Nanoparticle-based bio-barcode assay redefines "undetectable" PSA and biochemical recurrence after radical prostatectomy.

We report the development of a previously undescribed gold nanoparticle bio-barcode assay probe for the detection of prostate specific antigen (PSA) at 330 fg/mL, automation of the assay, and the results of a clinical pilot study designed to assess the ability of the assay to detect PSA in the serum of 18 men who have undergone radical prostatectomy for prostate cancer. Due to a lack of sensitivity, available PSA immunoassays are often not capable of detecting PSA in the serum of men after radical prostatectomy. This new bio-barcode PSA assay is approximately 300 times more sensitive than commercial immunoassays. Significantly, with the barcode assay, every patient in this cohort had a measurable serum PSA level after radical prostatectomy. Patients were separated into categories based on PSA levels as a function of time. One group of patients showed low levels of PSA with no significant increase with time and did not recur. Others showed, at some point postprostatectomy, rising PSA levels. The majority recurred. Therefore, this new ultrasensitive assay points to significant possible outcomes: (i) The ability to tell patients, who have undetectable PSA levels with conventional assays, but detectable and nonrising levels with the barcode assay, that their cancer will not recur. (ii) The ability to assign recurrence earlier because of the ability to measure increasing levels of PSA before conventional tools can make such assignments. (iii) The ability to use PSA levels that are not detectable with conventional assays to follow the response of patients to adjuvant or salvage therapies.

Gram-scale synthesis of aqueous gold colloids stabilized by various ligands.

We have developed a method for the large-scale synthesis of gold nanoparticles (Au NPs) in an aqueous medium stabilized by various water-soluble ligands. Significantly, the narrow size-distribution of the particles is achieved without employing size-selective procedures. The versatility of the procedure is demonstrated for the preparation of three colloidal systems stabilized by different ligands. Transmission electron microscopy (TEM), zeta-potential measurements and UV-vis spectroscopy are used to characterize the three colloidal systems.

A microfluidic detection system based upon a surface immobilized biobarcode assay.

The biobarcode assay (BCA) is capable of achieving low detection limits and high specificity for both protein and DNA targets. The realization of a BCA in a microfluidic format presents unique opportunities and challenges. In this work, we describe a modified form of the BCA called the surface immobilized biobarcode assay (SI-BCA). The SI-BCA employs microchannel walls functionalized with antibodies that bind with the intended targets. Compared with the conventional BCA, it reduces the system complexity and results in shortened process time, which is attributed to significantly reduced diffusion times in the micro-scale channels. Raw serum samples, without any pretreatment, were evaluated with this technique. Prostate specific antigen in the samples was detected at concentrations ranging from 40 pM to 40 fM. The detection limit of the assay using buffer samples is 10 fM. The entire assay, from sample injection to final data analysis was completed in 80 min.

DNA-induced size-selective separation of mixtures of gold nanoparticles.

We present a novel method for size-selectively separating mixtures of nanoparticles in aqueous media utilizing the inherent chemical recognition properties of DNA and the cooperative binding properties of DNA-functionalized gold nanoparticles. We have determined that the melting temperatures (T(m)s) of aggregates formed from nanoparticles interconnected by duplex DNA are dependent upon particle size. This effect is proposed to derive from larger contact areas between the larger particles and therefore increased cooperativity, leading to higher T(m)s. The separation protocol involves taking two aliquots of a mixture of particles that vary in size and functionalizing them with complementary DNA. These aliquots are mixed at a temperature above the T(m) for aggregates formed from the smaller particles but below the T(m) for aggregates formed from the larger particles. Therefore, the aggregates that form consist almost exclusively of the larger particles and can be easily separated by sedimentation and centrifugation from the smaller dispersed particles. This unusual size-dependent behavior and separation protocol are demonstrated for three binary mixtures of particles and one ternary mixture.

Multiplexed detection of protein cancer markers with biobarcoded nanoparticle probes.

