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Configuration of ripple domains and their topological defects formed under local mechanical stress on hexagonal monolayer graphene

Ripples in graphene are extensively investigated because they ensure the mechanical stability of two-dimensional graphene and affect its electronic properties. They arise from spontaneous symmetry breaking and are usually manifested in the form of domains with long-range order. It is expected that topological defects accompany a material exhibiting long-range order, whose functionality depends on characteristics of domains and topological defects. However, there remains a lack of understanding regarding ripple domains and their topological defects formed on monolayer graphene. Here we explore configuration of ripple domains and their topological defects in exfoliated monolayer graphenes on SiO2/Si substrates using transverse shear microscope. We observe three-color domains with three different ripple directions, which meet at a core. Furthermore, the closed domain is surrounded by an even number of cores connected together by domain boundaries, similar to topological vortex and anti-vortex pairs. In addition, we have found that axisymmetric three-color domains can be induced around nanoparticles underneath the graphene. This fascinating configuration of ripple domains may result from the intrinsic hexagonal symmetry of two-dimensional graphene, which is supported by theoretical simulation using molecular dynamics. Our findings are expected to play a key role in understanding of ripple physics in graphene and other two-dimensional materials.

Ripples in graphene are extensively investigated because they ensure the mechanical stability of two-dimensional graphene and affect its electronic properties. They arise from spontaneous symmetry breaking and are usually manifested in the form of domains with long-range order. It is expected that topological defects accompany a material exhibiting long-range order, whose functionality depends on characteristics of domains and topological defects. However, there remains a lack of understanding regarding ripple domains and their topological defects formed on monolayer graphene. Here we explore configuration of ripple domains and their topological defects in exfoliated monolayer graphenes on SiO 2 /Si substrates using transverse shear microscope. We observe three-color domains with three different ripple directions, which meet at a core. Furthermore, the closed domain is surrounded by an even number of cores connected together by domain boundaries, similar to topological vortex and anti-vortex pairs. In addition, we have found that axisymmetric three-color domains can be induced around nanoparticles underneath the graphene. This fascinating configuration of ripple domains may result from the intrinsic hexagonal symmetry of two-dimensional graphene, which is supported by theoretical simulation using molecular dynamics. Our findings are expected to play a key role in understanding of ripple physics in graphene and other two-dimensional materials.
T wo-dimensional crystalline systems and elastic membranes often exhibit spontaneous buckling, bending, rippling, and/or wrinkling. These interesting phenomena arise from the large degree of deformation between bending and stretching caused by external mechanical stimuli, because the elastic energy for stretching or compressing the sheet decreases as a result of out-of-plane deformation [1][2][3] . Minimization of the total elastic energy by wrinkling of the elastic membrane can accommodate the mechanical instability under applied strain [2][3][4][5] . Since monolayer graphene is a two-dimensional crystalline system with atomic-scale thickness 6 , it exhibits intrinsic rippling with smooth undulations such that out-of-plane elastic deformations can provide stability of graphene in spite of external thermal energy fluctuation 7,8 .
The surface corrugations are expected to strongly influence the electronic properties of graphene 9-11 because local structural deformation is predicted to modify local electron density, which can generate a pseudomagnetic field and change the chemical activity 12,13 . It is also suggested that charge conductivity can be limited by ripples where charge carriers are scattered by flexural phonons 14 . In addition, anisotropic behavior is expected for charge propagation due to periodic ripple structures.
Previously, it was reported that ripple domains in exfoliated monolayer graphene on SiO 2 /Si substrate can be observed using contact-mode atomic force microscope (AFM) 15,16 . Each ripple domain shows friction anisotropy due to long-range ordering of ripples. This phenomenon may result from inhomogeneous mechanical stress on a two-dimensional hexagonal lattice of graphene during mechanical exfoliation 15 . Recently, we have demonstrated that zigzag directional ripples are preferred in these domains using both AFM and angle-resolved photoemission spectroscopy (ARPES). In addition, we estimated the ripple size as ,5.7 nm by considering the interaction energy between graphene and substrate 17 . This ripple domain with long-range order should be associated with structural spontaneous symmetry breaking that is usually accompanied by topological defects, such as domain boundaries and vortices [18][19][20][21][22] . Thus, the exploration of spatial structure of ripple domains is of paramount importance in order to have a better understanding of both elastic deformation and carrier transport of graphene.
