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Sumiyoshi A, Yamasue K, Cho Y, Nakamura J. Visualization of the local dipole moment at the Si(111) surface using DFT calculations. Sci Rep 2025; 15:7436. [PMID: 40032970 PMCID: PMC11876357 DOI: 10.1038/s41598-025-91645-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2024] [Accepted: 02/21/2025] [Indexed: 03/05/2025] Open
Abstract
A method to simulate the dipole moment mode of the scanning nonlinear dielectric microscope (SNDM) has been developed. This method has been applied to the so-called [Formula: see text] dimer-adatom-stacking-fault (DAS) structure and a [Formula: see text] surface with one adatom and one restatom, which are the main motifs of the DAS structure. It has been revealed that a local upward dipole moment is observed at the adatom site, consistent with the SNDM experiments. Differences in the local atomic arrangements of the adatom and restatom correlate with the amount of charge transfer between adatoms and restatoms, which varies in concert with the magnitude of the local dipole moment. This method will provide information on local dielectric properties necessary for the interpretation of various surface probe microscopy images.
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Affiliation(s)
- Akira Sumiyoshi
- Department of Engineering Science, The University of Electro-Communications (UEC Tokyo), Chofu, Tokyo, 182-8585, Japan
| | - Kohei Yamasue
- Research Institute of Electrical Communication, Tohoku University, Sendai, Miyagi, 980-8577, Japan
| | - Yasuo Cho
- New Industry Creation Hatchery Center, Tohoku University, Sendai, Miyagi, 980-8579, Japan
| | - Jun Nakamura
- Department of Engineering Science, The University of Electro-Communications (UEC Tokyo), Chofu, Tokyo, 182-8585, Japan.
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Farkhondeh H, Rahsepar FR, Zhang L, Leung KT. Structural and Chemical Evolution of l-Cysteine Nanofilm on Si(111)-√3×√3-Ag: From Preferential Growth at Step Edges and Antiphase Boundaries at Room Temperature to Adsorbate-Mediated Metal Cluster Formation at Elevated Temperature. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2019; 35:16185-16200. [PMID: 31661626 DOI: 10.1021/acs.langmuir.9b02852] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
The interaction of cysteine molecules with the Si(111)-√3×√3-Ag surface has been investigated over the submonolayer to multilayer regime using X-ray photoelectron spectroscopy, scanning tunneling microscopy, and density functional theory calculations. With both upper step and lower step terraces, step edges, and antiphase boundaries, the √3×√3-Ag overlayer supported on Si(111) provides a rich two-dimensional template for studying site-specific biomolecular interactions. As an amino acid with three functional groups, cysteine is found to chemisorb through S-H bond cleavage and S-Ag bond linkage first at step edges and antiphase boundaries followed by island formation and expanded growth onto terraces. Intermolecular interactions are dominated by zwitterionic hydrogen bonding at higher coverages, producing a porous unordered interfacial layer composed of cysteine agglomerates at room temperature. Upon annealing, cysteine adsorbates induce structural transformation of the uniform √3×√3-Ag reconstructed surface lattice into metallic Ag clusters with a narrow size distribution and short-range ordering. Preferential nanoaggregate formation of cysteine at defect sites and cysteine-induced metal cluster formation promise a new approach to fabricating nanoclusters for potential applications in chemical sensing and catalysis.
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Affiliation(s)
- Hanieh Farkhondeh
- WATLab and Department of Chemistry , University of Waterloo , Waterloo , Ontario N2L3G1 , Canada
| | - Fatemeh R Rahsepar
- WATLab and Department of Chemistry , University of Waterloo , Waterloo , Ontario N2L3G1 , Canada
| | - Lei Zhang
- WATLab and Department of Chemistry , University of Waterloo , Waterloo , Ontario N2L3G1 , Canada
| | - Kam Tong Leung
- WATLab and Department of Chemistry , University of Waterloo , Waterloo , Ontario N2L3G1 , Canada
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Wells JW, Kallehauge JF, Hofmann P. Thermal switching of the electrical conductivity of Si(111)([Formula: see text])Ag due to a surface phase transition. JOURNAL OF PHYSICS. CONDENSED MATTER : AN INSTITUTE OF PHYSICS JOURNAL 2007; 19:176008. [PMID: 21690945 DOI: 10.1088/0953-8984/19/17/176008] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/30/2023]
Abstract
The temperature-dependent surface conductivity of the Si(111)([Formula: see text])Ag surface was measured using a microscopic four-point probe. The conductivity was found to undergo a sharp increase of about three orders of magnitude when the system was heated above about 220 K. This strong conductivity change is reversible and attributed to the phase transition which is generally believed to occur on this surface. It is also shown that, in order to find the true surface conductivity, it is necessary to separate it from the contribution of the bulk and space charge layer. In this work, this is achieved by using a finite-element model. A percolating network of Ag islands on Si(111) was also studied and a much simpler behaviour (compared to that of Si(111)([Formula: see text])Ag) was found. The temperature-dependent conductivity of this system was found to display typical metallic behaviour. The absolute value of the conductivity is comparable to the value expected by modelling the Ag film as exhibiting the bulk Ag transport properties.
