Hexagons to Ribbons: Flipping Cyanide on Au{111}.

Cyanide monolayers on Au{111} restructure from a hexagonal close-packed lattice to a mixed-orientation "ribbon" structure through thermal annealing. The new surface structure loses most of the observed surface features characterizing the initial as-adsorbed system with "ribbon" domain boundaries isolating rotationally offset surface regions where the orientation is guided by the underlying gold lattice. A blue shift to higher frequencies of the CN vibration to 2235 cm-1 with respect to the as-adsorbed CN/Au{111} vibration at 2146 cm-1 is observed. In addition, a new low-frequency mode is observed at 145 cm-1, suggesting a chemical environment change similar to gold-cyanide crystallization. We discuss this new structure with respect to a mixed cyanide/isocyanide monolayer and propose a bonding scheme consisting of Au-CN and Au-NC bound molecules that are oriented normal to the Au{111} surface.

X-ray spectroscopy characterization of self-assembled monolayers of nitrile-substituted oligo(phenylene ethynylene)s with variable chain length.

Self-assembled monolayers (SAMs) of nitrile-substituted oligo(phenylene ethynylene) thiols (NC-OPEn) with a variable chain length n (n ranging from one to three structural units) on Au(111) were studied by synchrotron-based high-resolution X-ray photoelectron spectroscopy and near-edge absorption fine-structure spectroscopy. The experimental data suggest that the NC-OPEn molecules form well-defined SAMs on Au(111), with all the molecules bound to the substrate through the gold-thiolate anchor and the nitrile tail groups located at the SAM-ambient interface. The packing density in these SAMs was found to be close to that of alkanethiolate monolayers on Au(111), independent of the chain length. Similar behavior was found for the molecular inclination, with an average tilt angle of ~33-36° for all the target systems. In contrast, the average twist of the OPEn backbone (planar conformation) was found to depend on the molecular length, being close to 45° for the films comprising the short OPE chains and ~53.5° for the long chains. Analysis of the data suggests that the attachment of the nitrile moiety, which served as a spectroscopic marker group, to the OPEn backbone did not significantly affect the molecular orientation in the SAMs.

Stimuli responsive release of metalic nanoparticles on semiconductor substrates.

Optically active metal nanoparticles have been of recent and broad interest for applications to biomarker detection because of their ability to enable high sensitivity enhancements in various optical detection techniques. Here, we report stimuli responsive release of metallic nanoparticles on a semiconductor thin film array structure based on pH change. The metallic nanoparticles are obtained by a simple redox procedure on the semiconductor surface. This approach allows controlling nanoparticle surface coatings in situ for biomolecule conjugation, such as DNA probes on nanoparticles, and rapid stimuli responsive release of these nanoparticles upon pH change.

Issues and challenges in vapor-deposited top metal contacts for molecule-based electronic devices.

Metal vapor deposition to form ohmic contacts is commonly used in the fabrication of organic electronic devices because of significant manufacturability advantages. In the case of single molecular layer devices, however, the extremely small thickness, typically ~1-2nm, presents serious challenges in achieving good contacts and device integrity. This review focuses on recent scientific aspects of metal vapor deposition on monolayer thickness molecular films, particularly self-assembled monolayers, ranging across mechanisms of metal nucleation, metal-molecular group interactions and chemical reactions, diffusion of metal atoms within and through organic films, and the correlations of these and other factors with device function. Results for both non-reactive and reactive metal deposition are reviewed. Finally, novel strategies are considered which show promise for providing highly reliable and durable metal/organic top contacts for use in metal-molecule-metal junctions for device applications.

Orbital-Symmetry-Dependent Electron Transfer through Molecules Assembled on Metal Substrates.