Here, we explore configuration of ripple domains as well as related topological defects and their response to stress in exfoliated monolayer graphenes on SiO 2 /Si substrates using transverse shear microscope (TSM), which are difficult to be spatially resolved using transmission electron microscope (TEM) or scanning tunneling microscope (STM). We observe three-color domains with three different ripple directions, which meet at a core. Each closed domain is surrounded by an even number of cores connected together by domain boundaries, similar to topological vortex and anti-vortex pairs. In addition, we have found that axisymmetric three-color domains can be induced around nanoparticles underneath the graphene. This fascinating configuration of ripple domains may result from the intrinsic hexagonal symmetry of two-dimensional graphene, which is supported by theoretical simulation using molecular dynamics. Our findings are expected to play a key role in understanding of ripple physics in graphene and other two-dimensional materials.

Results and Discussion
Monolayer graphenes were prepared on SiO 2 /Si substrate by mechanical exfoliation method and confirmed by Raman spectroscopy (see Supplementary Figure S1 online). During the preparation of graphene samples on SiO 2 /Si substrates, particles were introduced onto the surface of substrates and buried under the graphene layers. Figure 1a shows an AFM topographic image of a single exfoliated monolayer graphene sheet with wrinkled, folded edges and the particles underneath it. The distribution of ripple domains (Figure 1b) is revealed using a TSM, which monitors AFM cantilever torsion resulting from net shear forces on an AFM tip by scanning it in the longitudinal direction with respect to the cantilever body 23 . We demonstrated that ripple domains with different ripple directions could be effectively visualized by measuring the cantilever torsion due to the interaction between the scanning tip and the ripples using TSM and lateral force microscope (LFM) 15,16 . Because cantilever torsion measured using TSM can be related with the elastic shear deformation properties of crystal surface 23 , TSM can afford enhanced sensitivity to ripples. Actually, TSM has produced clearer ripple domain contrasts than those produced by LFM 16 .
A single monolayer graphene sheet exhibits complex ripple domain structures that mostly appear near the folded or wrinkled edges. Such local aspects are similar to structural deformation of elastic membrane under an applied stress, where folds induce localized strain that influences wrinkles in their neighborhood 1,2 . In other words, the strain localization via folds can lead to regions of increased stress near the folded area. Complex ripple domain structures are often observed in monolayer graphene sheets with wrinkled and folded edges, whereas a wrinkle-or fold-free monolayer graphene sheet only shows a single ripple domain (see Supplementary Figure  S2 online) [15][16][17] . This implies that the strain distribution in graphene under external stress strongly affects the ripple domain structures observed everywhere of graphene. We should note that TSM or LFM signals of each domain fit well with simple sinusoidal functions of sample rotation angle and showed constant line profiles, which might be caused by homogeneously well-arranged ripples in one domain [15][16][17] . The complex ripple domain structure of our large graphene consists of ''only'' three-distinctive domains, i.e., there are only three ripple directions in the monolayer graphene, which can be determined by the dependence of TSM and LFM images on the sample rotation angle (see Supplementary Figures S3 and S4 online). Furthermore, we also observed that elastic shear anisotropy (the difference between shear force maximum and minimum values obtained by TSM) and friction anisotropy (by LFM) of each domain were respectively same as those of other domain 15,16 . It indicates that each ripple domain has the common origin of such anisotropy and the similar structural features of ripples with those in other domain.
