A novel DNA biosensor for the ultrasensitive detection of DNA methyltransferase activity based on a high-density “hot spot” SERS substrate and rolling circle amplification strategy

Ge, Shengjie; Ran, Menglin; Mao, Yu; Sun, Yue; Zhou, Xinyu; Li, Li; Cao, Xiaowei

doi:10.1039/d1an01034d

Cited by 16 publications

(7 citation statements)

References 51 publications

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“…The stability of this method in detecting serum samples was first verified (Figure S9, Supporting Information). As the amount of M.SssI in the human serum (<0.25 U mL −1 ) [ 31 ] was almost negligible compared with the final volume of the solution, the influence on it for this measurement was negligible. As seen from Table 1 , the recovery of M.SssI ranged from 92.0–107.0% with an RSD % <7.0%, demonstrating that the strategy could be a promising and practical tool for determining M.SssI in complex biological matrices.…”

Section: Resultsmentioning

confidence: 99%

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Fluorogenic RNA Aptamer‐Based Amplification and Transcription Strategy for Label‐free Sensing of Methyltransferase Activity in Complex Matrixes

Gu,

Fan,

Yang

et al. 2024

Advanced Biology

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DNA methyltransferase is significant in cellular activities and gene expression, and its aberrant expression is closely linked to various cancers during initiation and progression. Currently, there is a great demand for reliable and label‐free techniques for DNA methyltransferase evaluation in tumor diagnosis and cancer therapy. Herein, a low‐background fluorescent RNA aptamer‐based sensing approach for label‐free quantification of cytosine‐guanine (CpG) dinucleotides methyltransferase (M.SssI) is reported. The fluorogenic light‐up RNA aptamers‐based strategy exhibits high selectivity via restriction endonuclease, padlock‐based recognition, and RNA transcription. By combining rolling circle amplification (RCA), and RNA transcription with fluorescence response of RNA aptamers of Spinach‐dye compound, the proposed platform exhibited efficiently ultrahigh sensitivity toward M.SssI. Eventually, the detection can be achieved in a linear range of 0.02–100 U mL−1 with a detection limit of 1.6 × 10−3 U mL−1. Owing to these superior features, the method is further applied in serum samples spiked M.SssI, which delivers a recovery ranging from 92.0 to 107.0% and a relative standard deviation <7.0%, providing a promising and practical tool for determining M.SssI in complex biological matrices.

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Section: Resultsmentioning

confidence: 99%

“…As the amount of M.SssI in the human serum (<0.25 U mL −1 ) [31] was almost negligible compared with the final volume of the solution, the influence on it for this measurement was negligible.…”

Section: Determination Of Msssi Activity In Real Samplementioning

confidence: 96%

Fluorogenic RNA Aptamer‐Based Amplification and Transcription Strategy for Label‐free Sensing of Methyltransferase Activity in Complex Matrixes

Gu,

Fan,

Yang

et al. 2024

Advanced Biology

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“…With the mechanism for detection being the same, SERS has been extensively used for the detection of several other cancers, including gastric [ 189 ], oral, liver, ovarian [ 190 , 191 ], and prostate cancers [ 192 , 193 , 194 , 195 , 196 , 197 ]. Gastric cancer diagnoses have been performed using different plasmonic materials by analyzing SERS spectra of serum samples [ 198 , 199 , 200 ], blood plasma [ 201 ], exosomes [ 202 ], extracellular vesicles [ 203 ], telomerase [ 204 ], saliva [ 205 ], and ctDNA [ 206 ]. In a breakthrough study, a breath analysis based on SERS was performed to identify different stages of gastric cancers by analyzing the Raman bands [ 207 , 208 ].…”

Section: Sers For Disease Diagnosismentioning

confidence: 99%

Recent Trends in SERS-Based Plasmonic Sensors for Disease Diagnostics, Biomolecules Detection, and Machine Learning Techniques

2023

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Surface-enhanced Raman spectroscopy/scattering (SERS) has evolved into a popular tool for applications in biology and medicine owing to its ease-of-use, non-destructive, and label-free approach. Advances in plasmonics and instrumentation have enabled the realization of SERS’s full potential for the trace detection of biomolecules, disease diagnostics, and monitoring. We provide a brief review on the recent developments in the SERS technique for biosensing applications, with a particular focus on machine learning techniques used for the same. Initially, the article discusses the need for plasmonic sensors in biology and the advantage of SERS over existing techniques. In the later sections, the applications are organized as SERS-based biosensing for disease diagnosis focusing on cancer identification and respiratory diseases, including the recent SARS-CoV-2 detection. We then discuss progress in sensing microorganisms, such as bacteria, with a particular focus on plasmonic sensors for detecting biohazardous materials in view of homeland security. At the end of the article, we focus on machine learning techniques for the (a) identification, (b) classification, and (c) quantification in SERS for biology applications. The review covers the work from 2010 onwards, and the language is simplified to suit the needs of the interdisciplinary audience.

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“…10,11 The sensing strategy of SERS for nucleic acid detection is classified as direct [12][13][14][15] and indirect sensing methods. [16][17][18][19] Direct SERS detection is performed by obtaining intrinsic SERS vibrational fingerprints of nucleic acids. Although direct SERS detection prevents false positives, it involves pre-purification and amplification steps to isolate and obtain a certain amount of deoxyribonucleic acid (DNA) from complex biological matrices.…”

Section: Introductionmentioning

confidence: 99%

Current advance of CRISPR/Cas-based SERS technology

Wang

Chang

et al. 2023

Sens. Diagn.

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A novel DNA biosensor for the ultrasensitive detection of DNA methyltransferase activity based on a high-density “hot spot” SERS substrate and rolling circle amplification strategy

Abstract: Herein, we proposed a novel biosensor based on the high-density “hot spots” Au@SiO2 array substrate and rolling circle amplification (RCA) strategy for ultrasensitive detection of the CpG methyltransferase (M.SssI) activity....

Cited by 16 publications

References 51 publications

Fluorogenic RNA Aptamer‐Based Amplification and Transcription Strategy for Label‐free Sensing of Methyltransferase Activity in Complex Matrixes

Fluorogenic RNA Aptamer‐Based Amplification and Transcription Strategy for Label‐free Sensing of Methyltransferase Activity in Complex Matrixes

Recent Trends in SERS-Based Plasmonic Sensors for Disease Diagnostics, Biomolecules Detection, and Machine Learning Techniques

Current advance of CRISPR/Cas-based SERS technology

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