Femtosecond charge-transfer dynamics in self-assembled monolayers of cyano-terminated ethane-thiolate on gold substrates was investigated with the core hole clock method. By exploiting symmetry selection rules rather than energetic selection, electrons from the nitrogen K-shell are state-selectively excited into the two symmetry-split π* orbitals of the cyano end group with X-ray photons of well-defined polarization. The charge-transfer times from these temporarily occupied orbitals to the metal substrate differ significantly. Theoretical calculations show that these two π* orbitals extend differently onto the alkane backbone and the anchoring sulfur atom, thus causing the observed dependence of the electron-transfer dynamics on the symmetry of the orbital.

Robust, functionalizable, nanometer-thick poly(acrylic acid) films spontaneously assembled on oxidized aluminum substrates: structures and chemical properties.

Immersion of oxidized aluminum substrates in ethanol solutions of poly(acrylic acid) (PAA), followed by extensive solvent immersion, results in tenaciously chemisorbed, nanometer scale, controllable thickness films for a wide range of solution concentrations and molecular weights. Atomic force microscope images reveal isolated polymer globules from adsorption in low-concentration solutions with crossover to conformal, highly uniform, nanometer-thickness films at higher concentrations, an indication that the chemisorbing chains start to overlap and trap underlying segments to form planar chemisorbed films only two or three chains in thickness. Quantitative IR reflection spectroscopy in combination with chemical derivitization on a standard set of 1.0(±0.2) nm thick films reveals a film structure with 5.5(±1) chemisorbed -CO(-)(2) groups/nm(2) and 6.3 unattached -CO(2)H groups/nm(2), with up to ∼3.6/nm(2) available for chemical derivitization, a comparable number to typical self-assembled monolayer coverages of ∼4-5 molecules/nm(2). Thermal treatment of the ∼1 nm chemisorbed films, at even extreme temperatures of ∼150 °C, results in almost no anhydride formation via adjacent -CO(2)H condensation, in strong contrast to bulk PAA, a clear indication that the films have a frozen glass structure with effectively no segment and side group mobility. Overall, these results demonstrate that these limiting thickness nanometer films provide a model surface for understanding the behavior of strongly bound polymer chains at substrates and show potential as a path to creating highly stable, chemically functionalized inorganic substrates with highly variable surface properties.

Volumetric interpretation of protein adsorption: interfacial packing of protein adsorbed to hydrophobic surfaces from surface-saturating solution concentrations.

The maximum capacity of a hydrophobic adsorbent is interpreted in terms of square or hexagonal (cubic and face-centered-cubic, FCC) interfacial packing models of adsorbed blood proteins in a way that accommodates experimental measurements by the solution-depletion method and quartz-crystal-microbalance (QCM) for the human proteins serum albumin (HSA, 66 kDa), immunoglobulin G (IgG, 160 kDa), fibrinogen (Fib, 341 kDa), and immunoglobulin M (IgM, 1000 kDa). A simple analysis shows that adsorbent capacity is capped by a fixed mass/volume (e.g. mg/mL) surface-region (interphase) concentration and not molar concentration. Nearly analytical agreement between the packing models and experiment suggests that, at surface saturation, above-mentioned proteins assemble within the interphase in a manner that approximates a well-ordered array. HSA saturates a hydrophobic adsorbent with the equivalent of a single square or hexagonally-packed layer of hydrated molecules whereas the larger proteins occupy two-or-more layers, depending on the specific protein under consideration and analytical method used to measure adsorbate mass (solution depletion or QCM). Square or hexagonal (cubic and FCC) packing models cannot be clearly distinguished by comparison to experimental data. QCM measurement of adsorbent capacity is shown to be significantly different than that measured by solution depletion for similar hydrophobic adsorbents. The underlying reason is traced to the fact that QCM measures contribution of both core protein, water of hydration, and interphase water whereas solution depletion measures only the contribution of core protein. It is further shown that thickness of the interphase directly measured by QCM systematically exceeds that inferred from solution-depletion measurements, presumably because the static model used to interpret solution depletion does not accurately capture the complexities of the viscoelastic interfacial environment probed by QCM.

Spontaneous waveguide Raman spectroscopy of self-assembled monolayers in silica micropores.

