Combined STM and FTIR characterization of terphenylalkanethiol monolayers on Au(111): effect of alkyl chain length and deposition temperature

Self-assembled monolayers (SAMs) of 4,4'-terphenyl-substituted alkanethiols C6H5(C6H4)2(CH2)n-SH (TPn, n = 1-6) on Au (111) substrates were studied using scanning tunneling microscopy (STM) and infrared reflection absorption spectroscopy (IRRAS). When the SAMs were prepared at room temperature (RT, 298 K), TPn films (except TP2) exhibit an odd-even effect regarding both molecular orientation and packing density. For all investigated films, STM data reveals the presence of a large degree of lateral order. In the case of odd-numbered TPns, the films revealed a (2 square root(3) x square root(3))R30 degree molecular arrangement. For the even-numbered TP4 and TP6 SAMs, a c(5 square root(3) x 3) rectangular unit cell was found. The packing density for the even-numbered TPn SAMs is 25% lower than that for the odd-numbered TPn SAMs. When the SAMs were prepared at 333 K, the even-numbered SAMs were found to form structures with a significantly lower packing density. In the case of TP2, instead of the (2 square root(3) x square root(3))R30 degree structure formed at room temperature, a c(5 square root(3) x 3) structure was observed. For TP6 SAMs, the room-temperature c(5 square root(3) x 3) structure was replaced by a (6 square root(3) x 2 square root(3))R30 degree structure.     

Structural characterization of aldehyde-terminated self-assembled monolayers

The structure of aldehyde-terminated alkanethiol self-assembled monolayers (SAMs) on Au(111) is investigated using scanning tunneling microscopy (STM), atomic force microscopy (AFM), and density functional theory (DFT) calculations. For the first time, the structures of aldehyde-terminated SAMs are revealed with molecular resolution. SAMs of 11-mercapto-1-undecanal exhibit the basic (radical3xradical3)R30 degrees periodicity and form various c(4x2) superstructures upon annealing. In conjunction with DFT studies, the models of the (radical3xradical3)R30 degrees and the c(4x2) superstructures are constructed. In comparison with alkanethiol SAMs, the introduction of aldehyde-termini results in smaller domain size, lower degree of long-range order, large coverage of disordered areas, and higher density of missing molecules and other point defects within domains of closely packed molecules. The origin of these structural differences is mainly attributed to the strong dipole-dipole interactions among the aldehyde termini.     

Self-assembled monolayers on Pt(111): molecular packing structure and strain effects observed by scanning tunneling microscopy

Self-assembled monolayers (SAMs) of octanethiol and benzeneethanethiol were deposited on clean Pt(111) surfaces in ultrahigh vacuum (UHV). Highly resolved images of these SAMs produced by an in situ scanning tunneling microscope (STM) showed that both systems organize into a super-structure mosaic of domains of locally ordered, closely packed molecules. Analysis of the STM images indicated a (square root 3 x square root 3)R30 degrees unit cell for the octanethiol SAMs and a 4(square root 3 x square root 3)R30 degrees periodicity based on 2 x 2 basic molecular packing for the benzeneethanethiol SAMs under the coverage conditions investigated. SAMs on Pt(111) exhibited differences in molecular packing and a lower density of disordered regions than SAMs on Au(111). Electron transport measurements were performed using scanning tunneling spectroscopy. Benzeneethanethiol/Pt(111) junctions exhibited a higher conductance than octanethiol/Pt(111) junctions.     

Formation of ordered self-assembled monolayers by adsorption of octylthiocyanates on Au(111)

Self-assembled monolayers (SAMs) were formed by the spontaneous adsorption of octythiocyanate (OTC) on Au(111) using both solution and ambient-pressure vapor deposition methods at room temperature and 50 degrees C. The surface structures and adsorption characteristics of the OTC SAMs on Au(111) were characterized by scanning tunneling microscopy (STM) and X-ray photoelectron spectroscopy (XPS). The STM observation showed that OTC SAMs formed in solution at room temperature have unique surface structures including the formation of ordered and disordered domains, vacancy islands, and structural defects. Moreover, we revealed for the first time that the adsorption of OTC on Au(111) in solution at 50 degrees C led to the formation of SAMs containing small ordered domains, whereas the SAMs formed by vapor deposition at 50 degrees C had long-range ordered domains, which can be described as (radical3 x 2 radical19)R5 degrees structures. XPS measurements of the peaks in the S 2p and N 1s regions for the OTC SAMs showed that vapor deposition is the more effective method as compared to solution deposition for obtaining high-quality SAMs by adsorption of OTC on gold. The results obtained will be very useful in understanding the SAM formation of organic thiocyanates on gold surfaces.     

