The potential application of the method was verified by analyzing spiked food samples. Graphical abstractSchematic representation of rolling circle amplification and functionalized AuNP-based colorimetric determination of Staphylococcus aureus. The method uses streptavidin-functionalized 96-well plates and RCA as a molecular tool and AuNP-anti-digoxigenin-POx-HRP as signal transduction markers to increase sensitivity.
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Affiliation(s)
- Yanan Li
- State Key Laboratory for Food Nutrition and Safety, College of Food Science and Engineering, Tianjin University of Science and Technology, 29 The Thirteenth Road, Tianjin Economy and Technology Development Area, Tianjin, 300457, People's Republic of China
| | - Junying Wang
- Chinese Academy of Agricultural Sciences, Biotechnology Research Institute, Haidian District, Beijing, 010010, People's Republic of China
| | - Shuo Wang
- Medical college, Nankai University, No.38 Tongyan Road, Jinnan District, Tianjin, 300350, People's Republic of China.
| | - Junping Wang
- State Key Laboratory for Food Nutrition and Safety, College of Food Science and Engineering, Tianjin University of Science and Technology, 29 The Thirteenth Road, Tianjin Economy and Technology Development Area, Tianjin, 300457, People's Republic of China.
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Yang K, Yu W, Huang G, Zhou J, Yang X, Fu W. Highly sensitive detection of Staphylococcus aureus by a THz metamaterial biosensor based on gold nanoparticles and rolling circle amplification. RSC Adv 2020; 10:26824-26833. [PMID: 35515811 PMCID: PMC9055468 DOI: 10.1039/d0ra03116j] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2020] [Accepted: 07/09/2020] [Indexed: 01/31/2023] Open
Abstract
A highly sensitive method for detecting Staphylococcus aureus (S. aureus) is urgently needed to reduce the impact and spread of hospital-acquired infections and food-borne illness. For this purpose, this paper presents a THz metamaterial biosensor based on gold nanoparticles (AuNPs) and rolling circle amplification (RCA). The RCA process amplified the S. aureus DNA fragments and generated copious yields of long single-strand DNA molecules. These molecules were then conjugated with the AuNPs to form complexes that delivered exceptional increases in the refractive indices of the samples, and resulted in corresponding improvements in the THz response of the metamaterial. Under optimal conditions, the shifts in the metamaterial's resonance frequency displayed a linear relationship with concentrations of synthetic S. aureus DNA in the range from 10 fM to 10 pM, with a limit of detection of 2.77 fM. We also tested the practical application of this biosensor in measurements of genomic DNA in clinical bacterial strains, where the sensor showed a detection limit of 0.08 pg μL−1 and a linear range from 0.1 to 5 pg μL−1. It also exhibited reasonable specificity, resisting interference from three other pathogenic bacteria. These findings indicate that the proposed approach offers a cost-effective THz biosensing strategy that can be easily fabricated and conveniently operated to aid the diagnosis of infectious disease and food safety control. A highly sensitive method for detecting Staphylococcus aureus (S. aureus) is urgently needed to reduce the impact and spread of hospital-acquired infections and food-borne illness.![]()
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Affiliation(s)
- Ke Yang
- Department of Laboratory Medicine
- Southwest Hospital
- Third Military Medical University (Army Medical University)
- Chongqing 400038
- China
| | - Wenjing Yu
- Department of Laboratory Medicine
- Southwest Hospital
- Third Military Medical University (Army Medical University)
- Chongqing 400038
- China
| | - Guorong Huang
- Department of Laboratory Medicine
- Southwest Hospital
- Third Military Medical University (Army Medical University)
- Chongqing 400038
- China
| | - Jie Zhou
- Department of Laboratory Medicine
- Southwest Hospital
- Third Military Medical University (Army Medical University)
- Chongqing 400038
- China
| | - Xiang Yang
- Department of Laboratory Medicine
