Biomedical subjects

Lewis J Rothberg

Publications and source records attributed to Lewis J Rothberg.

10 recordsLinked to original sources

PubMed2006

Synthesis, optical, and electrochemical properties of a new family of dendritic oligothiophenes.

A new class of semi-flexible dendrimers with oligothiophene (OT) arms up to the third generation have been synthesized and investigated. The synthetic methods employed include a combination of palladium-catalyzed Stille cross-coupling reactions for oligothiophenes, Sonogashira cross-coupling reactions for building blocks, and carbodiimide-mediated esterification for building up the various dendrimers. The optical and electrochemical properties of this series of oligothiophenes-based dendrimers are shown to be strongly influenced by their morphologies as demonstrated by their pronounced solvatochromic and thermochromic responses under different environmental conditions. Introducing rigid oligothiophene arms to shape non-persistent ester-linked dendrimers causes higher generation dendrimers (G2 and G3) to exhibit solvatochromism and thermochromism, while their oligomeric counterpart (3b) and lower generation (G1) analogue do not. Spectroscopic changes due to both intramolecular and intermolecular aggregations are observed.

Electrochemistry↗

PubMed2006

Biomolecular sensing using near-null single wavelength arrayed imaging reflectometry.

We use reflectivity changes at an interface functionalized with molecular probes to detect label-free biomolecular binding. Attachment of the target molecules to the surface alters the effective thickness of an antireflective coating formed by thermal oxidation of a silicon wafer to remove destructive interference of the reflected waves. The thermal oxide thickness is adjusted for precise interference using electrostatic layer-by-layer self-assembly of polyelectrolytes to which the molecular probes can be bound covalently. Reflectivity increases of over a factor of 100 are observed for binding of 2.5 nm of streptavidin to biotinylated polyelectrolytes, considerably more sensitive than surface plasmon resonance detection. Theoretical modeling is in agreement with the experimentally observed reflectivity increases and suggests the sensitivity is at present limited by the roughness of the oxide.

Biosensing Techniques↗

PubMed2006

Enhancement of adsorbed dye monolayer fluorescence by a silver nanoparticle overlayer.

Deposition of silver nanoparticles directly onto a Rhodamine Red monolayer covalently bound to glass is found to increase the photoluminescence by as much as 20 times depending on excitation wavelength and nanoparticle density. At the same time, the excited state lifetime is reduced by more than a factor of 2, the fluorescence spectrum is blue-shifted, and greater polarization anisotropy in the emission is observed. We attribute these effects to local enhancement of the optical fields near the molecules by interactions with silver plasmons. We approximately separate the relative contributions of increased absorption and increased emissive rate to the observed enhancement of fluorescence. A study of the spatial inhomogeneity of the effect using scanning confocal microscopy demonstrates that average enhancements at least twice as large are possible.

Journal Article↗

PubMed2005

A proteomic biosensor for enteropathogenic E. coli.

The study of proteins and the molecules with which they interact on an organismwide scale is critical to understanding basic biology, and understanding and improving human health. New platform technologies allowing label-free, quantitative array-based analysis of proteins are particularly desirable. We have developed an analytical technology, reflective interferometry (RI), which provides specific, rapid, and label-free optical detection of biomolecules in complex mixtures. In order to evaluate the suitability of RI for proteomics, we have prepared a series of arrays bearing the extracellular domain of the secreted enteropathogenic Escherichia coli (EPEC) protein Translocated Intimin Receptor (Tir). These arrays are able to selectively detect the extracellular domain of the protein Intimin, Tir's natural binding partner. Furthermore, we demonstrate the use of RI and Tir-functionalized arrays for the selective detection of EPEC directly from culture.

Animals↗

PubMed2005

Enhancement of platinum octaethyl porphyrin phosphorescence near nanotextured silver surfaces.

We observe more than a 200-fold increase in the photoexcited phosphorescent emission of PtOEP (2,3,7,8,12,13,17,18-octaethyl-21H,23H-porphyrin platinum II) in a polystyrene film on nanotextured silver surfaces, coincident with a reduction in the triplet state lifetime by a factor of 5. The large enhancement results in films with apparent luminescence quantum yields much greater than unity and can be understood in terms of increased radiative rates due to interactions between the molecules and the electron plasma in nearby silver nanoparticles. We study the photoluminescence efficiency, excitation spectrum, and decay dynamics as a function of film thickness and silver density. We use a model of the photophysics to decompose the phosphorescent enhancement into contributions from increases in absorption, emissive rate, and quenching. Quenching increases in importance for very thin films, and we conclude that approximately 3 nm spacing between metal and chromophore leads to the largest photoluminescence enhancement.