Ambient-pressure vapor deposition of octanethiol self-assembled monolayers

Scanning tunneling microscopy was used to characterize self-assembled monolayers (SAMs) of octanethiol on Au(111), created using vapor deposition at elevated temperatures and ambient pressure. Monolayers contained large, close-packed ( radical3 x radical3)R30 degrees domains with sizes considerably larger than those typically formed from conventional solution-phase preparation and with crystallographically straight domain boundaries. New striped surface phases were also observed, including a 13 x radical3 phase with a density that was 69% of the close-packed density; these striped phases appeared topographically higher in STM images than close-packed monolayers.     

Time-dependent organization and wettability of decanethiol self-assembled monolayer on Au(111) investigated with STM

A detailed study on the time-dependent organization of a decanethiol self-assembled monolayer (SAM) at a designed solution concentration onto a Au(111) surface has been performed with scanning tunneling microscopy (STM). The SAMs were prepared by immersing Au(111) into an ethanol solution containing 1 microM decanethiol with different immersion times. STM images revealed the formation process and adlayer structure of the SAMs. It was found that the molecules self-organized into adlayers from random separation to a well-defined structure. From 10 s, small domains with ordered molecular organization appeared, although random molecules could be observed on Au(111) at the very initial stage. At 30 s, the SAM consisted of uniform short stripes. Each stripe consisted of sets of decanethiol mainly containing eight molecules. With the immersion time increasing, the length of the stripes increased. At 5 min, the alkyl chains overlapped each other between the adjacent stripes, indicating the start of a stacked process. After immersing Au(111) in decanethiol solution for 3 days, a densely packed adlayer with a (radical 3 x radical 3)R30 degrees structure was observed. The formation process and structure of decanethiol SAMs are well related to sample preparation conditions. The wettability of the decanethiolate SAM-modified Au(111) surface was also investigated.     

Self-assembled monolayers of aromatic selenolates on noble metal substrates

Self-assembled monolayers (SAMs) formed from bis(biphenyl-4-yl) diselenide (BBPDSe) on Au(111) and Ag(111) substrates have been characterized by high-resolution X-ray photoelectron spectroscopy, near-edge X-ray absorption fine structure spectroscopy, infrared reflection absorption spectroscopy, water contact angle measurements, and scanning tunneling microscopy (STM). BBPDSe was found to form contamination-free, densely packed, and well-ordered biphenyl selenolate (BPSe) SAMs on both Au and Ag. Spectroscopic data suggest very similar packing density, orientational order, and molecular inclination in BPSe/Au and BPSe/Ag. STM data give a similar intermolecular spacing of 5.3 +/- 0.4 A on both Au and Ag but exhibit differences in the exact arrangement of the BPSe molecules on these two substrates, with the (2 square root[3] x square root[3])R30 degrees and (square root[3] x square root[3])R30 degrees unit cells on Au and Ag, respectively. There is strong evidence for adsorbate-mediated substrate restructuring in the case of Au, whereas no clear statement on this issue can be made in the case of Ag. The film quality of the BPSe SAMs is superior to their thiol analogues, which is presumably related to a better ability of the selenolates to adjust the surface lattice of the substrate to the most favorable 2D arrangement of the adsorbate molecules. This suggests that aromatic selenolates represent an attractive alternative to the respective thiols.     

Long-range self-assembly of a polyunsaturated linear organosilane at the n-tetradecane/Au(111) interface studied by STM

We report on the formation of self-assembled monolayers of 13-(trimethylsilyl)-1-tridecene-6,12-diyne [C13H17-Si(CH3)3], an organosilane derivative with a linear polyunsaturated chain, on Au(111) substrates. Molecular resolution STM images recorded at the liquid-solid interface between gold and tetradecane reveal a long-range and densely packed hexagonal lattice with a ( radical3 x radical3)R30 degrees -like structure commensurate against gold adlattice.     