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Affiliation(s)
- J W Wells
- Institute for Storage Ring Facilities and Interdisciplinary Nanoscience Center (iNANO), University of Aarhus, 8000 Aarhus C, Denmark
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Morita S, Sugawara Y. Mapping and control of atomic force on Si(1 1 1)square root(3) x square root(3)-Ag surface using noncontact atomic force microscope. Ultramicroscopy 2002; 91:89-96. [PMID: 12211488 DOI: 10.1016/s0304-3991(02)00086-4] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
We demonstrated the possibility of measuring the three-dimensional force-related map with true atomic resolution between an Si tip and Si(1 1 1)square root(3) x square root(3)-Ag sample surface by measuring the tip-sample distance dependence of noncontact atomic force microscope (NC-AFM) image, i.e. atomically resolved atomic force spectroscopy. Furthermore, we demonstrated the possibility of controlling the interaction force between the atom on the tip apex and a sample atom of Si(1 1 1)square root(3) x square root(3)-Ag surface on an atomic scale by placing an Ag atom on the Si tip apex instead of Si atom.
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Affiliation(s)
- S Morita
- Department of Electronic Engineering, Graduate School of Engineering, Osaka University, Suita, Japan.
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Nakamura Y, Kondo Y, Nakamura J, Watanabe S. STM images apparently corresponding to a stable structure: considerable fluctuation of a phase boundary of the Si(111)-(square root of (3) x square root of (3))-Ag surface. PHYSICAL REVIEW LETTERS 2001; 87:156102. [PMID: 11580712 DOI: 10.1103/physrevlett.87.156102] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/15/2001] [Indexed: 05/23/2023]
Abstract
We study scanning tunneling microscopy (STM) images near a phase boundary of the Si(111)- (square root of (3) x square root of (3))-Ag surface by using Monte Carlo simulations based on results of first-principles calculations. The boundary is found to fluctuate from snapshot to snapshot, and the feature of the simulated STM images differs distinctly from the observed one with a straightly extending honeycomb pattern of bright spots. Remarkably, statistical averages of the simulated images reproduce the observed feature. This study gives a warning of our tendency to relate STM images revealing clear arrangement of bright spots with some stable structure.
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Affiliation(s)
- Y Nakamura
- Department of Materials Science, Graduate School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan.