We have developed the chemistry for preparing a universal probe and the appropriate nano- and microparticle labels that can be used to do highly selective multiplexed detection of three protein cancer markers at low-femtomolar concentration in buffer and serum media. The approach relies on a new multiplexed version of the biobarcode amplification method and offers new opportunities for studying multiple protein markers in a single sample. This could lead to new forms of disease diagnosis and monitoring disease recurrence in a variety of settings.

A bio-bar-code assay based upon dithiothreitol-induced oligonucleotide release.

The recently developed bio-bar-code assay for the PCR-less detection of protein and nucleic acid targets has been shown to be extraordinarily sensitive, exhibiting low attomolar sensitivity for protein targets and high zeptomolar sensitivity for nucleic acid targets. In the case of DNA detection, the original assay relies on three distinct oligonucleotide strands on a single nanoparticle for target identification and signal amplification. Herein, we report the development of a new nanoparticle probe that can be used in the bio-bar-code assay, which requires only one thiolated oligonucleotide strand. This new assay relies on the ability to liberate the adsorbed thiolated oligonucleotides from the gold nanoparticle surface with dithiothreitol (DTT), which simplifies the assay and increases its quantitative capabilities. The utility of this new DTT-based system is demonstrated by detecting a mock mRNA target using both fluorescent and scanometric assay readouts. When the scanometric readout is used, the sensitivity of the assay is 7 aM and quantification can be accomplished over the low-attomolar to the mid-femtomolar concentration range.

Three-layer composite magnetic nanoparticle probes for DNA.

A method for synthesizing composite nanoparticles with a gold shell, an Fe3O4 inner shell, and a silica core has been developed. The approach utilizes positively charged amino-modified SiO2 particles as templates for the assembly of negatively charged 15 nm superparamagnetic water-soluble Fe3O4 nanoparticles. The SiO2-Fe3O4 particles electrostatically attract 1-3 nm Au nanoparticle seeds that act in a subsequent step as nucleation sites for the formation of a continuous gold shell around the SiO2-Fe3O4 particles upon HAuCl4 reduction. The three-layer magnetic nanoparticles, when functionalized with oligonucleotides, exhibit the surface chemistry, optical properties, and cooperative DNA binding properties of gold nanoparticle probes, but the magnetic properties of the Fe3O4 inner shell.

Reversible transformations of gold nanoparticle morphology.

Herein is reported a metamorphosis taking place in a gold nanosized system. The observed phenomenon of shape and size transformations was found to be completely reversible. Unlike most procedures in the literature where shape and size control occur in the synthetic step by adding growth- and shape-controlling agents such as surfactants or polymers, in this system postsynthetic changes in shape and size can be carried out simply by changing the ratio of reactive, competing reagents, more specifically, alkylthiols versus tetralkylammonium salts. Interestingly, the transfer of gold metal occurs (large prismatic particles to small particles and vice versa) under the influence of reagents that do not cause such interactions with bulk gold. All intermediate steps of the morphology change were observed using HRTEM and electron diffraction. The processes of breaking down and "welding back" solid metal nanoparticles occur under mild conditions and are remarkable examples of the unique chemical properties of nanomaterials. The described process is expected to be relevant to other nanoscale systems where similar structural circumstances could occur.

Bio-bar-code-based DNA detection with PCR-like sensitivity.

Novel two-component oligonucleotide-modified nanoparticle probes have been designed and used in a bio-bar-code assay with a 500 zeptomolar target DNA sensitivity limit.

Gold nanoparticles as catalysts for polymerization of alkylsilanes to siloxane nanowires, filaments, and tubes.

Nanoparticles of gold prepared by condensation of gold vapor in cold pentanone serve as active catalysts for the polymerization of an alkylsilane C18H35SiH3 with water, to form nanowires and filaments. This reaction takes place under relatively mild conditions (refluxing pentanone).