Scanning tunneling microscopy investigation of the structure of methanethiolate on Ag(111)

Scanning tunneling microscopy (STM) has been used to investigate the structure of the ordered methanethiolate overlayer formed on Ag(111) by reaction at room temperature with dimethyl disulfide. High-resolution images show an ordered structure with three inequivalent atomic-scale protrusions within each ( radical7 x radical7)R19 degrees surface unit mesh which can be reconciled with methanethiolate species on a regular lateral submesh, similar to that proposed in the multilayer ( radical7 x radical7)R19 degrees -S sulfide phase previously reported. STM imaging during dynamic dosing also provides evidence for a significant change in the outermost layer Ag atom density, consistent with a reconstructed surface model. Possible models for this reconstruction are presented and discussed in the light of available information.     

Effect of adlayer structure on the host-guest recognition between calcium and crown-ether-substituted phthalocyanine arrays on Au single-crystal surfaces.

Adlayers of 15-crown-5-ether-substituted cobalt(II) phthalocyanine (CoCRPc) were prepared by immersion of either Au(111) or Au(100) substrate into benzene-ethanol (9:1 v/v) mixed solutions containing CoCRPc. In situ STM imaging was carried out after transferring the CoCRPc-modified Au crystals into aqueous HClO(4) solution. The packing arrangement of the CoCRPc array on Au(111) was determined to be p(8 x 4 radical 3R - 30 degrees ), and the internal structure was clearly observed by high-resolution STM. Two adlayer structures of CoCRPc, (8 x 9) and (4 radical 5 x 4 radical 5)R26.7 degrees, were found on the Au(100)-(1 x 1) terrace. In the presence of 1 mM Ca(2+), two Ca(2+) ions were trapped in two diagonally located 15-crown-5-ether moieties of each CoCRPc molecule on Au(111), whereas encapsulation of Ca(2+) ions was not seen in the CoCRPc arrays on the Au(100)-(1 x 1) surface. The present study demonstrates that the relationship between crown moieties of CRPc and the underlying Au lattice is important in the trapping of Ca(2+) ions in crown rings.     

Self-assembled monolayers of benzylmercaptan and p-cyanobenzylmercaptan on Au(111) surfaces: structural and spectroscopic characterization

The formation of self-assembled monolayers of benzylmercaptan (BM) and p-cyanobenzylmercaptan (pCBM) on Au(111) surfaces is investigated by a combination of X-ray photoelectron spectroscopy (XPS), near-edge X-ray absorption fine structure (NEXAFS), and scanning tunneling microscopy (STM). The NEXAFS results of pCBM are supported by ab initio calculations. It is found that BM as well as pCBM form well-ordered monolayers with the molecules oriented almost perpendicular to the surface. BM forms a ( radical 3 x radical 3)R30 degrees structure whereas pCBM forms a slightly different c(7 x 7) hexagonal structure. No phase separation is detected for the adsorption of a 1:1 mixture of the two molecules. The implications of the results for the covalent attachment of transition-metal complexes to thiol-functionalized surfaces are discussed.     

Self-assembly of semifluorinated n-alkanethiols on {111}-oriented Au investigated with scanning tunneling microscopy experiment and theory

The adsorption of semifluorinated alkanethiols on Au/mica was studied by scanning tunneling microscopy (STM). The adlayer structure produced is based on a p(2 x 2) structure though lines of molecules displayed extensive kinks and bends. In addition, a considerable variation in the contrast of molecular features is found. Molecular modeling calculations confirm that, for the fluorinated thiols, inequivalently adsorbed molecules within a p(2 x 2) registry are present, an aspect that endows the local structure of the adlayer with a higher flexibility in comparison to nonfluorinated thiols, where one adsorption site is strongly favored in a (radical 3 x radical 3) R30 degrees structure. Simulated STM imaging on the optimized systems successfully recovered the effects on the molecular feature contrast induced by the flexibility of the fluorinated thiol adlayer.     