Advances in nanoscience are critically dependent on the ability to control and probe chemical and physical phenomena in confined geometries. A key challenge is to identify confinement structures with high surface area to volume ratios and controlled surface boundaries that can be probed quantitatively at the molecular level. Herein we report an approach for probing molecular structures within nano- to microscale pores by the application of spontaneous Raman spectroscopy. We demonstrate the method by characterization of the structural features of picomole quantities of well-organized octadecyltrichlorosilane (OTS) monolayers self-assembled on the interior pore surfaces of high aspect ratio (1 µm diameter × 1-10 cm length), near-atomically smooth silica microstructured optical fibers (MOFs). The simple Raman backscattering collection geometry employed is well suited for a wide variety of diagnostic applications as demonstrated by tracking the combustion of the hydrocarbon chains of the OTS self-assembled monolayer (SAM) and spectral confirmation of the formation of an adsorbed monolayer of human serum albumin (HSA) protein. Using this MOF Raman approach, molecular processes in precisely defined, highly confined geometries can be probed at high pressures and temperatures, with a wide range of excitation wavelengths from the visible to the near-IR, and under other external perturbations such as electric and magnetic fields.

Crossed-nanowire molecular junctions: a new multispectroscopy platform for conduction--structure correlations.

We report a crossed-nanowire molecular junction array platform that enables direct measurement of current-voltage-temperature characteristics simultaneously with inelastic electron tunneling and Raman vibrational spectra on the same junction. Measurements on dithiol-terminated oligo(phenylene-ethynylene) junctions show both spectroscopies interrogate the gap-confined molecules to reveal distinct molecular features. This versatile platform allows investigation of advanced phenomena such as molecular switching and cooperative effects with the flexible ability to scale both the junction geometries and array sizes.

Molecular self-assembly at bare semiconductor surfaces: cooperative substrate-molecule effects in octadecanethiolate monolayer assemblies on GaAs(111), (110), and (100).

The structures of self-assembled monolayers formed by chemisorption of octadecanethiol onto the surfaces of GaAs(001), (110), (111-A)-Ga, and (111-B)-As have been characterized in detail by a combination of X-ray photoelectron, near-edge X-ray absorption fine structure, and infrared spectroscopies and grazing incidence X-ray diffraction. In all cases, the molecular lattices are ordered with hexagonal symmetry, even for the square and rectangular intrinsic substrate (001) and (110) lattices, and the adsorbate lattice spacings are all incommensurate with their respective intrinsic substrate lattices. These results definitively show that the monolayer organization is driven by intermolecular packing forces to assemble in a hexagonal motif, such as would occur in the approach to a limit for an energetically featureless surface. The accompanying introduction of strain into the soft substrate surface lattice via strong S substrate bonds forces the soft substrate lattice to compliantly respond, introducing quasi-2D strain. A notably poorer organization for the (111-A)-Ga case compared to the (111-B)-As and other faces indicates that that the Ga-terminated surface lattice is more resistant to adsorbate packing-induced stress. Overall, the results show that surface molecular self-assembly must be considered as a strongly cooperative process between the substrate surface and the adsorbate and that inorganic substrate surfaces should not be considered as necessarily rigid when strong intermolecular adsorbate packing forces are operative.

Moth olfactory trichoid sensilla exhibit nanoscale-level heterogeneity in surface lipid properties.