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Sugawara Y, Minobe T, Orisaka S, Uchihashi T, Tsukamoto T, Morita S. Non-contact AFM images measured on Si(111)√3×√3-Ag and Ag(111) surfaces. SURF INTERFACE ANAL 1999. [DOI: 10.1002/(sici)1096-9918(199905/06)27:5/6<456::aid-sia536>3.0.co;2-i] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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Hasegawa S, Jiang CS, Tong X, Nakajima Y. Electrical functional properties of surface superstructures on semiconductors. Adv Colloid Interface Sci 1997. [DOI: 10.1016/s0001-8686(97)90014-2] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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Sautet P. Images of Adsorbates with the Scanning Tunneling Microscope: Theoretical Approaches to the Contrast Mechanism. Chem Rev 1997; 97:1097-1116. [PMID: 11851443 DOI: 10.1021/cr9600823] [Citation(s) in RCA: 188] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Philippe Sautet
- Institut de Recherches sur la Catalyse, CNRS, 2 Av. A. Einstein, 69626 Villeurbanne Cedex, France, and Laboratoire de Chimie Théorique, Ecole Normale Supérieure de Lyon, 46 Allée d'Italie, 69364 Lyon Cedex 07, France
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Nakajima Y, Uchida G, Nagao T, Hasegawa S. Two-dimensional adatom gas on the Si(111)-( sqrt 3 x sqrt 3)-Ag surface detected through changes in electrical conduction. PHYSICAL REVIEW. B, CONDENSED MATTER 1996; 54:14134-14138. [PMID: 9985337 DOI: 10.1103/physrevb.54.14134] [Citation(s) in RCA: 22] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/12/2023]
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Hong IH, Liao DK, Chou YC, Wei CM, Tong SY. Direct observation of ordered trimers on Si(111) sqrt 3 x sqrt 3 R30 degrees-Au by scanned-energy glancing-angle Kikuchi electron wave-front reconstruction. PHYSICAL REVIEW. B, CONDENSED MATTER 1996; 54:4762-4765. [PMID: 9986437 DOI: 10.1103/physrevb.54.4762] [Citation(s) in RCA: 27] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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Hwang C, Lee C, Lee SW, Jeong I, Park HH, Tanaka S, Kamada M. Fermi-level pinning of Ag on Si(111)-(7 x 7). PHYSICAL REVIEW. B, CONDENSED MATTER 1995; 52:16325-16328. [PMID: 9981021 DOI: 10.1103/physrevb.52.16325] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/12/2023]
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Aburano RD, Hong H, Roesler JM, Chung K, Lin D, Zschack P, Chen H, Chiang T. Boundary-structure determination of Ag/Si(111) interfaces by x-ray diffraction. PHYSICAL REVIEW. B, CONDENSED MATTER 1995; 52:1839-1847. [PMID: 9981251 DOI: 10.1103/physrevb.52.1839] [Citation(s) in RCA: 16] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/12/2023]
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McComb DW, Wolkow RA, Hackett PA. Defects on the Ag/Si(111)-( sqrt 3 x sqrt 3 ) surface. PHYSICAL REVIEW. B, CONDENSED MATTER 1994; 50:18268-18274. [PMID: 9976262 DOI: 10.1103/physrevb.50.18268] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/12/2023]
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Kobayashi K. Moiré pattern in scanning tunneling microscopy of monolayer graphite. PHYSICAL REVIEW. B, CONDENSED MATTER 1994; 50:4749-4755. [PMID: 9976784 DOI: 10.1103/physrevb.50.4749] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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Jia JF, Zhao RG, Yang WS. Atomic structure of the Si(111)( sqrt 3 x sqrt 3 )R30 degrees-Ag surface. PHYSICAL REVIEW. B, CONDENSED MATTER 1993; 48:18109-18113. [PMID: 10008450 DOI: 10.1103/physrevb.48.18109] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/12/2023]
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Chaudhury S, Williams R, Katayama M, Aono M. Quantitative analysis of the azimuthal dependence of ion scattering from. SURFACE SCIENCE 1993; 294:93-98. [DOI: 10.1016/0039-6028(93)90162-d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/19/2023]
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Wan KJ, Lin XF, Nogami J. Surface reconstructions in the Ag/Si(111) system. PHYSICAL REVIEW. B, CONDENSED MATTER 1993; 47:13700-13712. [PMID: 10005687 DOI: 10.1103/physrevb.47.13700] [Citation(s) in RCA: 71] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/12/2023]
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Miyamoto Y. Theory of scanning-tunneling-microscopy images of oxygen-adsorbed Si(100) surfaces. PHYSICAL REVIEW. B, CONDENSED MATTER 1992; 46:12473-12477. [PMID: 10003166 DOI: 10.1103/physrevb.46.12473] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/12/2023]
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Watanabe S, Aono M, Tsukada M. First-principles calculation of STM images of the Si(111)-Ag surface. Ultramicroscopy 1992. [DOI: 10.1016/0304-3991(92)90252-f] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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Wan KJ, Lin XF, Nogami J. Reexamination of the Ag/Si(111)- sqrt 3 x sqrt 3 surface by scanning tunneling microscopy. PHYSICAL REVIEW. B, CONDENSED MATTER 1992; 45:9509-9512. [PMID: 10000833 DOI: 10.1103/physrevb.45.9509] [Citation(s) in RCA: 43] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/12/2023]
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