- Southwest Hospital
- Third Military Medical University (Army Medical University)
- Chongqing 400038
- China
| | - Weiling Fu
- Department of Laboratory Medicine
- Southwest Hospital
- Third Military Medical University (Army Medical University)
- Chongqing 400038
- China
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23
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Minero GAS, Cangiano V, Garbarino F, Fock J, Hansen MF. Integration of microbead DNA handling with optomagnetic detection in rolling circle amplification assays. Mikrochim Acta 2019; 186:528. [DOI: 10.1007/s00604-019-3636-x] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2019] [Accepted: 06/25/2019] [Indexed: 01/14/2023]
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Yuan D, Kong J, Fang X, Chen Q. A graphene oxide-based paper chip integrated with the hybridization chain reaction for peanut and soybean allergen gene detection. Talanta 2019; 196:64-70. [PMID: 30683412 DOI: 10.1016/j.talanta.2018.12.036] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2018] [Revised: 12/03/2018] [Accepted: 12/11/2018] [Indexed: 01/22/2023]
Abstract
Allergen genes of the peanut and soybean were selected as model targets. Four hairpin DNA probes, H1, H2, H3, H4 were designed. Cy3-labeled H1 and H2 were used to detect peanut DNA, while FAM-labeled H3 and H4 were used to detect soybean DNA. Graphene oxide (GO) was used as the adsorption material for capturing the hairpin probes, and as a selective fluorescence quencher to reduce the background signal. To develop an allergen gene detection system with a GO-based paper chip format, we integrated the hybridization chain reaction (HCR) with fluorescence resonance energy transfer (FRET) in our design. The results showed that in the absence of peanut DNA (TP) and soybean DNA (TS), the detection probes attached to the GO surface, which quenched their fluorescence. In the presence of TP or TS, however, complementary probe binding to the targets initiated HCR, producing long double-stranded DNA products that could not be absorbed onto the GO surface. Hence, a strong red or green fluorescent signal was generated. The detection limit for both peanut and soybean DNA was 1 nM using this method, indicating the high sensitivity of our approach. This method also exhibited good specificity and a single chip could be used to simultaneously detect two different targets.
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Affiliation(s)
- Dan Yuan
- Shanghai Key Laboratory of Bio-Energy Crops, School of Life Sciences, Shanghai University, Shanghai 200444, PR China
| | - Jilie Kong
- Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, Shanghai 200433, PR China
| | - Xueen Fang
- Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, Shanghai 200433, PR China; Shanghai Suchuang Diagnostics Co., Ltd., Shanghai 201318, PR China.
| | - Qin Chen
- Shanghai Key Laboratory of Bio-Energy Crops, School of Life Sciences, Shanghai University, Shanghai 200444, PR China.
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Zhu M, Song D, Liu N, Wang K, Su J, Xiong M, Zhang X, Xu Y, Gao E. Isomeric Effect on the anticancer Behavior of two Zinc (II) complexes based on 3,5‐bis(1‐imidazoly) pyridine: Experimental and Theoretical Approach. Appl Organomet Chem 2019. [DOI: 10.1002/aoc.4897] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Affiliation(s)
- Mingchang Zhu
- The key Laboratory of the Inorganic Molecule‐Based Chemistry of Liaoning Province, Laboratory of Coordination ChemistryShenyang University of Chemical Technology Shenyang 110142 China
| | - Da Song
- The key Laboratory of the Inorganic Molecule‐Based Chemistry of Liaoning Province, Laboratory of Coordination ChemistryShenyang University of Chemical Technology Shenyang 110142 China
| | - Ning Liu
- Liaoning Institute for Food Control (Liaoning Institute of Pharmaceutical Research) Shenyang 110015 China
| | - Kehua Wang
- School of Chemistry and Life ScienceAnshan Normal University Anshan China
| | - Junqi Su
- The key Laboratory of the Inorganic Molecule‐Based Chemistry of Liaoning Province, Laboratory of Coordination ChemistryShenyang University of Chemical Technology Shenyang 110142 China