Two-site adsorption model for the (square root 3 x square root 3)-R30 degrees dodecanethiolate lattice on Au(111) surfaces

The surface structure of dodecanethiolate self-assembled monolayers (SAMs) on Au(111) surfaces, formed from the liquid phase, have been studied by grazing incidence X-ray diffraction (GIXRD), scanning tunneling microscopy (STM), and electrochemical techniques. STM images show that the surface structure consists of (square root 3 x square root 3)-R30 degrees domains with only a few domains of the c(4 x 2) lattice. The best fitting of GIXRD data for the (square root 3 x square root 3)-R30 degrees lattice is obtained with alkanethiolate adsorption at the top sites, although good fittings are also obtained for the fcc and hcp hollow sites. On the basis of this observation, STM data, electrochemical measurements, and previously reported data, we propose a two-site model that implies the formation of incoherent domains of alkanethiolate molecules at top and fcc hollow sites. This model largely improves the fitting of the GIXRD data with respect to those observed for single adsorption sites and, also, for the other possible two-site combinations. The presence of alkanethiolate molecules adsorbed at the less favorable top sites could result from the adsorption pathway that involves an initial physisorption step which, for steric reasons, takes place at on top sites. Once the molecules are chemisorbed, the presence of energy barriers for alkanethiolate surface diffusion, arising mostly from chain-chain interactions, "freezes" some of them at the on top sites, hindering their movement toward fcc hollow sites. By considering the length of the hydrocarbon chain and the adsorption time, the two-site model could be a tool to explain most of the controversial results on this matter reported in the literature.     

An STM study on nonionic fluorosurfactant zonyl FSN self-assembly on Au(111): large domains, few defects, and good stability

Nonionic Fluorosurfactant Zonyl FSN self-assembly on Au(111) is investigated with scanning tunneling microscopy under ambient conditions. STM reveals that the FSN forms SAMs on Au(l11) with very large domain size and almost no defects. A (mean square root of 3 x mean square root of 3)R3 degree arrangement of the FSN SAM on Au(111) is observed. The SAMs show excellent chemical stability and last for at least a month in atmospheric conditions. The structure and stability of the FSN SAMs are compared with those of alkanethiols SAMs. It is expected that FSN may serve as a new kind of molecule to form SAMs for surface modification, which would benefit wider applications for various purposes.     

Architecture of hyperbranched polymers consisting of a stearyl methacrylate sequence via a living radical copolymerization

The living radical photocopolymerization of 2-(N,N-diethyldithiocarbamyl)ethyl methacrylate (DCEM) as inimer and stearyl methacrylate (STM) as comonomer was carried out under UV irradiation. According to this method, we synthesized hyperbranched polymers (HP) consisting of a STM sequence having a long alkyl side chain. The gel permeation chromatography distribution of hyperbranched polymers had a unimodal pattern. The reactivity ratios (r(1)=0.79 and r(2)=0.81) were estimated by the Kelen-Tüd?s method (DCEM: [M](1) and STM: [M](2)). These values indicated that the two monomers showed almost equal reactivity toward propagating radical species. The radius of gyration (R(g)) and the hydrodynamic radius (R(h)) of copolymers were determined by static and dynamic light scattering (SLS and DLS), and the values of R(g)/R(h) changed from 0.79 to 1.59 with an increment of the feed amount of STM. These results indicated that the copolymer structures changed from hard spheres to loose branched molecules in solution.     

Rigid molecular tripod with an adamantane framework and thiol legs. Synthesis and observation of an ordered monolayer on Au111

Tripod-shaped trithiols 1-3, containing CH2SH groups at the three bridgehead positions of the adamantane framework and a halogen-containing group [Br (1), p-BrC6H4 (2), or p-IC6H4 (3)] at the fourth bridgehead, were synthesized, and self-assembled monolayers (SAMs) were prepared on atomically flat Au111 surfaces. The three-point chemisorption of these tripods was confirmed by polarization modulation infrared reflection absorption spectroscopy, which showed the absence of a S-H stretching band. Scanning tunneling microscopy of the SAM of 1 exhibited a hexagonal arrangement of the adsorbed molecule with a lattice constant of 8.7 angstroms. A unidirectionally oriented, head-to-tail array of 1, which allows the close approach of neighboring molecules, is proposed as a reasonable model of the two-dimensional crystal, where the adsorbed sulfur atoms form a quasi-(radical3 x radical3)R30 degrees lattice. The charge of the electrochemical reductive desorption of the SAM of 1 was in good agreement with the expected surface coverage, while the SAMs of 2 and 3 showed somewhat less (ca. 70%) charge. The large negative reduction peak potentials, observed for the SAM of 1, are taken to indicate a tight anchoring of this tripod by three sulfur atoms.     

