Nikolaj Moll

The Chemical Structure of a Molecule Resolved by Atomic Force Microscopy

Atomic Imaging Within Adsorbed Molecules Scanning tunneling microscopy provides atomic resolution images of surfaces and adsorbed atoms, but imaging atoms within an organic molecule adsorbed on a surface is difficult because contrast is lacking in the states that determine the tunneling current. Atomic force microscopy should be able to resolve atoms through changes in short-range chemical forces, but resolution is lost if the scanning tip undergoes modifications or if it moves the molecule. Gross et al. (p. 1110) show that in situ functionalization of the tip—for example, with CO—can dramatically improve the resolution of images of pentacene molecules adsorbed on conducting surfaces, like copper, and nonconductors, like NaCl. Derivitization of atomic force microscope tips with carbon monoxide molecules allows atoms to be resolved within adsorbed molecules. Resolving individual atoms has always been the ultimate goal of surface microscopy. The scanning tunneling microscope images atomic-scale features on surfaces, but resolving single atoms within an adsorbed molecule remains a great challenge because the tunneling current is primarily sensitive to the local electron density of states close to the Fermi level. We demonstrate imaging of molecules with unprecedented atomic resolution by probing the short-range chemical forces with use of noncontact atomic force microscopy. The key step is functionalizing the microscope’s tip apex with suitable, atomically well-defined terminations, such as CO molecules. Our experimental findings are corroborated by ab initio density functional theory calculations. Comparison with theory shows that Pauli repulsion is the source of the atomic resolution, whereas van der Waals and electrostatic forces only add a diffuse attractive background.

Ultra-low loss photonic integrated circuit with membrane-type photonic crystal waveguides

We report the design and testing of an SOI-based photonic integrated circuit containing two-dimensional membrane-type photonic crystal waveguides. The circuit comprises spot-size converters to efficiently couple light from a fiber into single-mode strip waveguides and butt-couplers to couple from strip waveguides to photonic crystal waveguides. Each optical interface was optimized to minimize back-reflections and reduce the Fabry-Perot noise. The transmission characteristics of each component are measured and record low propagation losses in photonic crystal waveguides of 24dB/cm are reported. The combination of an efficient two-stage coupling scheme and utilization of ultra-long (up to 2mm) photonic crystal waveguides reduces the uncertainty in determining the loss figure to 3dB/cm.

GaAs equilibrium crystal shape from first principles.

Surface energies for different GaAs surface orientations have been calculated as a function of the chemical potential. We use an energy density formalism within the first-principles pseudopotential density-functional approach. The equilibrium crystal shape (ECS) has been derived from the surface energies for the (110), (100), (111), and (-1-1-1) orientations. Under As-rich conditions all four considered surface orientations exist in thermodynamic equilibrium, in agreement with experimental observations. Moreover, our calculations allow us to decide on previous contradictory theoretical values for the surface energies of the (111) and (-1-1-1) facets.

Bond-order discrimination by atomic force microscopy.

Visualizing Bond Order Bond lengths in conjugated molecules closely reflect individual bond order and are usually determined by diffraction methods. It is valuable to know bond order for rationalizing aromaticity, and reactivity and for chemical structure determination. Gross et al. (p. 1326; see the Perspective by Perez and the cover) differentiated the bond orders in individual molecules in the fullerene C60 and in polyaromatic hydrocarbons by imaging with noncontact atomic force microscopy (AFM). The molecules were adsorbed onto a copper surface, and the AFM tip was decorated with a CO molecule, which was used to measure tip frequency shifts above the bonds and their apparent lengths. Multiple bonds appeared brighter in the images because of stronger Pauli repulsion, and their shorter length was amplified by bending of the CO at the tip apex. Images detected with an atomic force microscope tip decorated with a carbon monoxide molecule could distinguish Pauling bond order. We show that the different bond orders of individual carbon-carbon bonds in polycyclic aromatic hydrocarbons and fullerenes can be distinguished by noncontact atomic force microscopy (AFM) with a carbon monoxide (CO)–functionalized tip. We found two different contrast mechanisms, which were corroborated by density functional theory calculations: The greater electron density in bonds of higher bond order led to a stronger Pauli repulsion, which enhanced the brightness of these bonds in high-resolution AFM images. The apparent bond length in the AFM images decreased with increasing bond order because of tilting of the CO molecule at the tip apex.