Chemical force microscopy (CFM) based on tapping mode Atomic force microscopy (AFM) utilized with topographic and phase-shift analyses was used to investigate the topography and surface chemical properties, respectively, of the long trichoid sensilla on the antennae of male Helicoverpa zea. AFM topographic imaging revealed regular series of step-ridges along nearly the entire length of each sensillum, except for the basal ca. 1/3 portions, which were devoid of such ridges. Inter-ridge regions were flat, with regularly spaced pores, ca. 30 nm in diameter populating these planar areas. Many pores exhibited a raised dome that often nearly completely spanned the depression, with only the edges of the depressed portion of the pore still visible. Some pores were observed also along the bases of the ridges. CFM probing of the surface for chemical interactions with the SiO(2) hydrophilic tip revealed consistently diminished hydrogen bonding of the ridge edge areas with the tip than along the flat planar inter-ridge regions. Surfaces of domes over the pores also tended to have less hydrogen bonding with the tip than the planar surfaces. Functionalizing the CFM tip by bonding octadecyl-hydrocarbon to it eliminated these surface chemical-CFM tip interactions and no differences in tip interaction with the sensillar surfaces were observed. Trichoid sensilla from the male antennae of a second species, Utethesia ornatrix, did not exhibit similar heterogeneity between ridge edges versus planar areas with regard to hydrogen bonding with the SiO(2) hydrophilic tip. Pores on U. ornatrix sensilla occurred only along the bases of ridges on their trichoid sensilla. We suggest that the surface lipids of the H. zea sensilla are distributed in a chemically heterogeneous fashion to aid adsorption and transport of aldehyde pheromone component molecules through the pores into the sensillum lumen, possibly through solubilization in an epicuticular lipid layer. The trichoid sensilla of U. ornatrix do not exhibit such surface chemical heterogeneity, and this species-difference may be due to the usage by U. ornatrix of hydrocarbon molecules rather than aldehydes for their sex pheromone components.

Nascent metal atom condensation in self-assembled monolayer matrices: coverage-driven morphology transitions from buried adlayers to electrically active metal atom nanofilaments to overlayer clusters during aluminum atom deposition on alkanethiolate/gold monolayers.

Al atom deposition with controlled coverages has been carried out on self-assembled monolayers (SAMs), prepared by assembly of HS(CH(2))(15)X, with X = -CH(3) (M-SAM) and -CO(2)CH(3) (ME-SAM), on Au {111} substrates, and the resulting structures and electrical properties analyzed in situ by ultrahigh-vacuum, multiple mode atomic force microscopy (contact, noncontact, and conducting probe) and infrared reflection spectroscopy. The M-SAM data clearly reveal a distinct morphology transition at approximately 3 Al atoms per adsorbate molecule (3 EL) from formation of a buried approximately 1:1 Al-Au adlayer at low coverages to metal overlayer cluster nucleation and the appearance of isolated metal nanofilaments with varied behaviors including Ohmic conduction, resistive switching (memristor), and vestiges of quantum-like conductance steps. The ME-SAM data confirm our earlier report of a highly efficient, 1:1 chemical trapping of initial nascent Al atoms by the terminal ester group while also revealing formation of isolated, conducting filaments, mainly at SAM defects, and the presence of an insulating overlayer up to approximately 5 EL. For both SAMs, despite the large thermochemical driving forces to exhaustively form inorganic products, subtle kinetic pathways guide the evolution of metal nanostructures within and contiguous to the SAM. Overall the experiments demonstrate a highly controlled, quantitative strategy for exploring the chemistry of nascent metal atoms with organic moieties as well as providing opportunities to generate novel metal nanostructures with significant implications for molecular and organic device applications.

Study of SERS chemical enhancement factors using buffer layer assisted growth of metal nanoparticles on self-assembled monolayers.

Highly controlled morphology Au nanoparticle films can be formed on the surfaces of self-assembled monolayers (SAMs) by vapor deposition at cryogenic temperatures (approximately 10 K) with intervening condensed Xe layers on the SAMs serving as a buffer to reduce the kinetic energy of the Au atoms impinging on the surface (buffer layer assisted growth or BLAG). Under these conditions pristine Au nanoparticles (AuNp) of a uniform shape and size were deposited onto two SAMs differing only by their terminal groups, 4-benzenedithiol (BDT) and 4-methylbenzenethiol (MBT), to form -S/Au and -CH(3)/Au interfaces with essentially identical AuNp overlayer morphologies. A surface enhanced Raman (SERS) enhancement factor ratio EF(BDT)/EF(MBT) of approximately 130 was observed uniformly across the surfaces (approximately <10% variation). Since equal electromagnetic contributions to the SERS enhancements are expected from the two identically structured Au overlayer films, the observed SERS intensity ratio accordingly reflects a pure chemical enhancement (CE) contribution arising from the -S/Au relative to the -CH(3)/Au interface and thereby provides the first quantitative experimental data for the magnitude of the SERS CE for well-defined Au-molecule contacts.