In our previous work (Ref. 17), we have demonstrated that ripples are preferentially formed along the zigzag directions of graphene. Because hexagonal graphene has three zigzag axes, there are only three preferred ripple directions on graphene. Therefore, a tensile (compressive) strain along the direction rotated in the range of 230u to 30u from the positive or negative directions of a zigzag axis (perpendicular-to-zigzag direction) can induce the formation of ripples parallel to the zigzag axis. The area, where is governed by such  Figure 2. The inset of (b) shows the top view of the cantilever, and the scan direction is marked by the red-dotted arrow. Note that the prepared graphene sample was treated in high vacuum before imaging. strains, can be manifested as a domain which has ripples parallel to one zigzag axis. The same color domains, e.g. those around one particle, in a TSM image should have the same directional ripples but may be caused by tensile (compressive) strains along the direction rotated in the range of 230u to 30u from the positive or negative directions of a zigzag axis (perpendicular-to-zigzag direction).
To have a better understanding of the ripple domain structure, we have analyzed the TSM image of the red-dashed rectangular area in Figure 1b. Interesting domain network patterns are observed near the folded edge as shown in Figure 2a. Specifically, we find regularity of ripple domain networks: three distinguishable domains, whose ripple directions have three-fold symmetry, merge at one point (called a core). An even more intriguing observation is that each core can be identified by the vorticity of domain configurations, i.e., as vortex To investigate the response of ripple domains with external stimuli, we carried out high humidity exposure experiments 24,25 . It is known that water can diffuse between graphene and SiO 2 which often induces lower friction as subsurface lubricant 25 . Such an interaction can induce structural deformation of graphene by introducing wrinkles, folds, and shrinkage. All of these can lead to strain localization and redistribution of stress, resulting in a rearrangement of ripple domain structures. Figure 2b exhibits rearrangement of domain network patterns after one week of exposure of graphene to high humidity (relative humidity of 80-90%). Although high humidity exposure can lead to a change in the domain network patterns of graphene and the interface energy between graphene and SiO 2 /Si substrate due to intercalated water, the regularity of the ripple domain network remains unchanged. It should be noted that the difference between domain contrasts in Figures 2a and 2b is due to different scan directions (see Methods).
We now focus on the closed ripple domains that are surrounded by domain boundaries connected to vortices and anti-vortices. It is obvious that there are two c (Figure 2a) and two b (Figure 2b) closed ripple domains before and after high humidity exposure, respectively. Although the shapes and characteristics of closed ripple domains before and after exposure of graphene to high humidity are different, each closed ripple domain as shown in Figure 2 is surrounded by one pair of vortex and anti-vortex. The closed ripple domains are often observed in the vicinity of folded and wrinkled edges of graphene. The intriguing feature is that the closed ripple domain is usually surrounded by n pairs of vortex and anti-vortex (n 5 0, 1, and 2). Figures 2a and 2b show the case of n 5 1, whereas Figures 3b and 3c correspond to the case of n 5 2. The ripple domain image shown in Figure 3b is obtained from another monolayer graphene sheet with strongly folded and wrinkled edges shown in Figure 3a. Moreover, we can observe a region with only two neighboring domains (n 5 0), as seen in Figure 1b, which can be considered as one where strain directions are constrained and cannot cover the directions rotated in the range of 230u to 30u from the positive or negative directions of one zigzag axis.
Vortices that can be considered to be a topological defect are commonly observed in condensed matter, including optical vortex patterns in liquid crystal 26 , vortices in superconductor 27 , multiferroic vortex 20,21 , and vortex of ferroelectric domain walls 22 . Such topological defects are controlled by both symmetry breaking and phase transition [18][19][20][21][22]26,27 . The interaction among topological defects can induce the emergence of a vortex and anti-vortex pair at the cost of explicit symmetry breaking [18][19][20][21] . For the topological disorder in polycrystalline graphene grown by chemical vapor deposition, a pair of edge dislocations is observed with the Stone-Wales defect, e.g. a pentagon-heptagon pair, leading to structural deformation by elongation and/or compression of carbon-carbon bonds, shear, and lattice rotations 28,29 . In contrast to such surface corrugations arising from topological disorder, the pairing of vortex and antivortex in ripple domains of single crystalline exfoliated graphene seems to be unexpected and an intrinsic characteristic of its lattice structure mechanically interacting with surroundings. This is reasonable considering that the ripple directions of three distinctive domains merge at the core having three-fold symmetry. As a result, ripple domain boundaries and their cores can be considered to be new types of topological defects without dislocation because longrange ordered ripples result from the breaking of the lattice symmetry of graphene 30 .
