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He W, Liao K, Li R, Peng W, Qian B, Zeng D, Tang F, Xue F, Jung YS, Dai J. Development of a CRISPR/Cas12a-based fluorescent detection method of Senecavirus A. BMC Vet Res 2024; 20:258. [PMID: 38877537 PMCID: PMC11179212 DOI: 10.1186/s12917-024-04116-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2023] [Accepted: 06/05/2024] [Indexed: 06/16/2024] Open
Abstract
BACKGROUND Senecavirus A (SVA), identified in 2002, is known to cause porcine idiopathic vesicular disease (PIVD), which presents with symptoms resembling other vesicular diseases. This similarity complicates field diagnosis. Conventional molecular diagnostic techniques are limited by their cost, sensitivity, and requirement for complicated instrumentation. Therefore, developing an effective and accurate diagnostic method is crucial for timely identification and isolation of affected pigs, thereby preventing further disease spread. METHODS In this study, we developed a highly-specific and ultra-sensitive SVA detection method powered by CRISPR/Cas12a. To enhance the availability in laboratories with varied equipment conditions, microplate reader and ultraviolet light transilluminator were introduced. Moreover, PCR amplification has also been incorporated into this method to improve sensitivity. The specificity and sensitivity of this method were determined following the preparation of the recombinant Cas12a protein and optimization of the CRISPR/Cas12a-based trans-cleavage system. RESULTS The method demonstrated no cross-reactivity with ten kinds of viruses of swine. The minimum template concentration required to activate substantial trans-cleavage activity was determined to be 106 copies/µL of SVA templates. However, when PCR amplification was incorporated, the method achieved a detection limit of one copy of SVA templates per reaction. It also exhibited 100% accuracy in simulated sample testing. The complete testing process does not exceed three hours. CONCLUSIONS Importantly, this method utilizes standard laboratory equipment, making it accessible for use in resource-limited settings and facilitating widespread and ultra-sensitive screening during epidemics. Overall, the development of this method not only broadens the array of tools available for detecting SVA but also holds significant promise for controlling the spread of PIVD.
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Affiliation(s)
- Wei He
- MOE Joint International Research Laboratory of Animal Health and Food Safety, Nanjing Agricultural University, Nanjing, 210095, China
- Ningxia Hui Autonomous Region Food Testing and Research Institute, Yinchuan, 750002, China
| | - Kai Liao
- MOE Joint International Research Laboratory of Animal Health and Food Safety, Nanjing Agricultural University, Nanjing, 210095, China
| | - Ruixue Li
- Ningxia Hui Autonomous Region Food Testing and Research Institute, Yinchuan, 750002, China
| | - Wanqing Peng
- MOE Joint International Research Laboratory of Animal Health and Food Safety, Nanjing Agricultural University, Nanjing, 210095, China
| | - Bingxu Qian
- MOE Joint International Research Laboratory of Animal Health and Food Safety, Nanjing Agricultural University, Nanjing, 210095, China
| | - Dexin Zeng
- MOE Joint International Research Laboratory of Animal Health and Food Safety, Nanjing Agricultural University, Nanjing, 210095, China
| | - Fang Tang
- MOE Joint International Research Laboratory of Animal Health and Food Safety, Nanjing Agricultural University, Nanjing, 210095, China
| | - Feng Xue
- MOE Joint International Research Laboratory of Animal Health and Food Safety, Nanjing Agricultural University, Nanjing, 210095, China.
- Sanya Institute of Nanjing Agricultural University, Sanya, 572024, China.
| | - Yong Sam Jung
- MOE Joint International Research Laboratory of Animal Health and Food Safety, Nanjing Agricultural University, Nanjing, 210095, China.
