1
|
Liu X, Zhao X, Yuan Y, Cao Z, Zhu M, Li T, Wu Z. Accurate detection of lung cancer-related microRNA through CRISPR/Cas9-assisted garland rolling circle amplification. J Thorac Dis 2022; 14:4427-4434. [PMID: 36524084 PMCID: PMC9745504 DOI: 10.21037/jtd-22-1405] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2022] [Accepted: 11/03/2022] [Indexed: 02/19/2024]
Abstract
BACKGROUND MicroRNA (miRNA) is reported to be closely related to a variety of pathophysiological processes for carcinoma and considered a potential biomarker for the diagnosis of lung cancer with brain metastasis. However, developing an accurate and sensitive miRNA detection method has proven to be a challenge. The aim of the present study was to integrate the advantages of rolling circle amplification (RCA), clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated nucleases 9 (Cas9), and catalytic hairpin assembly (CHA) technologies to develop an miRNA detection method. METHODS In the present study, we developed a novel approach for the sensitive and accurate detection of miRNA through integrating garland RCA and CRISPR/Cas9-assisted signal generation. In this method, target miRNA cyclized dumbbell padlock and triggered the RCA process to form long single-stranded DNA products with a repeated hairpin structure. Double-stranded DNA sequences (dsDNA) were formed with the addition of complementary sequences. With the assistance of the Cas9 enzyme for specific recognition and cleavage of formed dsDNA, RCA products were disassembled into hairpin probes. The generated hairpin probe could be unfolded by target miRNA to initiate the CHA process for signal generation. RESULTS Through integration of the RCA and CHA processes, the method demonstrated favorable detection performance. The correlation equation between the signal and concentration of target miRNA was determined to be Y=312.3 × lgC + 2108, with a high correlation coefficient of 0.9786. The approach also exhibited high selectivity to the mismatched miRNAs. CONCLUSIONS Our method could be used in the screening, diagnosis, and prognosis of multiple diseases without complicated thermal cycling instrumentation.
Collapse
Affiliation(s)
- Xiaoya Liu
- Department of Oncology, the First Affiliated Hospital of Chongqing Medical University, Chongqing, China
| | - Xianxian Zhao
- Department of Clinical Laboratory, Southwest Hospital, Army Medical University, Chongqing, China
| | - Ye Yuan
- Department of Clinical Laboratory, Southwest Hospital, Army Medical University, Chongqing, China
| | - Zhenrui Cao
- Department of Hepatobiliary Surgery, the First Affiliated Hospital of Chongqing Medical University, Chongqing, China
| | - Mingxue Zhu
- Department of Pharmacy, the First Affiliated Hospital of Chongqing Medical University, Chongqing, China
| | - Tingting Li
- Breast Disease Center, Southwest Hospital, Army Medical University, Chongqing, China
| | - Zhongjun Wu
- Department of Hepatobiliary Surgery, the First Affiliated Hospital of Chongqing Medical University, Chongqing, China
| |
Collapse
|
2
|
Isothermal circular strand displacement-based assay for microRNA detection in liquid biopsy. Anal Bioanal Chem 2022; 414:6431-6440. [PMID: 35879425 PMCID: PMC9411226 DOI: 10.1007/s00216-022-04228-8] [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: 04/20/2022] [Revised: 07/05/2022] [Accepted: 07/12/2022] [Indexed: 12/01/2022]
Abstract
Extracellular miRNAs are promising targets for developing new assays for the early diagnosis and prognosis of diseases based on liquid biopsy. The detection of miRNAs in liquid biopsies is challenged by their short sequence length, low concentration, and interferences with bodily fluid components. Isothermal circular strand displacement polymerization has emerged as a convenient method for nucleic acid amplification and detection. Herein, we describe an innovative strategy for microRNA detection directly from biological fluids based on hairpin probe–assisted isothermal amplification reaction. We designed and optimized the assay to detect target analytes in 1 µL of the complex media’s biological matrix using a microfluidic device for the straightforward analysis of multiple samples. We validated the assay to detect circulating miR-127-5p in synovial fluid, recently indicated as a predictive biomarker for osteoarthritis disease. The combined use of a mutant polymerase operating with high yield and a primer incorporating locked nucleic acid nucleosides allowed detection of miR-127-5p with 34 fmol L−1 LOD. We quantified circulating miR-127-5p directly in synovial fluid, thus demonstrating that the assay may be employed for the convenient detection of 4.3 ± 0.5 pmol L−1 concentrated miRNAs in liquid biopsy samples.
