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现场采集的人粪便中华支睾吸虫感染的 Ov-RPA-CRISPR/Cas12a 检测法。

Ov-RPA-CRISPR/Cas12a assay for the detection of Opisthorchis viverrini infection in field-collected human feces.

机构信息

Department of Helminthology, Faculty of Tropical Medicine, Mahidol University, Bangkok, 10400, Thailand.

Department of Molecular Tropical Medicine and Genetics, Faculty of Tropical Medicine, Mahidol University, Bangkok, 10400, Thailand.

出版信息

Parasit Vectors. 2024 Feb 21;17(1):80. doi: 10.1186/s13071-024-06134-7.


DOI:10.1186/s13071-024-06134-7
PMID:38383404
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC10882828/
Abstract

BACKGROUND: Opisthorchis viverrini infection is traditionally diagnosed using the Kato-Katz method and formalin ethyl-acetate concentration technique. However, the limited sensitivity and specificity of these techniques have prompted the exploration of various molecular approaches, such as conventional polymerase chain reaction (PCR) and real-time PCR, to detect O. viverrini infection. Recently, a novel technique known as recombinase polymerase amplification (RPA)-clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated protein (Cas) (RPA-CRISPR/Cas) assay was developed as a point-of-care tool for the detection of various pathogens, including viruses and bacteria such as severe acute respiratory syndrome coronavirus 2 and Mycobacterium tuberculosis. This technology has demonstrated high sensitivity and specificity. Therefore, we developed and used the RPA-CRISPR/Cas assay to detect O. viverrini infection in field-collected human feces. METHODS: To detect O. viverrini infection in fecal samples, we developed a CRISPR/Cas12a (RNA-guided endonuclease) system combined with RPA (Ov-RPA-CRISPR/Cas12a). Several fecal samples, both helminth-positive and helminth-negative, were used for the development and optimization of amplification conditions, CRISPR/Cas detection conditions, detection limits, and specificity of the RPA-CRISPR/Cas12a assay for detecting O. viverrini infection. The detection results were determined using a real-time PCR system based on fluorescence values. Additionally, as the reporter was labeled with fluorescein, the detection results were visually inspected using an ultraviolet (UV) transilluminator. A receiver operating characteristic curve (ROC) was used to determine the optimal cutoff value for fluorescence detection. The diagnostic performance, including sensitivity and specificity, of the Ov-RPA-CRISPR/Cas12a assay was evaluated on the basis of comparison with standard methods. RESULTS: The Ov-RPA-CRISPR/Cas12a assay exhibited high specificity for detecting O. viverrini DNA. On the basis of the detection limit, the assay could detect O. viverrini DNA at concentrations as low as 10 ng using the real-time PCR system. However, in this method, visual inspection under UV light required a minimum concentration of 1 ng. To validate the Ov-RPA-CRISPR/Cas12a assay, 121 field-collected fecal samples were analyzed. Microscopic examination revealed that 29 samples were positive for O. viverrini-like eggs. Of these, 18 were confirmed as true positives on the basis of the Ov-RPA-CRISPR/Cas12a assay and microscopic examination, whereas 11 samples were determined as positive solely via microscopic examination, indicating the possibility of other minute intestinal fluke infections. CONCLUSIONS: The Ov-RPA-CRISPR/Cas12a assay developed in this study can successfully detect O. viverrini infection in field-collected feces. Due to the high specificity of the assay reported in this study, it can be used as an alternative approach to confirm O. viverrini infection, marking an initial step in the development of point-of-care diagnosis.

摘要

背景:华支睾吸虫感染传统上使用加藤厚涂片法和甲醛-乙醚浓集法进行诊断。然而,这些技术的灵敏度和特异性有限,促使人们探索各种分子方法,如常规聚合酶链反应(PCR)和实时 PCR,以检测华支睾吸虫感染。最近,一种新的技术,即重组酶聚合酶扩增(RPA)-规律成簇间隔短回文重复(CRISPR)/CRISPR 相关蛋白(Cas)(RPA-CRISPR/Cas)检测技术,已被开发为一种即时检测工具,用于检测各种病原体,包括病毒和细菌,如严重急性呼吸综合征冠状病毒 2 和结核分枝杆菌。这项技术具有很高的灵敏度和特异性。因此,我们开发并使用了 RPA-CRISPR/Cas 检测技术来检测现场采集的人类粪便中的华支睾吸虫感染。

方法:为了检测粪便样本中的华支睾吸虫感染,我们开发了一种 CRISPR/Cas12a(RNA 指导的内切酶)系统,结合 RPA(Ov-RPA-CRISPR/Cas12a)。我们使用了多个寄生虫阳性和寄生虫阴性的粪便样本,用于开发和优化扩增条件、CRISPR/Cas 检测条件、检测限以及 RPA-CRISPR/Cas12a 检测技术检测华支睾吸虫感染的特异性。检测结果基于荧光值确定。此外,由于报告基因被荧光素标记,因此可以使用紫外(UV)透射仪进行目视检查。使用受试者工作特征曲线(ROC)确定荧光检测的最佳截断值。根据与标准方法的比较,评估了 Ov-RPA-CRISPR/Cas12a 检测技术的诊断性能,包括灵敏度和特异性。

