Patterning small-molecule biocapture surfaces: microcontact insertion printing vs. photolithography.

Chemical patterns prepared by self-assembly, combined with soft lithography or photolithography, are directly compared. Pattern fidelity can be controlled in both cases but patterning at the low densities necessary for small-molecule probe capture of large biomolecule targets is better accomplished using microcontact insertion printing (µCIP). Surfaces patterned by µCIP are used to capture biomolecule binding partners for the small molecules dopamine and biotin.

Microdisplacement printing.

We describe a new patterning technique that employs microcontact printing to replace preformed labile self-assembled monolayers (SAMs) selectively; we call this "microdisplacement printing". We demonstrate that this technique results in ordered molecular regions of both the patterning ("displacing") molecule as well as the remnant labile film, here 1-adamantanethiolate. The existence of the 1-adamantanethiolate SAM before patterning hinders lateral surface diffusion of the patterning molecules, and therefore permits the use of molecules that are otherwise too mobile to pattern by other methods.

Controlling and measuring local composition and properties in lipid bilayer membranes.

Local composition, structure, morphology, and phase are interrelated in lipid bilayer membranes. This gives us the opportunity to control one or more of these properties by manipulating others. We investigate theserelationships with combinations of simultaneous two-color widefield fluorescence imaging, three-dimensional rendering of vesicle domains, andmanipulation of the vesicle morphology via optical trapping and micropipetteaspiration. We describe methods to modulate, to measure, and to probe thelocal structure of model membranes through control of membrane curvature inliposomes.

Conductance switching in single molecules through conformational changes.

We tracked over time the conductance switching of single and bundled phenylene ethynylene oligomers isolated in matrices of alkanethiolate monolayers. The persistence times for isolated and bundled molecules in either the ON or OFF switch state range from seconds to tens of hours. When the surrounding matrix is well ordered, the rate at which the inserted molecules switch is low. Conversely, when the surrounding matrix is poorly ordered, the inserted molecules switch more often. We conclude that the switching is a result of conformational changes in the molecules or bundles, rather than electrostatic effects of charge transfer.

Adsorbate-substrate vibrational modes of benzene on Ag(110) resolved with scanning tunneling spectroscopy.

Using a low temperature scanning tunneling microscope, we have detected low energy adsorbate-substrate (external or frustrated) vibrational modes of benzene molecules adsorbed on a Ag(110) surface. We demonstrate that such vibrations represent a fingerprint of the molecules' chemical state and environment; two different vibrational spectra are measured on molecules populating two different adsorption states. We also find that the distortion of the adsorption geometry of the molecules may give rise to the excitation of additional (initially hidden) modes. Important differences in the spatial distribution of the inelastic signal are also observed for these external modes.

Atomic-scale dynamics of a two-dimensional gas-solid interface.

The interface between a two-dimensional (2D) molecular gas and a 2D molecular solid has been imaged with a low-temperature, ultrahigh-vacuum scanning tunneling microscope. The solid consists of benzene molecules strongly bound to step edges on a Cu{111} surface. Benzene molecules on the Cu{111} terraces move freely as a 2D gas at 77 kelvin. Benzene molecules transiently occupy well-defined adsorption sites at the 1D edge of the 2D solid. Diffusion of molecules between these sites and exchange between the two phases at the interface are observed. On raised terraces of the copper surface, the 2D gas is held in a cage of the solid as in a 2D nanometer-scale gas bulb.

Time-resolved absorption, circular dichroism, and emission of tRNA. Evidence that the photo-cross-linking of 4-thiouridine in tRNA occurs from the triplet state.

The time-resolved optical density (TROD) and time-resolved circular dichroism (TRCD) spectra of the lowest triplet state of 4-thiouridine (4t-Urd) in aqueous solutions of tRNA are reported. The TROD spectrum is consistent with the triplet state being primarily in the thione tautomer. The intersystem crossing yield to the triplet is 0.35 and 0.27 (+/- 10%), respectively, with and without 10(-2) Mg2+ added to the solution. Upon addition of increasing amounts of I- to solutions of tRNA, the initial triplet yield decreases, the rate of the observed triplet decay increases, and the quantum yield of internal photo-cross-linking decreases for the 4t-Urd chromophore. The results show quantitatively that the near-UV-induced photo-cross-linking reaction in tRNA occurs from the triplet state of 4t-Urd. From the TRCD spectrum the dissymmetry factor (delta epsilon/epsilon) of some of the triplet-triplet absorption bands is shown to be significantly larger than for any of the ground-state absorption bands. Two CD transitions are seen in the triplet-triplet spectrum which are obscured in the TROD spectrum by the strong ground-state bleaching signal near 335 nm. This shows that TRCD may be useful, in some cases, in locating electronic transitions that are not observed in TROD spectra.