| | - Jianjun Dai
- China Pharmaceutical University, Nanjing, 211198, China
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Ma L, Zhu M, Meng Q, Wang Y, Wang X. Real-time detection of Seneca Valley virus by one-tube RPA-CRISPR/Cas12a assay. Front Cell Infect Microbiol 2024; 13:1305222. [PMID: 38259970 PMCID: PMC10800940 DOI: 10.3389/fcimb.2023.1305222] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2023] [Accepted: 12/15/2023] [Indexed: 01/24/2024] Open
Abstract
Introduction Senecavirus A (SVA) is a highly contagious virus that causes vesicular disease in pigs. At present, laboratory detection methods, such as virus isolation and polymerase chain reaction (PCR), required precision instruments and qualified personnel, making them unsuitable for point-of-care tests (POCT). Fortunately, the emergence of CRISPR/Cas system has provided new opportunities for fast and efficient pathogen detection. Methods This study successfully developed a precise and sensitive detection platform for diagnosing SVA by combining the CRISPR system with recombinase polymerase amplification (RPA). Results The minimum detection limit of the assay was 10 copies of the SVA genome. Meanwhile, the assay demonstrated high specificity. To validate the effectiveness of this system, we tested 85 swine clinical samples and found that the fluorescence method had a 100% coincidence rate compared to RT-qPCR. Discussion Overall, the RPA-CRISPR/Cas12a assay established in our study is a highly effective method for detecting SVA and holds great potential for practical applications in the resource-limited settings.
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Affiliation(s)
- Lei Ma
- School of Biotechnology and Food Engineering, Anyang Institute of Technology, Anyang, China
- College of Life Science, Henan University, Kaifeng, China
| | - Mengjie Zhu
- School of Biotechnology and Food Engineering, Anyang Institute of Technology, Anyang, China
| | - Qingfeng Meng
- Testing Technology R&D Department, Shanghai Kaiwosha Biotechnology Co., Ltd, Shanghai, China
| | - Yao Wang
- School of Biotechnology and Food Engineering, Anyang Institute of Technology, Anyang, China
| | - Xueping Wang
- School of Biotechnology and Food Engineering, Anyang Institute of Technology, Anyang, China
- College of Life Science, Henan University, Kaifeng, China
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Shahrajabian MH, Sun W. The Significance and Importance of dPCR, qPCR, and SYBR Green PCR Kit in the Detection of Numerous Diseases. Curr Pharm Des 2024; 30:169-179. [PMID: 38243947 DOI: 10.2174/0113816128276560231218090436] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2023] [Revised: 10/27/2023] [Accepted: 11/07/2023] [Indexed: 01/22/2024]
Abstract
Digital PCR (dPCR) is the latest technique that has become commercially accessible for various types of research. This method uses Taq polymerase in a standard polymerase chain reaction (PCR) to amplify a target DNA fragment from a complex sample, like quantitative PCR (qPCR) and droplet digital PCR (dd- PCR). ddPCR may facilitate microRNA (miRNA) measurement, particularly in liquid biopsy, because it has been proven to be more effective and sensitive, and in this method, ddPCR can provide an unprecedented chance for deoxyribonucleic acid (DNA) methylation research because of its capability to increase sensitivity and precision over conventional PCR-based methods. qPCR has also been found to be a valuable standard technique to measure both copy DNA (cDNA) and genomic DNA (gDNA) levels, although the finding data can be significantly variable and non-reproducible without relevant validation and verification of both primers and samples. The SYBR green quantitative real-time PCR (qPCR) method has been reported as an appropriate technique for quantitative detection and species discrimination, and has been applied profitably in different experiments to determine, quantify, and discriminate species. Although both TaqMan qRT-PCR and SYBR green qRT-PCR are sensitive and rapid, the SYBR green qRT-PCR assay is easy and the TaqMan qRT-PCR assay is specific but expensive due to the probe required. This review aimed to introduce dPCR, qPCR, SYBR green PCR kit, and digital PCR, compare them, and also introduce their advantages in the detection of different diseases.
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Affiliation(s)
- Mohamad Hesam Shahrajabian
- National Key Laboratory of Agricultural Microbiology, Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100086, China
| | - Wenli Sun
- National Key Laboratory of Agricultural Microbiology, Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100086, China
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Wang H, Dong J, Zhang T, Wang F, Yang R, Zhang Y, Zhao X. A novel rapid detection of Senecavirus A using recombinase polymerase amplification (RPA) coupled with lateral flow (LF) dipstrip. Anal Biochem 2022; 646:114627. [PMID: 35245488 DOI: 10.1016/j.ab.2022.114627] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2021] [Revised: 02/06/2022] [Accepted: 02/22/2022] [Indexed: 11/24/2022]
Abstract
SENECAVIRUS A: (SVA), an emerging picornavirus, has been associated with vesicular disease and neonatal mortality in swine, posing a great threat to the global swine industry. Accurate diagnosis of SVA is crucial for the effective prevention and control disease. In the present study, a simple, rapid and accurate diagnostic assay was developed combining recombinase polymerase amplification and a lateral flow dipstrip (RPA-LF) to detect SVA infection. Using recombinant plasmid pMD19-T-VP1 DNA as a template, the RPA-LF optimal reaction conditions were incubated at 35 °C for 25 min, and the result was visualized directly on the dipstrip. The specificity assay showed no cross-reactivity with other tested viruses, and the sensitivity assay revealed the minimum detection limit was 15 copies/μl. Moreover, the RPA-LF method was successfully applied with viral cDNA as template to test clinical samples, with no significant difference being observed between RPA-LF and qRT-PCR. Hence, the established RPA-LF assay could be used as a potential optional rapid, reliable, sensitive and low-cost method for field diagnosis of SVA, especially in resource-limited regions.