结果:Ov-RPA-CRISPR/Cas12a 检测技术对检测华支睾吸虫 DNA 具有很高的特异性。根据检测限,该检测技术使用实时 PCR 系统可检测到低至 10ng 的华支睾吸虫 DNA。然而,在这种方法中,使用 UV 光进行目视检查需要至少 1ng 的最低浓度。为了验证 Ov-RPA-CRISPR/Cas12a 检测技术,我们分析了 121 份现场采集的粪便样本。显微镜检查显示,29 份样本中含有华支睾吸虫样卵。其中,18 个经 Ov-RPA-CRISPR/Cas12a 检测和显微镜检查确认为真阳性,而 11 个样本仅通过显微镜检查确定为阳性,表明可能存在其他微小肠道吸虫感染。

结论:本研究中开发的 Ov-RPA-CRISPR/Cas12a 检测技术可成功检测现场采集的粪便中的华支睾吸虫感染。由于本研究报告的检测技术具有很高的特异性,因此可作为确认华支睾吸虫感染的替代方法,标志着即时诊断的初步发展。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2bd1/10882828/ebedc193af49/13071_2024_6134_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2bd1/10882828/495e095957c0/13071_2024_6134_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2bd1/10882828/6de165fa2fbd/13071_2024_6134_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2bd1/10882828/2e3addfb9766/13071_2024_6134_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2bd1/10882828/c2aa2b50ea23/13071_2024_6134_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2bd1/10882828/ebedc193af49/13071_2024_6134_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2bd1/10882828/495e095957c0/13071_2024_6134_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2bd1/10882828/6de165fa2fbd/13071_2024_6134_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2bd1/10882828/2e3addfb9766/13071_2024_6134_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2bd1/10882828/c2aa2b50ea23/13071_2024_6134_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2bd1/10882828/ebedc193af49/13071_2024_6134_Fig5_HTML.jpg

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引用本文的文献

[1]
Research progress on the application of RPA-CRISPR/Cas12a in the rapid visual detection of pathogenic microorganisms.

Front Cell Infect Microbiol. 2025-7-30

[2]
CRISPR/Cas12a-Based Biosensing: Advances in Mechanisms and Applications for Nucleic Acid Detection.

Biosensors (Basel). 2025-6-4

[3]
Development of a rapid on-site detection method for largemouth bass virus based on RPA-CRISPR/Cas12a system.

Front Microbiol. 2025-5-21

[4]
CRISPR/Cas genome editing, functional genomics, and diagnostics for parasitic helminths.

Int J Parasitol. 2025-5-19

[5]
CRISPR-based functional genomics for schistosomes and related flatworms.

Trends Parasitol. 2024-11

[6]
An RPA-Based CRISPR/Cas12a Assay in Combination with a Lateral Flow Assay for the Rapid Detection of in Food Samples.

Foods. 2024-10-9

本文引用的文献

[1]
Comparison of a Urine Antigen Assay and Multiple Examinations with the Formalin-Ethyl Acetate Concentration Technique for Diagnosis of Opisthorchiasis.

Am J Trop Med Hyg. 2023-7-5

[2]
Diagnosis of helminths depends on worm fecundity and the distribution of parasites within hosts.

Proc Biol Sci. 2023-1-25

[3]
Recent advances in recombinase polymerase amplification: Principle, advantages, disadvantages and applications.

Front Cell Infect Microbiol. 2022

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Multiplexed lateral flow assay integrated with orthogonal CRISPR-Cas system for SARS-CoV-2 detection.

Sens Actuators B Chem. 2022-11-15

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Performance of Mini Parasep SF stool concentrator kit, Kato-Katz, and formalin-ethyl acetate concentration methods for diagnosis of opisthorchiasis in Northeast Thailand.

Parasit Vectors. 2022-6-27

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Development of a RPA-CRISPR-Cas12a Assay for Rapid, Simple, and Sensitive Detection of .

Front Microbiol. 2022-4-8

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CRISPR/Cas12a Technology Combined With RPA for Rapid and Portable SFTSV Detection.

Front Microbiol. 2022-1-25

[8]
Rapid and sensitive point-of-care detection of Leptospira by RPA-CRISPR/Cas12a targeting lipL32.

PLoS Negl Trop Dis. 2022-1

[9]
Efficiency of the Stool-PCR Test Targeting NADH Dehydrogenase () Subunits for Detection of Eggs.

J Trop Med. 2021-12-6

[10]
SARS-CoV-2 RNA Detection by a Cellphone-Based Amplification-Free System with CRISPR/CAS-Dependent Enzymatic (CASCADE) Assay.

Adv Mater Technol. 2021-12

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