Optical Nanosensor Architecture for Cell-Signaling Molecules Using DNA Aptamer-Coated Carbon Nanotubes

Cha, Tae-Gon; Baker, B. R.; Sauffer, M. Dane; Salgado, Janette; Jaroch, David; Rickus, Jenna L.; Porterfield, D. Marshall; Choi, Jong Hyun

doi:10.1021/nn201323h

Cited by 82 publications

(119 citation statements)

References 55 publications

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“…[6] Such limitations encouraged surface functionalization of SWNTs, both covalently [7] and non-covalently, [8] and thus widened the application premise. Well-dispersed SWNTs have been effectively incorporated into a variety of applications, including electronic devices, [4, 9] biophysical processing schemes and biomedical applications (i.e., drug delivery and imaging), [10] optical sensors, [11] membranes for water purification, [12] and nanocomposites. [13] The applied field has also caused a large market transfer of SWNTs, with immediate consequences in terms of environmental release and exposure.…”

Section: Introductionmentioning

confidence: 99%

Change in chirality of semiconducting single-walled carbon nanotubes can overcome anionic surfactant stabilisation: a systematic study of aggregation kinetics

et al. 2015

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Single-walled carbon nanotubes’ (SWNT) effectiveness in applications is enhanced by debundling or stabilization. Anionic surfactants are known to effectively stabilize SWNTs. However, the role of specific chirality on surfactant-stabilized SWNT aggregation has not been studied to date. The aggregation behavior of chirally enriched (6,5) and (7,6) semiconducting SWNTs, functionalized with three anionic surfactants—sodium dodecyl sulfate (SDS), sodium dodecyl benzene sulfonate (SDBS), and sodium deoxycholate (SDOCO)—was evaluated with time-resolved dynamic light scattering. A wide range of mono- (NaCl) and di-valent (CaCl2) electrolytes as well as a 2.5 mg TOC/L Suwannee River humic acid (SRHA) were used as background chemistry. Overall, SDBS showed the most effectiveness in SWNT stability, followed by SDOCO and SDS. However, the relatively larger diameter (7,6) chiral tubes compromised the surfactant stability, compared to (6,5) chiral enrichment, due to enhanced van der Waals interaction. The presence of di-valent electrolytes overshadowed the chirality effects and resulted in similar aggregation behavior for both the SWNT samples. Molecular modeling results enumerated key differences in surfactant conformation on SWNT surfaces and identified interaction energy changes between the two chiralities to delineate aggregation mechanisms. The stability of SWNTs increased in the presence of SRHA under 10 mM monovalent and mixed electrolyte conditions. The results suggest that change in chirality can overcome surfactant stabilization of semiconducting SWNTs. SWNT stability can also be strongly influenced by the anionic surfactant structure.

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Section: Introductionmentioning

confidence: 99%

Change in chirality of semiconducting single-walled carbon nanotubes can overcome anionic surfactant stabilisation: a systematic study of aggregation kinetics

et al. 2015

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“…This was confirmed in our previous publication 31 where CdS nanocrystals with 20 DNA enzymes show nearly identical translocation speeds compared to the nanoparticles with 2 DNA enzyme molecules. For RNA-decorated single-wall carbon nanotubes, a surfactant replacement method using a two-stage dialysis was performed [44][45][46] . The resulting DNA enzyme-integrated nanocrystals and RNA-decorated carbon nanotubes were incubated for 48 hour (hr) at 1:1 molar ratio.…”

Section: Synthesis Of Dna Enzyme-based Walker Systemmentioning

confidence: 99%

Design Principles of DNA Enzyme-Based Walkers: Translocation Kinetics and Photoregulation

et al. 2015

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Dynamic DNA enzyme-based walkers complete their stepwise movements along the prescribed track through a series of reactions, including hybridization, enzymatic cleavage, and strand displacement; however, their overall translocation kinetics is not well understood. Here, we perform mechanistic studies to elucidate several key parameters that govern the kinetics and processivity of DNA enzyme-based walkers. These parameters include DNA enzyme core type and structure, upper and lower recognition arm lengths, and divalent metal cation species and concentration. A theoretical model is developed within the framework of single-molecule kinetics to describe overall translocation kinetics as well as each reaction step. A better understanding of kinetics and design parameters enables us to demonstrate a walker movement near 5 μm at an average speed of ∼1 nm s(-1). We also show that the translocation kinetics of DNA walkers can be effectively controlled by external light stimuli using photoisomerizable azobenzene moieties. A 2-fold increase in the cleavage reaction is observed when the hairpin stems of enzyme catalytic cores are open under UV irradiation. This study provides general design guidelines to construct highly processive, autonomous DNA walker systems and to regulate their translocation kinetics, which would facilitate the development of functional DNA walkers.

