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Biomedical subjects

Liaohai Chen

Publications and source records attributed to Liaohai Chen.

10 recordsLinked to original sources
PubMed2006

Toward the detection of single virus particle in serum.

There is a grand challenge for the detection of target molecules at single molecule sensitivity in a bulk body fluid for the early diagnosis of diseases. We report our progress on tackling this challenge via the combination of fluorescence cross-correlation spectroscopy (FCCS) and micro fabricated devices toward highly sensitive detection of the dengue virus. We demonstrate that by using a dengue-specific antibody, we can probe the individual dengue virus in a nanomolar bulk solution by following the specific association of dengue antibody using FCCS. Consequently, we designed and fabricated a microfluidic chamber array structure and were able to compartmentalize the bulk aqueous dengue sample into femtoliter volumes using such a device. More importantly we demonstrate that we can differentiate between the compartments containing the dengue virus and the virus-free compartments. Our experiment suggests that by expanding the throughput using microfluidic devices integrated with FCCS, both of which can be achieved practically, we should be able to detect single virus particle in human body fluids in the near future.

Algorithms↗
PubMed2006

Experimentally tracing the key steps in the origin of life: The aromatic world.

Life is generally believed to emerge on Earth, to be at least functionally similar to life as we know it today, and to be much simpler than modern life. Although minimal life is notoriously difficult to define, a molecular system can be considered alive if it turns resources into building blocks, replicates, and evolves. Primitive life may have consisted of a compartmentalized genetic system coupled with an energy-harvesting mechanism. How prebiotic building blocks self-assemble and transform themselves into a minimal living system can be broken into two questions: (1) How can prebiotic building blocks form containers, metabolic networks, and informational polymers? (2) How can these three components cooperatively organize to form a protocell that satisfies the minimal requirements for a living system? The functional integration of these components is a difficult puzzle that requires cooperation among all the aspects of protocell assembly: starting material, reaction mechanisms, thermodynamics, and the integration of the inheritance, metabolism, and container functionalities. Protocells may have been self-assembled from components different from those used in modern biochemistry. We propose that assemblies based on aromatic hydrocarbons may have been the most abundant flexible and stable organic materials on the primitive Earth and discuss their possible integration into a minimal life form. In this paper we attempt to combine current knowledge of the composition of prebiotic organic material of extraterrestrial and terrestrial origin, and put these in the context of possible prebiotic scenarios. We also describe laboratory experiments that might help clarify the transition from nonliving to living matter using aromatic material. This paper presents an interdisciplinary approach to interface state of the art knowledge in astrochemistry, prebiotic chemistry, and artificial life research.

Hydrocarbons, Aromatic↗
PubMed2006

Hole-enhanced Raman scattering.

Stokes and anti-Stokes non-resonant hole-enhanced Raman scattering (HERS) spectra with high signal-to-noise ratio (S/N) are reported for the first time for aqueous phase R6G molecules adsorbed onto random nanoholes in thin gold films. Compared to conventional surface-enhanced Raman scattering from nanometric gold colloid particles, HERS exhibits higher strength gain, exceptional reproducibility, simple and reliable substrate preparation, and excellent mechanical stability. By correlating the hole density with Raman scattering gain, we determined optimum HERS gain for 50 nm diameter holes at approximately 100 holes/microm(2). Providing a Raman substrate with uniform "hot spots", we expect that HERS will make the quantitative Raman analysis of biological molecules possible.

Journal Article↗
PubMed2005

Enhanced conjugated polymer fluorescence quenching by dipyridinium-based quenchers in the presence of surfactant.

Poly[(2-methoxy-5-propyloxysulfonate)phenylene vinylene] (MPS-PPV) was synthesized directly from its bischloromethylated monomer, considerably reducing the total number of steps involved in the polymer preparation. For the first time, a simple technique of ultracentrifugation was employed for final purification of the polymer. The interactions among the polymer, surfactant, and quencher molecules, as well as amplified fluorescence quenching and fluorescence enhancement associated with the interactions, were investigated and discussed. When compared with methyl viologen [MV]2+, higher values of Stern-Volmer constant K(SV) values on the order of > or =10(7) M(-1) were observed for the newly synthesized N-(2-carboxyhexadecanoyl)-N'-methyl-4,4'-bipyridinium iodide bromide ([CHMB]2+) quencher in the presence of 1,2-dioleoyl-3- trimethylammonium propane (DOTAP) surfactant. Comparisons of surfactants demonstrated that the K(SV) of [CHMB]2+ was 10-fold higher in the presence of dodecyltrimethylammonium bromide (DTAB) surfactant than with DOTAP. Polymer fluorescence was totally recovered upon addition of DOTAP surfactant to a MV-quenched polymer system, whereas only 50% of fluorescence was recovered upon addition of DOTAP surfactant to the CHMB-quenched polymer solution. In contrast, no fluorescence was recovered when DTAB was added to either the MV- or CHMB-quenched polymer systems. Thus, fluorescence enhancement was observed for the polymer complex with DOTAP, whereas fluorescence quenching was predominant in the polymer complex with DTAB. Such studies will not only help to better understand the intrinsic properties of the ionic conjugated polymer and amplified fluorescence quenching and enhancement but also provide guidelines to develop the next generation of ionic conjugated-polymer-based biosensors.

Fluorescence↗
PubMed2004

Proto-organism kinetics: evolutionary dynamics of lipid aggregates with genes and metabolism.