Journal Article↗

PubMed2005

Origins of blinking in single-molecule Raman spectroscopy.

We observe spectral and intensity fluctuations in Raman scattering from single molecules of 4-mercaptopyridine (4-Mpy) adsorbed on textured silver surfaces. We present evidence that the root cause of these fluctuations is thermal. Analysis of the spectra shows that in some cases the spectral changes are associated with molecular reorientation and in others with chemical reactions of the 4-Mpy. Analogous surfaces fully covered with 4-Mpy exhibit similar behavior, indicating that monolayer Raman spectra are dominated by a few molecules at most.

Journal Article↗

PubMed2004

DNA sequence detection using selective fluorescence quenching of tagged oligonucleotide probes by gold nanoparticles.

Simple, fast, economical, and sensitive detection of specific DNA sequences is crucial to pathogen detection and biomedical research. We have designed a novel fluorescent assay for DNA hybridization based on the electrostatic properties of DNA. We exploit the ability to create conditions where single-stranded DNA adsorbs on negatively charged gold nanoparticles while double-stranded DNA does not. Dye-tagged probe sequences have their fluorescence efficiently quenched when they are mixed with gold nanoparticles unless they hybridize with components of the analyte. Subfemtomole amounts of untagged target are detected in minutes using commercially available materials. Target sequences in complex mixtures of DNA and single-base mismatches in DNA sequences are easily detected.

Base Pair Mismatch↗

PubMed2004

Label-free colorimetric detection of specific sequences in genomic DNA amplified by the polymerase chain reaction.

We document the surprising result that single-stranded DNA adsorbs on negatively charged gold nanoparticles (Au-nps) with a rate that depends on sequence length and temperature. After ss-DNA adsorbs on Au-nps, we find that the particles are stabilized against salt-induced aggregation. These observations can be rationalized on the basis of electrostatics and form the basis for a colorimetric assay to identify specific sequences and single nucleotide polymorphisms on polymerase chain reaction (PCR)-amplified DNA. The assay is label-free, requires no covalent modification of the DNA or Au-np surfaces, and takes on the sensitivity of PCR. Most important, binding of target and probe takes place in solution where hybridization occurs in less than 1 min. As an example, we test PCR-amplified genomic DNA from clinical samples for single nucleotide polymorphisms (SNPs) associated with a fatal arrhythmia known as long QT syndrome.

Colorimetry↗

PubMed2004

Reflective interferometric detection of label-free oligonucleotides.

New chip-based methods for the detection of unmodified biomolecular targets have significant potential as enabling technology in fundamental biology and biomedical analysis. We report a method based on changes in reflectivity from specially fabricated substrates that is capable of detecting the binding of as little as an average of 0.2 nm (i.e., a fraction of a monolayer) of biomolecules. We demonstrate the method on detection of femtomole quantities of untagged oligonucleotides in an array format, showing that the amount of target bound can be determined quantitatively. The simplicity of the approach promises to make it broadly applicable for any biomolecule for which suitable molecular recognition chemistry is available.

Base Sequence↗

PubMed2003

The structural basis for giant enhancement enabling single-molecule Raman scattering.

We find that giant surface-enhanced Raman scattering for adsorbates on silver surfaces is present only on surfaces that exhibit self-similar fractal topology as inferred from atomic force microscopy. The fractal character results in localizing the energy of incident photons to volumes of a few nanometers on a side, millions of times smaller than the diffraction limit. Consistent with this finding, we have found an enhancement in spontaneous Raman cross section of >13 orders of magnitude for adsorbates on silver surfaces demonstrated to be fractal. The location of "hot spots" on the fractal surfaces is found to be hypersensitive to incident wavelength and polarization even though the observed Raman scattering is strictly linear in incident intensity. These observations are consistent with localization of the photon energy facilitated by the disordered nature of fractal organization through interference between the incident wave and scattered radiation from silver nanoparticle surface plasmons. We also present a surface preparation method that consistently produces fractal topologies that support single-molecule Raman scattering.

Journal Article↗