Besides the formation of ripple domain networks arising primarily from the surface stress induced by the folds and wrinkles at the edge of the graphene sheet, intriguing radial ripple domain patterns are observed around some particles (Figure 4). During mechanical exfoliation, the particles in question can become sandwiched between the graphene sheet and the SiO 2 /Si substrate. Biaxial stress on graphene can be expected near graphene-particles contact position. We investigated four different regions around the particles, as indicated by red squares in Figure 1a. The radial domain patterns on P1 (Figure 4a) and P2 (Figure 4b) are formed within the region where the ripple direction is indicated by the blue arrow, while the background domain of P3 ( Figure 4c) and P4 (Figure 4d) have the ripple direction indicated by the red arrow. As can be seen from Figure 4, each radial domain pattern seems to have a couple of two-lobed shape domains within one background domain. In view of the ripple directions, each pattern has six domains, i.e., two sets of three-color domains (insets of Figures 4a-4d), whose ripples meet at domain boundaries with only 60u forming angle and show six-fold rotational symmetry accompanied by mirror symmetry. We should note that ripple size in the domain around a pariticle is expected to be same as that in the three-fold domain, as observed in Figs. 2 and 3, without any particle because both domains show the same TSM contrast and LFM anisotropy 15 .
The emergence of six ripple domains is a result of the radial stress imposed by the external particles, which is similar to the radial wrinkles in elastic membrane under an axisymmetric traction force at the center 1,3,4 . It has been suggested that the generated wrinkles are parallel to the applied tension and perpendicular to the applied compression 4,5 . On the other hand, in theoretical predictions for elastic properties of graphene nano-ribbons under uniaxial tensile stress, the variation of the bond length and bond angle occurs along or close to the tension direction 31 . It has been also predicted that the variation of C-C bond along the armchair tension direction is much larger than that along the zigzag tension direction 31 , which suggests the easier deformation of C-C bond along the armchair direction. According to the above, six-ripple domain configurations as well as their ripple directions with six-fold rotational symmetry can be understood by the schematic atomic scale drawing shown in Figure 4e. Radial stress around a particle preferentially induces deformation of the C-C bond along armchair directions (black-dashed arrows), leading to in-plane compressive stress in azimuthal directions (blurred black, blue, and red arrows). The azimuthal compressive stress and the remaining radial tensile stress along zigzag directions (black, blue, and red arrows) can cause zigzag directional ripples with six-fold rotational and mirror symmetry. Because graphene has pre-formed ripples along one zigzag direction 17 , the effect of the particle appears strongly along the major zigzag direction and weakly along two other minor zigzag directions, resulting in a couple of two-lobed shape domains within one background domain as shown in Figures 4a-4d. In contrast to an elastic membrane with continuous wrinkling along radial directions, rippling in graphene forms in specific directions that are correlated with its lattice structure.
To indentify the scenario for the six-fold ripple, we performed atomic molecular dynamics on graphene under a local perpendicular uplift. The circular uplift was perpendicularly applied to the graphene and the radius of the protuberant area was ,2.5 nm. We find that the circular uplift induces a six-fold symmetric ripple with respect to the center of the protuberant area and the height of the ripples is ,0.5 nm as shown in Figure 5. In addition, the six-fold ripples appear along zigzag directions, which is consistent with our prediction in Figure 4(e). The out-of plane deformation of the protuberant ares is ,2 nm in high.