Disorder-order phase change of omega-(N-pyrrolyl)alkanethiol self-assembled monolayers on gold induced by STM scans and thermal activation

Molecular ordering of pyrrolyl-terminated alkanethiol self-assembled monolayers (PyC(n)SH SAMs) on Au(111) substrates (n = 11 or 12) was investigated by scanning tunneling microscopy (STM) and various spectroscopic methods. The SAMs, which were in a disordered state when formed at room temperature, could be ordered either globally by thermal annealing at 70 degrees C, or locally via stimulation with repetitive STM scans. The ordered phase was characterized by small domains of molecular rows formed along 112[combining macron] directional set with an inter-row corrugation period close to 1.44 nm, in which defects were abundant. Based on the experimental results, the molecular arrangement in the ordered PyC(n)SH SAM was proposed to be a (5x radical3)rect structure with a molecular deficiency >or=10%. While mechanical interactions between molecules and scanning probe tips had been pointed out as the major cause of scan-induced phase transformations in other SAM systems, electronic or electrostatic factors were thought to affect considerably the scan-induced ordering process in this SAM system. From comparison of surface molecular coverage between disordered and thermally ordered SAMs of PyC(12)SH, it was inferred that the disorder could be ascribed to both kinetic and thermodynamic factors. The kinetic barrier to the ordered phase was supposed to result from strong dipole-dipole interactions among the pyrrolyl endgroups.     

Self-assembled monolayers of alkanethiols on Au(111): surface structures, defects and dynamics

The surface structures, defects and dynamics of self-assembled monolayers (SAMs) on Au(111) are reviewed. In the case of the well-known c(4 x 2) and radical 3 x radical 3 R30 degrees surface structures, the present discussion is centered on the determination of the adsorption sites. A more complex scenario emerges for the striped phases, where a variety of surface structures that depends on surface coverage are described. Recently reported surface structures at non-saturation coverage show the richness of the self-assembly process. The study of surface dynamics sheds light on the relative stability of some of these surface structures. Typical defects at the alkanethiol monolayer are shown and discussed in relation to SAMs applications.     

Adsorption configuration and local ordering of silicotungstate anions on Ag(100) electrode surfaces

X-ray reflectivity, cyclic voltammetry, and scanning tunneling microscopy (STM) are used to examine the structure of alpha-SiW12O4(4-) or silicotungstic acid (STA) adsorbed on Ag(100) in acid solution. The voltammetry shows that STA passivates the Ag surface relative to electron transfer to a solution redox species. STM images reveal the formation of a series of lattice structures, one of which can be associated with a commensurate ( radical13x radical13)R33.69 degrees structural model. X-ray reflectivity measurements show uniquely that STA orients with its four-fold axis perpendicular to the Ag(100) surface and that the center of the STA molecule is 4.90 A above the top layer of the Ag substrate. Analysis of bond lengths leads to a footprint of STA on Ag(100), in which the four terminal O atoms are located near the hollow sites and have a Ag-O bond length of 2.06 A. This bond length is consistent with a strong covalent interaction between STA and the Ag surface.     

A single molecule view of bistilbene photoisomerization on a surface using scanning tunneling microscopy

The advent of scanning tunneling microscopy (STM) has permitted a detailed atomic view of organic molecules adsorbed on solid surfaces. In this work, we make use of the STM to provide an unprecedented direct single-molecule perspective on the cis-trans photoisomerization of stilbene molecules within ordered monolayers physisorbed on the Ag/Ge(111)-( radical3x radical3)R30 degrees surface. The STM view of the molecular structure transformation upon irradiation provides direct evidence for the generally accepted one-bond-flip mechanism proposed for the photoisomerization process. We also find that the surface environment produces a profound effect on the reaction mechanism. The reaction is observed to proceed mainly through pairs of co-isomerizing molecules situated at domain boundaries. To explain these observations, we propose a mechanism whereby excitation migrates to the domain boundary and the reaction occurs through a biexciton reaction pathway.