Tripod self-assembled monolayer on Au(111) prepared by reaction of hydroxyl-terminated alkylthiols with SiCl4.

Infrared reflection spectroscopy (IRS), single wavelength ellipsometry, and density functional theory were used to elucidate the structure of a molecular tripod self-assembled monolayer (SAM) on polycrystalline gold{111} substrates. The tripod SAM was formed by the reaction of SiCl4 with a densely packed monolayer of 2-mercaptoethanol, 6-mercaptohexanol, and 16-mercaptohexadecanol under inert atmosphere. After reaction with SiCl4, IRS spectra show an intense absorption at approximately 1112 cm(-1) that is attributed to Si-O-C asymmetric stretching vibration of a molecular tripod structure. Harmonic vibrational frequencies computed at the B3LYP/6-311+g** level of theory for the mercaptoethanol tripod SAM closely match the experimental IRS spectra, giving further support for the tripod structure. When rinsed with methanol or water, the Si-Cl-terminated SAM becomes capped with Si-OMe or Si-OH. The silanol-terminated tripod SAM is expected to find use in the preparation of thin zeolite and silica films on gold substrates.

Organosilane self-assembled monolayer growth from supercritical carbon dioxide in microstructured optical fiber capillary arrays.

Microstructured optical fibers form a new class of extreme aspect ratio templates that are well-suited for precise, designed spatial organization of materials and molecules at dimensions down to the nanoscale. The extreme aspect ratios of the nanoscale to microscale pores in the templates necessitates new approaches to fabrication of nanowires, nanotubes, and self-assembled monolayers within them. High-pressure fluids, which have lower viscosities than liquids and no surface tension, are well-suited for penetrating such extreme aspect ratio capillaries. Here we report an approach to fabricating self-assembled monolayers within microstructured optical fibers using near supercritical or supercritical carbon dioxide. An AFM-based "shaving" technique has been developed to characterize the monolayers formed in capillaries that are too small to allow for characterization by conventional approaches.

Effects of molecular structure and interfacial ligation on the precision of Cu-bound alpha,omega-mercaptoalkanoic acid "molecular ruler" stacks.

Nanolithography processes based on designed, precision thickness multilayer thin films (molecular rulers) have been reported that enable patterning of features on surfaces from a few to the hundred nanometer range. These strategies are unique in their potential ability to enable wafer scale patterning of features of just a few nanometers. If these techniques could be developed to be sufficiently precise and generally applicable, they would fill a long-standing need in nanoscience. In this study a systematic and detailed analysis of the growth mechanisms and molecular layer structures has been carried out for the mercaptoalkanoic acid-copper ion multilayer thin film system currently used as the standard nanolithography resist. Our results show these films form via a redox reaction of thiol groups with surface-ligated Cu(II) ions to form adlayers at only approximately 50% coverage with islanding of the alkyl chains, thereby leading to rough topographies and less than theoretical thicknesses based on a 1:1 ideal adlayer. Strategies are suggested to help overcome these issues for molecular resist applications in nanolithographic processing.

Preparation, structure, and optical properties of nanoporous gold thin films.