Collapse
|
3
|
Construction of simple and sensitive pancreatitis related microRNA detection strategy via self-priming triggered cascade signal amplification. Anal Bioanal Chem 2022; 414:5837-5844. [PMID: 35672577 DOI: 10.1007/s00216-022-04147-8] [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: 04/21/2022] [Revised: 05/11/2022] [Accepted: 05/19/2022] [Indexed: 11/01/2022]
Abstract
Pancreatic diseases, such as pancreatitis and pancreatic cancer, remain the most threatening gastrointestinal diseases with a high mortality due to atypical symptoms. MicroRNA plays crucial roles in regulating metastasis and cell proliferation of pancreatic cancer, constituting important biomarkers for the early diagnosis of pancreatic cancers. Herein, we develop a sensitive and simple exosomal miRNA detection method with only a dual-hairpin-probe. In detail, the dual-hairpin-probe is constructed through combination of two functional sections for both target miRNA identification and signal amplification. With only one probe, the method possesses the capability to avoid interferences from concentration changes of other probes, and exhibits a higher stability which is demonstrated through the obtained low coefficients of variation (CV) of 6.73%. With let-7a as detection target, the LOD of the established method is determined to be 243 aM, while maintaining a high discriminating capability towards let-7a homogenous miRNAs.
Collapse
|
4
|
Guo Y, Gao X, An S, Li X, Pan L, Liu H, Liu J, Gao J, Zhao Z, Li G, Han Y, Li Y, Ji Z. Deletion of miR-15a inhibited glioma development via targeting Smad7 and inhibiting EMT pathway. Aging (Albany NY) 2021; 13:24339-24348. [PMID: 34775378 PMCID: PMC8610134 DOI: 10.18632/aging.203684] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2021] [Accepted: 09/28/2021] [Indexed: 12/12/2022]
Abstract
In the present study, we found the expression of miR-15a-5p (miR-15a) was increased in glioma tissues, and we further explore the underlying mechanism of miR-15a in glioma progression. Microarray analysis used to identify the differentially expressed microRNAs (miRNAs) in glioma tissues. The expression of miR-15a in glioma tissues and cell lines was tested by qRT-PCR. Luciferase assay was used to determine the binding between miR-15a and Smad7. Wound healing and transwell assay were used to examine the role of miR-15a/Smad7 in SHG139 cells. Western blot was used to detect the protein level of Smad7 and epithelial-mesenchymal transition (EMT) markers. A tumor formation model in nude mice was established to measure the role of miR-15a in vivo. MiR-15a was significantly increased in glioma tissues and cells, which indicated a poor prognosis of glioma patients. MiR-15a mimics induced miR-15a level in SHG139 cells, and promoted the malignancy of SHG139 cells, while miR-15a inhibitor showed the opposite effects. Luciferase assay indicated that Smad7 was the direct target of miR-15a, and Smad7 was down-regulated in glioma tissues. Functional experiments revealed that miR-15a inhibitor inhibited the EMT pathway and the migration and invasion of glioma cells, but the silencing of Smad7 reversed the effects of miR-15a inhibitor in EMT pathway and glioma progression. Finally, we performed animal experiments to verify the role of miR-15a in vivo. Present study showed that deletion of miR-15a inhibited the activation of EMT signaling via targeting Smad7, thus suppressed the tumorigenesis and tumor growth of glioma.