Organic structure determination using atomic-resolution scanning probe microscopy

Nature offers a huge and only partially explored variety of small molecules with potential pharmaceutical applications. Commonly used characterization methods for natural products include spectroscopic techniques such as nuclear magnetic resonance spectroscopy and mass spectrometry. In some cases, however, these techniques do not succeed in the unambiguous determination of the chemical structure of unknown compounds. To validate the usefulness of scanning probe microscopy as an adjunct to the other tools available for organic structure analysis, we used the natural product cephalandole A, which had previously been misassigned, and later corrected. Our results, corroborated by density functional theory, demonstrate that direct imaging of an organic compound with atomic-resolution force microscopy facilitates the accurate determination of its chemical structure. We anticipate that our method may be developed further towards molecular imaging with chemical sensitivity, and will become generally useful in solving certain classes of natural product structures.

Imaging the charge distribution within a single molecule

Scanning tunnelling microscopy and atomic force microscopy can be used to study the electronic and structural properties of surfaces, as well as molecules and nanostructures adsorbed on surfaces, with atomic precision, but they cannot directly probe the distribution of charge in these systems. However, another form of scanning probe microscopy, Kelvin probe force microscopy, can be used to measure the local contact potential difference between the scanning probe tip and the surface, a quantity that is closely related to the charge distribution on the surface. Here, we use a combination of scanning tunnelling microscopy, atomic force microscopy and Kelvin probe force microscopy to examine naphthalocyanine molecules (which have been used as molecular switches) on a thin insulating layer of NaCl on Cu(111). We show that Kelvin probe force microscopy can map the local contact potential difference of this system with submolecular resolution, and we use density functional theory calculations to verify that these maps reflect the intramolecular distribution of charge. This approach could help to provide fundamental insights into single-molecule switching and bond formation, processes that are usually accompanied by the redistribution of charge within or between molecules.

Influence of surface stress on the equilibrium shape of strained quantum dots

The equilibrium shapes of InAs quantum dots ~i.e., dislocation-free, strained islands with sizes >10 000 atoms! grown on a GaAs ~001! substrate are studied using a hybrid approach that combines density functional theory ~DFT! calculations of microscopic parameters, surface energies, and surface stresses with elasticity theory for the long-range strain fields and strain relaxations. In particular we report DFT calculations of the surface stresses and analyze the influence of the strain on the surface energies of the various facets of the quantum dot. The surface stresses have been neglected in previous studies. Furthermore, the influence of edge energies on the island shapes is briefly discussed. From the knowledge of the equilibrium shape of these islands, we address the question whether experimentally observed quantum dots correspond to thermal equilibrium structures or if they are a result of growth kinetics. @S0163-1829~98!06132-3#

FORMATION AND STABILITY OF SELF-ASSEMBLED COHERENT ISLANDS IN HIGHLY MISMATCHED HETEROEPITAXY

We study the energetics of island formation in Stranski-Krastanow growth within a parameter-free approach. It is shown that an optimum island size exists for a given coverage and island density if changes in the wetting layer morphology after the 3D transition are properly taken into account. Our approach reproduces well the experimental island size dependence on coverage and indicates that the critical layer thickness depends on growth conditions. The present study provides a new explanation for the (frequently found) rather narrow size distribution of self-assembled coherent islands.

On-surface generation and imaging of arynes by atomic force microscopy

Reactive intermediates are involved in many chemical transformations. However, their characterization is a great challenge because of their short lifetimes and high reactivities. Arynes, formally derived from arenes by the removal of two hydrogen atoms from adjacent carbon atoms, are prominent reactive intermediates that have been hypothesized for more than a century. Their rich chemistry enables a widespread use in synthetic chemistry, as they are advantageous building blocks for the construction of polycyclic compounds that contain aromatic rings. Here, we demonstrate the generation and characterization of individual polycyclic aryne molecules on an ultrathin insulating film by means of low-temperature scanning tunnelling microscopy and atomic force microscopy. Bond-order analysis suggests that a cumulene resonance structure is the dominant one, and the aryne reactivity is preserved at cryogenic temperatures. Our results provide important insights into the chemistry of these elusive intermediates and their potential application in the field of on-surface synthesis.

The mechanisms underlying the enhanced resolution of atomic force microscopy with functionalized tips

By functionalizing the tip of an atomic force microscope (AFM) with a molecule or an atom that significantly contributes to the tip–sample interaction, the resolution can be dramatically enhanced. The interaction and therefore the resolution crucially depend on the chemical nature of the tip termination. Employing a tip functionalized with a CO molecule, atomic resolution of a pentacene molecule was recently demonstrated. In this work, the interaction between the CO tip and the pentacene imaged are studied with first principles calculations. The calculated frequency shifts compare very well with the experiment. The different energy contributions are analyzed and the Pauli energy is computed. We demonstrate that the source of the high resolution is Pauli repulsion, whereas van der Waals and electrostatic interactions only add a diffuse attractive background.