Emerging Biosensing Approaches for microRNA Analysis

Graybill, Richard M.; Bailey, Ryan C.

doi:10.1021/acs.analchem.5b04679

Cited by 168 publications

(131 citation statements)

References 164 publications

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“…These technologies include methods based on rolling-circle isothermal amplification within hydrogel microparticles to compartmentalize multiple reactions, 105 free-solution electrophoretic detection with drag-tags and single stranded DNA binding protein to increase the differences in electrophoretic mobility of target-probe complexes, 106,107 and other biosensor-based approaches, which have been the focus of several recent reviews. 108,109 In this article, we examine a cluster of microfluidic technologies from our group with potential for POC nucleic acid quantification without PCR amplification, thus eliminating the normalization and selectivity issues of PCR. Without PCR amplification, sensitivity now becomes a challenge, along with other pretreatment related issues.…”

Section: Alternative Microfluidic and Nanofluidic Profiling Technmentioning

confidence: 99%

Future microfluidic and nanofluidic modular platforms for nucleic acid liquid biopsy in precision medicine

et al. 2016

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Nucleic acid biomarkers have enormous potential in non-invasive diagnostics and disease management. In medical research and in the near future in the clinics, there is a great demand for accurate miRNA, mRNA, and ctDNA identification and profiling. They may lead to screening of early stage cancer that is not detectable by tissue biopsy or imaging. Moreover, because their cost is low and they are non-invasive, they can become a regular screening test during annual checkups or allow a dynamic treatment program that adjusts its drug and dosage frequently. We briefly review a few existing viral and endogenous RNA assays that have been approved by the Federal Drug Administration. These tests are based on the main nucleic acid detection technologies, namely, quantitative reverse transcription polymerase chain reaction (PCR), microarrays, and next-generation sequencing. Several of the challenges that these three technologies still face regarding the quantitative measurement of a panel of nucleic acids are outlined. Finally, we review a cluster of microfluidic technologies from our group with potential for point-of-care nucleic acid quantification without nucleic acid amplification, designed to overcome specific limitations of current technologies. We suggest that integration of these technologies in a modular design can offer a low-cost, robust, and yet sensitive/selective platform for a variety of precision medicine applications.

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Section: Alternative Microfluidic and Nanofluidic Profiling Technmentioning

confidence: 99%

Future microfluidic and nanofluidic modular platforms for nucleic acid liquid biopsy in precision medicine

et al. 2016

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“…Despite it is used for the identification of several novel miRNAs [26], northern blot analysis provides a poor sensitivity, requires large amounts of sample input and is extremely laborious and timeconsuming [27]. In contrast, qPCR can cover a broad range of oligonucleotide concentrations with a relatively high sensitivity, but it requires using highly purified targets, which can introduce a large variability and lead to inaccurate analyses [28]. Furthermore, labelling process is indeed a major requirement for these assay methods in order to increase both sensitivity and selectivity, making the detection slower, expensive and less reliable [29,30].…”

Section: Introductionmentioning

confidence: 99%

High sensitivity and label-free oligonucleotides detection using photonic bandgap sensing structures biofunctionalized with molecular beacon probes

Ruiz-Tórtola

Prats-Quílez

González-Lucas

et al. 2018

Biomed. Opt. Express

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Abstract:A label-free sensor, based on the combination of silicon photonic bandgap (PBG) structures with immobilized molecular beacon (MB) probes, is experimentally developed. Complementary target oligonucleotides are specifically recognized through hybridization with the MB probes on the surface of the sensing structure. This combination of PBG sensing structures and MB probes demonstrates an extremely high sensitivity without the need for complex PCR-based amplification or labelling methods. correlates with morphological sub-class of acute myeloid leukaemia and the expression of its target genes in global genome-wide analysis," Leukemia 21(5), 912-916 (2007). 4. R. L. Maute, C. Schneider, P. Sumazin, A. Holmes, A. Califano, K. Basso, and R. Dalla-Favera, "tRNA-derived microRNA modulates proliferation and the DNA damage response and is down-regulated in B cell lymphoma," Proc. Natl. Acad. Sci. U.S.A. 110(4), 1404-1409 (2013). 5. L. P. Lim, N. C. Lau, P. Garrett-Engele, A. Grimson, J. M. Schelter, J. Castle, D. P. Bartel, P. S. Linsley, and J.M. Johnson, "Microarray analysis shows that some microRNAs downregulate large numbers of target mRNAs," Nature 433(7027), 769-773 (2005

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“…During the past few decades, chemically modified oligonucleotides have been developed for gene diagnostics [1][2][3][4] and gene therapy. [5][6][7][8] In particular, oligonucleotides with 2′,5′-phosphodiester linkages (isoDNA and isoRNA) have interesting physical properties, such as high resistance towards nuclease digestion.…”

Section: Introductionmentioning

confidence: 99%

Synthesis and Properties of Oligonucleotides Containing 3′-O,4′-C-Ethyleneoxy-Bridged 5-Methyluridines

Hari¹,

Osawa²,

Hitomi³

et al. 2018

HETEROCYCLES

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-A phosphoramidite of 3ʹ-O,4ʹ-C-ethyleneoxy-bridged 5-methyluridine (3ʹ,4ʹ-EoNA-T) was successfully incorporated into oligonucleotides, and their abilities to form duplexes with RNA and DNA as well as triplexes with double-stranded DNA were evaluated. The stabilities of the duplexes formed between RNA and 3ʹ,4ʹ-EoNA-modified oligonucleotides were only slightly lower than those of the natural DNA-RNA duplex, while the duplexes formed between 3ʹ,4ʹ-EoNA-modified oligonucleotides and DNA were drastically less stable than the natural DNA-DNA duplex. Moreover, under the same conditions as the UV-melting experiments of the duplexes, 3ʹ,4ʹ-EoNA-modified oligonucleotides were unable to form triplexes with dsDNA. These results showed that oligonucleotides containing 3ʹ,4ʹ-EoNA-T had excellent RNA selectivity.

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Emerging Biosensing Approaches for microRNA Analysis

Abstract: Graphical Abstract

Cited by 168 publications

References 164 publications

Future microfluidic and nanofluidic modular platforms for nucleic acid liquid biopsy in precision medicine

Future microfluidic and nanofluidic modular platforms for nucleic acid liquid biopsy in precision medicine

High sensitivity and label-free oligonucleotides detection using photonic bandgap sensing structures biofunctionalized with molecular beacon probes

Synthesis and Properties of Oligonucleotides Containing 3′-O,4′-C-Ethyleneoxy-Bridged 5-Methyluridines

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