| | - Meng Xiong
- The key Laboratory of the Inorganic Molecule‐Based Chemistry of Liaoning Province, Laboratory of Coordination ChemistryShenyang University of Chemical Technology Shenyang 110142 China
| | - Xi Zhang
- The key Laboratory of the Inorganic Molecule‐Based Chemistry of Liaoning Province, Laboratory of Coordination ChemistryShenyang University of Chemical Technology Shenyang 110142 China
| | - Yuang Xu
- The key Laboratory of the Inorganic Molecule‐Based Chemistry of Liaoning Province, Laboratory of Coordination ChemistryShenyang University of Chemical Technology Shenyang 110142 China
| | - Enjun Gao
- The key Laboratory of the Inorganic Molecule‐Based Chemistry of Liaoning Province, Laboratory of Coordination ChemistryShenyang University of Chemical Technology Shenyang 110142 China
- School of Chemical EngineeringUniversity of Science and Technology Liaoning Anshan 114051 China
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26
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Zainuddin NH, Chee HY, Ahmad MZ, Mahdi MA, Abu Bakar MH, Yaacob MH. Sensitive Leptospira DNA detection using tapered optical fiber sensor. JOURNAL OF BIOPHOTONICS 2018; 11:e201700363. [PMID: 29570957 DOI: 10.1002/jbio.201700363] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/03/2017] [Revised: 03/16/2018] [Accepted: 03/19/2018] [Indexed: 06/08/2023]
Abstract
This paper presents the development of tapered optical fiber sensor to detect a specific Leptospira bacteria DNA. The bacteria causes Leptospirosis, a deadly disease but with common early flu-like symptoms. Optical single mode fiber (SMF) of 125 μm diameter is tapered to produce 12 μm waist diameter and 15 cm length. The novel DNA-based optical fiber sensor is functionalized by incubating the tapered region with sodium hydroxide (NaOH), (3-Aminopropyl) triethoxysilane and glutaraldehyde. Probe DNA is immobilized onto the tapered region and subsequently hybridized by its complementary DNA (cDNA). The transmission spectra of the DNA-based optical fiber sensor are measured in the 1500 to 1600 nm wavelength range. It is discovered that the shift of the wavelength in the SMF sensor is linearly proportional with the increase in the cDNA concentrations from 0.1 to 1.0 nM. The sensitivity of the sensor toward DNA is measured to be 1.2862 nm/nM and able to detect as low as 0.1 fM. The sensor indicates high specificity when only minimal shift is detected for non-cDNA testing. The developed sensor is able to distinguish between actual DNA of Leptospira serovars (Canicola and Copenhageni) against Clostridium difficile (control sample) at very low (femtomolar) target concentrations.
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Affiliation(s)
- Nurul H Zainuddin
- Department of Computer and Communication Systems, Faculty of Engineering, Universiti Putra Malaysia, Serdang, Selangor, Malaysia
- Wireless and Photonic Networks Research Centre (WiPNET), Universiti Putra Malaysia, Serdang, Selangor, Malaysia
| | - Hui Y Chee
- Department of Microbiology and Parasitology, Faculty of Medicine and Health Sciences, Universiti Putra Malaysia, Serdang, Selangor, Malaysia
| | - Muhammad Z Ahmad
- Biotechnology and Nanotechnology Research Center, Malaysian Agricultural Research and Development Institute (MARDI), Serdang, Selangor, Malaysia
| | - Mohd A Mahdi
- Department of Computer and Communication Systems, Faculty of Engineering, Universiti Putra Malaysia, Serdang, Selangor, Malaysia
- Wireless and Photonic Networks Research Centre (WiPNET), Universiti Putra Malaysia, Serdang, Selangor, Malaysia
| | - Muhammad H Abu Bakar
- Department of Computer and Communication Systems, Faculty of Engineering, Universiti Putra Malaysia, Serdang, Selangor, Malaysia
- Wireless and Photonic Networks Research Centre (WiPNET), Universiti Putra Malaysia, Serdang, Selangor, Malaysia
| | - Mohd H Yaacob
- Department of Computer and Communication Systems, Faculty of Engineering, Universiti Putra Malaysia, Serdang, Selangor, Malaysia
- Wireless and Photonic Networks Research Centre (WiPNET), Universiti Putra Malaysia, Serdang, Selangor, Malaysia
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