Thin nanoporous gold (np-Au) films, ranging in thickness from approximately 40 to 1600 nm, have been prepared by selective chemical etching of Ag from Ag/Au alloy films supported on planar substrates. A combination of scanning electron microscopy (SEM) imaging, synchrotron grazing incidence small angle X-ray scattering, and N2 adsorption surface area measurements shows the films to exhibit a porous structure with intertwined gold fibrils exhibiting a spectrum of feature sizes and spacings ranging from several to hundreds of nanometers. Spectroscopic ellipsometry measurements (300-800 nm) reveal the onset of surface plasmon types of features with increase of film thicknesses into the approximately 200 nm film thickness range. Raman scattering measurements for films functionalized with a self-assembled monolayer formed from 4-fluorobenzenethiol show significant enhancements which vary sharply with film thickness and etching times. The maximum enhancement factors reach approximately 10(4) for 632.8 nm excitation, peak sharply in the approximately 200 nm thickness range for films prepared at optimum etching times, and show high spot to spot reproducibility with approximately 1 microm laser spot sizes, an indication that these films could be useful as durable, highly reproducible surface-enhanced Raman substrates.

Molecular self-assembly at bare semiconductor surfaces: characterization of a homologous series of n-alkanethiolate monolayers on GaAs(001).

Structural trends for a homologous series of n-alkanethiolate self-assembled monolayers (SAMs), C(n)H(2n+1)S- with 12 < or = n < or = 19, on GaAs(001), studied by a combination of grazing incidence X-ray diffraction and infrared spectroscopy, along with ancillary probes, show an overall decay in organization with decreasing n, with the largest changes occurring below n = 15-16. The long-chain monolayers form a mosaic structure with < or =10 nm domains of molecules organized in an incommensurate pseudo-hcp arrangement with nearest neighbor distances of 4.70 and 5.02 A, a 21.2 A(2) area per chain, two chains per subcell in a herringbone packing with a chain tilt angle of 14 degrees , and preferential domain alignment along the substrate [110]([110]) step edge direction. In contrast, for n < 14 no evidence of translational ordering is seen and the alkyl chains exhibit a loss of conformational ordering and coverage relative to the n > 16 cases. A 4'-methyl-biphenyl-4-thiolate companion SAM shows evidence for ordered structures but with lattice parameters close to those expected for a structure commensurate with the intrinsic GaAs(001) square lattice. These trends are explained on the basis of competitions between lattice, interfacial, and intermolecular forces controlling the nanoscale structures of the SAMs. Overall these results provide an important aspect of understanding the effects of SAM formation on surface properties such as electronic and chemical passivation.

A simple technique to grow polymer brushes using in situ surface ligation of an organometallic initiator.

A simple approach is described here for the in-place synthesis of polymer brushes by surface-initiated polymerization. A cyano-terminated self-assembled monolayer on a gold surface was used to anchor a highly active cationic Pd organometallic initiator by ligand exchange. We grew ultrasmooth patterned poly(4-methoxystyrene) brushes with excellent thickness control at room temperature.

Controlling gold atom penetration through alkanethiolate self-assembled monolayers on Au{111} by adjusting terminal group intermolecular interactions.

The penetration behavior of thermally evaporated Au on S(CH(2))(15)CH(3), S(CH(2))(15)CO(2)CH(3), S(CH(2))(15)CO(2)H, K-modified S(CH(2))(15)CO(2)CH(3), and K-modified S(CH(2))(15)CO(2)H self-assembled monolayers (SAM) on Au substrates is investigated. Gold is a particularly interesting metal since vapor-deposited Au atoms are known to pass through alkanethiolate SAMs on Au{111} substrates at room temperature. Here we show that it is possible to control Au penetration by adjusting the interactions between terminal groups. It is found that Au atoms evenly penetrate into the CH(3) and CO(2)CH(3) films, forming smooth buried layers below the organic thin films. For the CO(2)H film, although Au atoms can still penetrate through it, filaments and mushroomlike clusters form due to H-bonding between film molecules. In the case of the K-modified CO(2)CH(3) or CO(2)H films, however, most Au atoms form islands at the vacuum interface. These results suggest that van der Waals forces and H-bonds are not strong enough to block Au from going through but that ionic interactions are able to block Au penetration. The measurements were performed primarily using time-of-flight secondary ion mass spectrometry (ToF-SIMS) and atomic force microscopy (AFM). The combination of these highly complementary probes provides a very useful strategy for the study of metal atom behavior on SAMs.