Collapse
Affiliation(s)
- Yanfeng Guo
- Department of Neurosurgery, The First Hospital of Handan, Handan, Hebei Province, China
| | - Xiaopeng Gao
- Department of Neurosurgery, The First Hospital of Handan, Handan, Hebei Province, China
| | - Shien An
- Department of Neurosurgery, The First Hospital of Handan, Handan, Hebei Province, China
| | - Xin Li
- Department of Neurosurgery, The First Hospital of Handan, Handan, Hebei Province, China
| | - Lekun Pan
- Department of Neurosurgery, The First Hospital of Handan, Handan, Hebei Province, China
| | - Hongyan Liu
- Department of E.N.T, The First Hospital of Handan, Handan, Hebei Province, China
| | - Jixiang Liu
- Department of Neurosurgery, The First Hospital of Handan, Handan, Hebei Province, China
| | - Jianzhou Gao
- Department of Neurosurgery, The First Hospital of Handan, Handan, Hebei Province, China
| | - Zhihuang Zhao
- Third Department of Neurosurgery, Cangzhou Central Hospital, Cangzhou, Hebei Province, China
| | - Gang Li
- Third Department of Neurosurgery, Cangzhou Central Hospital, Cangzhou, Hebei Province, China
| | - Yonggang Han
- Third Department of Neurosurgery, Cangzhou Central Hospital, Cangzhou, Hebei Province, China
| | - Yabin Li
- Third Department of Neurosurgery, Cangzhou Central Hospital, Cangzhou, Hebei Province, China
| | - Zhisheng Ji
- Third Department of Neurosurgery, Cangzhou Central Hospital, Cangzhou, Hebei Province, China
| |
Collapse
|
5
|
Zhao Y, Lou J, Zhang H, Sun H, Zhang M, Wang S, Sha X, Zhan Z, Wang Y, Ma C, Li WJ. Measurement methods of single cell drug response. Talanta 2021; 239:123035. [PMID: 34839926 DOI: 10.1016/j.talanta.2021.123035] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2021] [Revised: 10/26/2021] [Accepted: 11/02/2021] [Indexed: 11/25/2022]
Abstract
In the last decades, a wide multitude of research activity has been focused on the development of new drugs, and devoted to overcome the challenges of high cost and low efficiency in drug evaluation. The measurement of drug response at the single cell level is a quicker, more direct and more accurate way to reflect drug efficacy, which can shorten the drug development period and reduce research costs. Therefore, the single cell drug response (SCDR) measurement technology has aroused extensive attention from researchers, and has become a hot topic in the fields of drug research and cell biology. Recent years have seen the emergence of various SCDR measurement technologies that feature different working principles and different levels of measurement performance. To better examine, compare and summarize the characteristics and functions of these technologies, we select signal-to-noise ratio, throughput, content, invasion, and device complexity as the criteria to evaluate them from the drug efficacy perspective. This review aims to highlight sixteen kinds of SCDR measurement technologies, including patch-clamp technique, live-cell interferometry, capillary electrophoresis, secondary ion mass spectrometry, and more, and report widespread representative examples of SCDR measurement the recent approaches for over the past forty years. Based on their reaction principles, these technologies are classified into four categories: electrical, optical, electrochemical, and mass spectrometry, and a detailed comparison is made between them. After in-depth understanding of these technologies, it is expected to improve or integrate these technologies to propose better SCDR measurement strategies, and explore methods in new drug development and screening, as well as disease diagnosis and treatment.
Collapse
Affiliation(s)
- Yuliang Zhao
- School of Control Engineering, Northeastern University at Qinhuangdao, Qinhuangdao, 066004, China
| | - Jiazhi Lou
- School of Control Engineering, Northeastern University at Qinhuangdao, Qinhuangdao, 066004, China
| | - Hongyu Zhang
- School of Control Engineering, Northeastern University at Qinhuangdao, Qinhuangdao, 066004, China
| | - Hui Sun
- Department of Mechanical Engineering, City University of Hong Kong, Kowloon, Hong Kong, 999077, China
| | - Menglin Zhang
- School of Control Engineering, Northeastern University at Qinhuangdao, Qinhuangdao, 066004, China
| | - Shuyu Wang
- School of Control Engineering, Northeastern University at Qinhuangdao, Qinhuangdao, 066004, China
| | - Xiaopeng Sha
- School of Control Engineering, Northeastern University at Qinhuangdao, Qinhuangdao, 066004, China
| | - Zhikun Zhan
- School of Electrical Engineering, Yanshan University at Qinhuangdao, Qinhuangdao, 066004, China.
| | - Ying Wang
- Beijing Advanced Innovation Centre for Biomedical Engineering, Beihang University, Beijing, 100191, China
| | - Cuihua Ma
- Department of Clinical Laboratory, First Hospital of Qinhuangdao, Qinhuangdao, 066004, China.
| | - Wen Jung Li
- Department of Mechanical Engineering, City University of Hong Kong, Kowloon, Hong Kong, 999077, China.
| |
Collapse
|