A synthetic proto-organism could be self-assembled by integrating a lipid proto-container with a proto-metabolic subsystem and a proto-genetic subsystem. This three-component system can use energy and nutrients by means of either redox or photo-chemical reactions, evolve its protogenome by means of template directed replication, and ultimately die. The evolutionary dynamics of the proto-organism depends crucially on the chemical kinetics of its sub-systems and on their interplay. In this work the template replication kinetics is investigated and it is found that the product inhibition inherent in the ligation-like replication process allows for coexistence of unrelated self-replicating proto-genes in the lipid surface layer. The combined catalytic effects from the proto-genes on the metabolic production rates determine the fate of the strain protocell.

Evolution, Molecular↗
PubMed2004

Characterizing specific phage-protein interactions by fluorescence correlation spectroscopy.

The interactions of several affinity reagent displayed T7 and M13 phage particles with their corresponding target molecules were examined using Fluorescence Correlation Spectroscopy (FCS). Diffusion times, relative fractions of each component in the recognition reactions at the equilibrium state, and ultimately the dissociation constants were deduced from analyzing the fluorescence autocorrelation curves. Although the sample preparation and FCS characterization of icosahedral T7-related systems were relatively straight forward, procedures with filamentous M13-related systems were complicated by the physical size of M13 and its aggregate formation. Methods that accommodate the FCS measurement of the M13 phage via changing confocal optics, fitting procedures, and aggregate discrimination are presented and discussed.

Antibodies, Monoclonal↗
PubMed2003

Bridging nonliving and living matter.

Assembling non-biological materials (geomaterials) into a proto-organism constitutes a bridge between nonliving and living matter. In this article we present a simple step-by-step route to assemble a proto-organism. Many pictures have been proposed to describe this transition within the origins-of-life and artificial life communities, and more recently alternative pictures have been emerging from advances in nanoscience and biotechnology. The proposed proto-organism lends itself to both traditions and defines a new picture based on a simple idea: Given a set of required functionalities, minimize the physicochemical structures that support these functionalities, and make sure that all structures self-assemble and mutually enhance each other's existence. The result is the first concrete, rational design of a simple physicochemical system that integrates the key functionalities in a thermodynamically favorable manner as a lipid aggregate integrates proto-genes and a proto-metabolism. Under external pumping of free energy, the metabolic processes produce the required building blocks, and only specific gene sequences enhance the metabolic kinetics sufficiently for the whole system to survive. We propose an experimental implementation of the proto-organism with a discussion of our experimental results, together with relevant results produced by other experimental groups, and we specify what is still missing experimentally. Identifying the missing steps is just as important as providing the road map for the transition. We derive the kinetic and thermodynamic conditions of each of the proto-organism subsystems together with relevant theoretical and computational results about these subsystems. We present and discuss detailed 3D simulations of the lipid aggregation processes. From the reaction kinetics we derive analytical aggregate size distributions, and derive key properties of the metabolic efficiency and stability. Thermodynamics and kinetics of the ligation directed self-replication of the proto-genes is discussed, and we summarize the full life cycle of the proto-organism by comparing size, replication time, and energy with the biomass efficiency of contemporary unicells. Finally, we also compare our proto-organism picture with existing origins-of-life and protocell pictures. By assembling one possible bridge between nonliving and living matter we hope to provide a piece in the ancient puzzle about who we are and where we come from.

Artificial Intelligence↗
PubMedDate not supplied

Synthesis and characterization of a photocleavable cross-linker and its application on tunable surface modification and protein photodelivery.

A heterobifunctional photocleavable cross-linker based on an o-nitrobenzyl ester moiety was synthesized. The cross-linker has N-hydroxysuccinimidyl and disulfide groups attached at each end and thus can anchor a protein to a gold-coated substrate surface. Steady-state spectroscopic studies suggest that the cross-linker undergoes a clean C-O fragmentation upon irradiation with a quantum yield of 0.1. Consequently, immobilized proteins (such as avidin or antibodies) on a substrate surface can be released efficiently (>95%) under UV irradiation (lambda > 300 nm) without degrading the protein functionality. We also demonstrated protein delivery via bioconjugation of protein molecules to a gold-coated atomic-force microscope (AFM) tip. When the proteins are photoreleased from the AFM tip, they are delivered to the substrate surface as protein clusters of uniform size. This has been confirmed using both AFM and fluorescence microscopy. The application of bioconjugation in this study opens a new avenue for tunable surface modification and controllable protein delivery in studies of biological systems on the nanometer scale.

Cross-Linking Reagents↗
PubMedDate not supplied

A novel fluorescent probe: europium complex hybridized T7 phage.

We report on the creation of a novel fluorescent probe of europium-complex hybridized T7 phage. It was made by filling a ligand-displayed T7 ghost phage with a fluorescent europium complex particle. The structure of the hybridized phage, which contains a fluorescent inorganic core surrounded by a ligand-displayed capsid shell, was confirmed by electron microscope, energy-dispersive X-ray analysis (EDX), bioassays, and fluorescence spectrometer. More importantly, as a benefit of the phage display technology, the hybridized phage has the capability to integrate an affinity reagent against virtually any target molecules. The approach provides an original method to fluorescently "tag" a bioligand and/or to "biofunctionalize" a fluorophore particle. By using other types of materials such as radioactive or magnetic particles to fill the ghost phage, we envision that the hybridized phages represent a new class of fluorescent, magnetic, or radioprobes for imaging and bioassays and could be used both in vitro and in vivo.

Bacteriophage T7↗