DNA-Functionalized Monolithic Hydrogels and Gold Nanoparticles for Colorimetric DNA Detection

Baeissa, Ajfan; Dave, Neeshma; Smith, Barry D.; Liu, Juewen

doi:10.1021/am100780d

Cited by 126 publications

(120 citation statements)

References 56 publications

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“…11,12 Hydrogels are particularly attractive for making optical sensors. [13][14][15][16][17][18][19] Biomolecular immobilization occurs not only on gel surface but also throughout the whole gel matrix, allowing for high loading capacity. Due to its porous nature, all the immobilized probes are accessible to generate a strong signal.…”

Section: Introductionmentioning

confidence: 99%

Aptamer-Functionalized Hydrogel Microparticles for Fast Visual Detection of Mercury(II) and Adenosine

Helwa

Dave

Froidevaux

et al. 2012

ACS Appl. Mater. Interfaces

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120

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These authors contributed equally to the work. AbstractWith a low optical background, high loading capacity, and good biocompatibility, hydrogels are ideal materials for immobilization of biopolymers to develop optical biosensors. We recently immobilized mercury and lead binding DNAs within a monolithic gel and demonstrated ultra-sensitive visual detection of these heavy metals. The high sensitivity was attributed to the enrichment of the analytes into the gels.The signaling kinetics was slow, however, taking about one hour to obtain a stable optical signal due to a long diffusion distance. In this work we aim to understand the analyte enrichment process and improve the signaling kinetics by preparing hydrogel microparticles. DNA-functionalized gel beads were synthesized using an emulsion polymerization technique and most of the beads were between 10 and 50 μm. Acrydite-modified DNA was incorporated by co-polymerization. Visual detection of 10 nM Hg 2+ was still achieved and a stable signal was obtained in just two minutes. The gel beads could be spotted to form a microarray and dried for storage. A new visual sensor for adenosine was designed and immobilized within the gel beads. The adenosine aptamer binds its target about 1000-fold less tightly compared to the mercury binding DNA, allowing a comparison to be made on analyte enrichment by aptamer-functionalized hydrogels.

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Section: Introductionmentioning

confidence: 99%

Aptamer-Functionalized Hydrogel Microparticles for Fast Visual Detection of Mercury(II) and Adenosine

Helwa

Dave

Froidevaux

et al. 2012

ACS Appl. Mater. Interfaces

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120

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“…Any DNA without an acrydite group will be washed away. 33,34 Isothermal titration calorimetry (ITC). ITC was performed using a VP-ITC Microcalorimeter instrument (MicroCal).…”

Section: Dynamic Light Scattering (Dls)mentioning

confidence: 99%

Molecularly Imprinted Polymers with DNA Aptamer Fragments as Macromonomers

Zhang

Liu

2016

ACS Appl. Mater. Interfaces

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Molecularly imprinted polymers (MIPs) are produced in the presence of a template molecule. After removing the template, the cavity can selectively rebind the template. MIPs are attractive functional materials with a low cost and high stability, but traditional MIPs often suffer from low binding affinity. This study employs DNA aptamer fragments as macromonomers to improve MIPs. The DNA aptamer for adenosine was first split into two halves, fluorescently labeled, and co-polymerized into MIPs. With a fluorescence quenching assay, the importance of imprinting was confirmed. Further studies were carried out using isothermal titration calorimetry (ITC).Compared to the mixture of the free aptamer fragments, their MIPs doubled the binding affinity.Each free aptamer fragment alone cannot bind adenosine, while MIPs containing each fragment are effective binders. We further shortened one of the aptamer fragments, and the DNA length was pushed to as short as six nucleotides, yielding MIPs with a dissociation constant of 27 µM adenosine. This study provides a new method for preparing functional MIP materials by combining high affinity biopolymer fragments with low cost synthetic monomers, allowing higher binding affinity and providing a method for signaling binding based on DNA chemistry.

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“…100 In this system, two probe DNAs were used; one immobilized on the hydrogel and the other on AuNPs ( Figure 9A). In the presence of the target DNA, the AuNPs were immobilized on the gel giving a red color.…”

Section: Hydrogels With Optical Responsesmentioning

confidence: 99%

Oligonucleotide-functionalized hydrogels as stimuli responsive materials and biosensors

2011

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Hydrogels are crosslinked hydrophilic polymers that undergo swelling in water. The gel volume is affected by many environmental parameters including temperature, pH, ionic strength, and solvent composition. Therefore, these factors have been traditionally used for making smart hydrogels. DNA, on the other hand, is a special block copolymer. Incorporation of DNA within a hydrogel network can have several important effects. For example, DNA can serve as a reversible crosslinker modulating the mechanical and rheological properties of a hydrogel. Second, DNA can selectively bind to a variety of different molecules. Attaching these binding DNAs inside (aptamers) the hydrogel makes it possible to expand the range of stimuli to chemical and biological molecules. At the same time, the gel matrix can also improve DNA-based sensors and materials. For example, the hydrogel can be dried for storage and rehydrated prior to use and the immobilized DNAs are protected from nuclease cleavage. The gel backbone property can also be tuned to affect the interaction between DNA and other molecules. The rational functionalization of DNA in hydrogels has generated a diverse range of smart materials. In the last 15 years, the field has made tremendous progress and some of the recent developments have been summarized in this review. Challenges and possible future directions are also discussed.

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DNA-Functionalized Monolithic Hydrogels and Gold Nanoparticles for Colorimetric DNA Detection

Cited by 126 publications

References 56 publications

Aptamer-Functionalized Hydrogel Microparticles for Fast Visual Detection of Mercury(II) and Adenosine

Aptamer-Functionalized Hydrogel Microparticles for Fast Visual Detection of Mercury(II) and Adenosine

Molecularly Imprinted Polymers with DNA Aptamer Fragments as Macromonomers

Oligonucleotide-functionalized hydrogels as stimuli responsive materials and biosensors

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