Conclusion
Using the transverse shear microscope (TSM), we observed unique configurations of ripple domains in the exfoliated monolayer graphene where the local stress develops around folded or wrinkled edges and external particles. The redistribution of the strain results in an interesting network of three-color ripple domains with three different ripple directions. Seemingly irregular domain networks exhibit an arrangement of three-color domains meeting at one point (core) and the emergence of vortex and anti-vortex pairing as a new type of topological defect in graphene. In addition, an extraneous   Figure 1a, respectively. Black-, blue-, and red-colored two-way arrows marked on domains represent three-variant directions of ripple. Lower right insets show six-domain configuration around one particle with two sets of three-color domains. (e) Schematic picture of the formation of six ripple domains under radial stress developed by an extraneous particle (shown with shaded area). The development of rippling parallel to the tension (indicated by arrows in black, blue, and red) toward the center and perpendicular to the in-plane compression (indicated by arrows in blurred black, blue, and red) results in the arrangement of six distinct domains. The black-colored dashed arrows represent the expected strain along the armchair direction resulting from radial stress.
www.nature.com/scientificreports SCIENTIFIC REPORTS | 5 : 9390 | DOI: 10.1038/srep09390 particle induces a central force on the surface of graphene, leading to radial stress that results in six-ripple domains around it. The rippling is caused by the coupling between the radial zigzag directional tension and the azimuthal armchair directional compression due to the unique features of a graphene lattice, which is supported by theoretical simulation using molecular dynamics. Our observation provides an essential understanding of ripple physics for application of graphene in flexible and nanoscale devices.

Methods
Preparation of graphene. Mechanical exfoliation method was used to prepare graphene sheets on the SiO 2 (300 nm)/Si substrate under ambient condition. Using an optical microscope, we observed the exfoliated graphene sheets of various sizes and shapes.
Characterization of graphene. We obtained AFM topography, LFM, and TSM images simultaneously with the contact mode using two AFMs (SPA-300HV from SEIKO and XE-100 from PSIA) at ambient condition. Because scan size of PSIA XE-100 AFM (50 mm) is much larger than that of SEIKO SPA-300HV AFM (20 mm), PSIA XE-100 AFM has the advantage for observing a large area of the graphene sheet, as shown in Figure 1. As PSIA XE-100 has a low resolution, we used SEIKO SPA-300HV AFM to obtain high resolution TSM images at ambient condition. We used lateral friction tips (PPP-LFMR with spring constant of 0.2 N/m, Nanosensors) to obtain AFM topographic and TSM images. During AFM measurements, we maintained the loading force at 0 nN. The definition of AFM scan directions has been described in earlier publications 15,16 . In order to obtain TSM and LFM images to determine ripple directions, we need two different scan directions: one being a lateral scan when the AFM cantilever is moved perpendicular to the cantilever arm, and the other being a longitudinal scan when the AFM cantilever is moved parallel to the cantilever arm. Since the TSM provides much clearer image for observing the configuration of ripple domain structures than LFM 16 , we can investigate the ripple domain structures in various exfoliated monolayer graphene sheets using TSM images.
Theoretical simulation. We performed atomic molecular dynamics on graphene using the consistent valence forcefield (CVFF) 32 , which includes the bond-stretching energy term, the angle-bending energy term, the torsion-angle (dihedral) energy term, the out-of-plane energy term (improper torsion), and the van der Waals energy term. In the CVFF, the bond-stretching and angle-bending energy terms were described by a simple harmonic potential form, and the van der Waals energy term was described by the Lennard-Jones (12-6) potential form. The large-scale atomic molecular massively parallel simulator (LAMMPS) package 33 was used for all simulations. For the molecular dynamics simuations, 70 nm 3 70 nm graphene with 186,304 carbon atoms was used. The Nose-Hoover thermostat was used and the thermal environment is 300 K.