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Affiliation(s)
- Huibao Wang
- College of Veterinary Medicine, Gansu Agricultural University, Lanzhou, PR China; China Agricultural Veterinary Biological Science and Technology Co. Ltd., Lanzhou, PR China
| | - Jinjie Dong
- College of Veterinary Medicine, Gansu Agricultural University, Lanzhou, PR China; China Agricultural Veterinary Biological Science and Technology Co. Ltd., Lanzhou, PR China; Lanzhou Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Lanzhou, PR China
| | - Tao Zhang
- College of Veterinary Medicine, Gansu Agricultural University, Lanzhou, PR China; China Agricultural Veterinary Biological Science and Technology Co. Ltd., Lanzhou, PR China
| | - Fan Wang
- College of Veterinary Medicine, Gansu Agricultural University, Lanzhou, PR China; China Agricultural Veterinary Biological Science and Technology Co. Ltd., Lanzhou, PR China
| | - Rui Yang
- College of Veterinary Medicine, Gansu Agricultural University, Lanzhou, PR China; China Agricultural Veterinary Biological Science and Technology Co. Ltd., Lanzhou, PR China
| | - Yong Zhang
- College of Veterinary Medicine, Gansu Agricultural University, Lanzhou, PR China.
| | - Xingxu Zhao
- College of Veterinary Medicine, Gansu Agricultural University, Lanzhou, PR China.
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Potent Protective Immune Responses to Senecavirus Induced by Virus-Like Particle Vaccine in Pigs. Vaccines (Basel) 2020; 8:vaccines8030532. [PMID: 32942760 PMCID: PMC7565160 DOI: 10.3390/vaccines8030532] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2020] [Revised: 09/08/2020] [Accepted: 09/12/2020] [Indexed: 01/16/2023] Open
Abstract
Senecavirus A (SVA) is the pathogen that has recently caused porcine idiopathic vesicular disease (PIVD). The clinical symptoms of PIVD are similar to those of acute foot-and-mouth disease and also can result in the death of newborn piglets, thus entailing economic losses. Vaccine immunization is the most effective way to prevent and control SVA. Among all SVA vaccines reported, only the SVA inactivated vaccine has been successfully developed. However, to ensure the elimination of this pathogen, safer and more effective vaccines are urgently required. A virus-like particles (VLPs)-based vaccine is probably the best alternative to inactivated vaccine. To develop an SVA VLPs vaccine and evaluate its immune effect, a prokaryotic expression system was used to produce SVA capsid protein and assemble VLPs. The VLPs were characterized by affinity chromatography, sucrose density gradient centrifugation, ZetaSizer and transmission electron microscopy. Meanwhile, the SVA CH-HB-2017 strain was used to infect pigs and to determine infection routes and dose. Experimental pigs were then immunized with the SVA VLPs vaccine emulsified in an ISA 201 adjuvant. The results showed that the VLPs vaccine induced neutralizing and specific antibodies at similar levels as an inactivated SVA vaccine after immunization. The level of INF-γ induced by the VLPs vaccine gradually decreased—similar to that of inactivated vaccine. These results indicated that VLPs vaccine may simultaneously cause both cellular and humoral immune responses. Importantly, after the challenge, the VLPs vaccine provided similar levels of protection as the inactivated SVA vaccine. In this study, we successfully obtained novel SVA VLPs and confirmed their highly immunogenicity, thus providing a superior candidate vaccine for defense and elimination of SVA, compared to the inactivated vaccine.
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