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“…The peculiar aptamer quadruplex conformation was preserved after SWCNT functionalization, suggesting selective photoluminescence quenching through a photoinduced charge transfer mechanism. 75 …”

Section: Engineering Sensor Selectivity Of Nir Fluorescence Sensors Bmentioning

confidence: 99%

Review—Engineering the Selectivity of the DNA-SWCNT Sensor

Kupis-Rozmysłowicz¹,

Antonucci²,

Boghossian³

2016

ECS J. Solid State Sci. Technol.

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Single-walled carbon nanotubes (SWCNTs) demonstrate a unique combination of optical, chemical, and physical properties that render them suitable for a variety of sensing applications. Their photostable near-infrared (nIR) fluorescence emissions are highly sensitive to perturbations in the surrounding SWCNT environment, enabling optical sensors with single-molecule detection limits. Despite these immanent advantages, SWCNTs lack the inherent molecular recognition capabilities required for selective sensing applications. One approach to tuning sensor selectivity is to engineer synthetic and biological wrappings that cover the nanotube's surface in a manner that limits chemical access to the surface to specific target analytes. Among the numerous possible wrappings, deoxyribonucleic acid (DNA) has emerged as the most studied polymeric wrapping. In addition to the sequence-dependent tunability DNA offers in engineering selectivity, DNA assumes a peculiar helical wrapping conformation along the SWCNT surface that has been the focus of many experimental and computational studies. In this review, we summarize some of the major findings in the field, focusing on the underlying molecular interactions responsible for the conformational and molecular recognition elements of the wrapping. Special focus is given to characterizing the nucleotide binding affinity, DNA sequence dependency, DNA length variation, SWCNT chirality, and sugar backbone (RNA vs. DNA) contributions to the wrapping conformation and SWCNT fluorescence. This article concludes with an assessment of the latest DNA-SWCNT-based sensing platforms used for the selective, single-and multi-modal detection of target analytes. Since their introduction in the early 60s, 1 biosensors have become an indispensable part of our daily lives, finding disparate applications in a variety of analytical fields ranging from biomedical diagnostics to environmental monitoring to food technology.2 Notably, optical biosensors based on fluorescent-light emission, which exploit diverse fluorescent probes as labeling agents for the recognition units, have emerged as highly sensitive, rapid, reproducible, and simple-to-operate analytical tools capable of quantitatively monitoring specific molecular interactions in real time.3,4 However, several drawbacks limit their application in more complex chemical and biological environments. For example, typical fluorescence-based sensors conventionally employ organic fluorophores that emit fluorescence with visible wavelengths that do not penetrate well through biological tissue.5 Furthermore, such fluorophores are often subject to rapid photobleaching, thus compromising their sensor lifetimes. These limitations are unfavorable for long-term in vivo sensing 6 for diagnostic applications. Recent research is thus focused on finding new technologies and materials to engineer novel sensing platforms with increased sensitivity and selectivity over extended periods of time.Single-walled carbon nanotubes (SWCNTs) have become widely used in a new genera...

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Optical Nanosensor Architecture for Cell-Signaling Molecules Using DNA Aptamer-Coated Carbon Nanotubes

Cited by 82 publications

References 55 publications

Change in chirality of semiconducting single-walled carbon nanotubes can overcome anionic surfactant stabilisation: a systematic study of aggregation kinetics

Change in chirality of semiconducting single-walled carbon nanotubes can overcome anionic surfactant stabilisation: a systematic study of aggregation kinetics

Design Principles of DNA Enzyme-Based Walkers: Translocation Kinetics and Photoregulation

Review—Engineering the Selectivity of the DNA-SWCNT Sensor

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