A Review of Methods for Measuring the Surface Area of Stream Substrates

Surface area measurement is a common component of benthic research, especially in the quantification of chlorophyll. Multiple techniques are available and 10 are described: artificial substrates, area-specific sampling, geometric approximation, stone shape equations, foil wrapping, grids, stamps, wetted layer, particle layer, and planar area measurement. A literature search of 130 papers indicated the most common methods: using artificial substrates of known area, subsampling a specific area using a template or sampler, measuring stone dimensions and using an equation to derive area, and using the weight of foil wrapped on stones. Methods were compared using spheres of known area, smooth and rough granite stones, and plastic macrophytes. Most methods produced highly correlated measurements and accurately estimated surface area. The wetted layer method was sensitive to stone roughness and plant complexity, but may overestimate the area of complex surfaces. Replication of one method by 10 biologists indicated that individual differences in technique can affect surface area values. Factors to consider in choosing an appropriate method include ease of use, characteristics of the substrates (e.g., porosity and flexibility), fineness of scale in measuring area, and whether methods must be field-based or can include laboratory techniques.     

Effect of sealer coating on mechanical and physical properties of permanent soft lining materials

doi: 10.1111/j.1741‐2358.2011.00487.x
Effect of sealer coating on mechanical and physical properties of permanent soft lining materials Objective: To evaluate the long‐term effects of sealer coating on tensile bond strength and surface roughness of soft liners. Background: Failure of the bond between resilient liners and denture base significantly compromise the dentures’ longevity. In addition, surface roughness contributes to bacterial adherence on prosthetic materials, increasing the risk of oral infections. Methods: Specimens were manufactured from four reliners [Mucopren Soft (MS), Dentuflex (DF); Soft Comfort Denso (SC) and Ufi Gel SC (USC)], distributed into 10 groups (n = 10), according to material and coating treatment. Tensile bond strength was performed after one year of ageing, while surface roughness was evaluated at 0, 1, 3, 6 and 12 ageing months. Bond strength data were submitted to two‐way anova and Tukey‐HSD tests, while roughness data were submitted to mixed model analysis for repeated measurements (p ≤ 0.05). Results: MS and DF without sealer coating presented the highest tensile bond strength. After coating, DF and SC presented increased tensile bond strength. No surface roughness difference was observed in the non‐coated groups over time, acrylic‐based reliners presented higher roughness. Among coated groups, only SC presented increased surface roughness. Acrylic‐based materials presented reduced roughness at three months. Conclusion: Surface coating was effective for acrylic reliners in maintaining their initial properties. However, sealer coating should be re‐applied every 3 months.     

Diversity of dermal denticle structure in sharks: Skin surface roughness and three‐dimensional morphology

Shark skin is covered with numerous placoid scales or dermal denticles. While previous research has used scanning electron microscopy and histology to demonstrate that denticles vary both around the body of a shark and among species, no previous study has quantified three‐dimensional (3D) denticle structure and surface roughness to provide a quantitative analysis of skin surface texture. We quantified differences in denticle shape and size on the skin of three individual smooth dogfish sharks (Mustelus canis) using micro‐CT scanning, gel‐based surface profilometry, and histology. On each smooth dogfish, we imaged between 8 and 20 distinct areas on the body and fins, and obtained further comparative skin surface data from leopard, Atlantic sharpnose, shortfin mako, spiny dogfish, gulper, angel, and white sharks. We generated 3D images of individual denticles and measured denticle volume, surface area, and crown angle from the micro‐CT scans. Surface profilometry was used to quantify metrology variables such as roughness, skew, kurtosis, and the height and spacing of surface features. These measurements confirmed that denticles on different body areas of smooth dogfish varied widely in size, shape, and spacing. Denticles near the snout are smooth, paver‐like, and large relative to denticles on the body. Body denticles on smooth dogfish generally have between one and three distinct ridges, a diamond‐like surface shape, and a dorsoventral gradient in spacing and roughness. Ridges were spaced on average 56 µm apart, and had a mean height of 6.5 µm, comparable to denticles from shortfin mako sharks, and with narrower spacing and lower heights than other species measured. We observed considerable variation in denticle structure among regions on the pectoral, dorsal, and caudal fins, including a leading‐to‐trailing edge gradient in roughness for each region. Surface roughness in smooth dogfish varied around the body from 3 to 42 microns.     

Quantification of biofilm accumulation by an optical approach

Methods for non-invasive, in situ, measurements of biofilm optical density and biofilm optical thickness were evaluated based on Pseudomonas aeruginosa experiments. Biofilm optical density, measured as intensity reduction of a light beam transmitted through the biofilm, correlates with biofilm mass, measured as total carbon and as cell mass. The method is more sensitive and less labor intensive than other commonly used methods for determining extent of biofilm mass accumulation. Biofilm optical thickness, measured by light microscopy, is translated into physical thickness based on biofilm refraction measurements. Biofilm refractive index was found to be close to the refractive index of water. The P. aeruginosa biofilms studied reached a pseudo steady state in less than a week, with stable liquid phase substrate, cell and TOC concentrations and average biofilm thickness. True steady state was, however, not reached as both biofilm density and roughness were still increasing after 3 weeks.     

Analysis and interpretation of two-dimensional single-particle tracking microscopy measurements: effect of local surface roughness

Methodological advances in light microscopy have made it possible to record the motions of individual lipid and protein molecules resident in the membrane of living cells down to the nanometer level of precision in the x, y plane. Such measurement of a single molecule’s trajectory for a sufficiently long period of time or the measurement of multiple molecules’ trajectories for a shorter period of time can in principle provide the necessary information to derive the particle’s macroscopic two-dimensional-diffusion coefficient—a quantity of vital biological interest. However, one drawback of the light microscopy procedures used in such experiments is their relatively poor discriminatory capability for determining spatial differences along the z axis in comparison to those in the x, y plane. In this study we used computer simulation to examine the likely effect of local surface roughness over the nanometer to micrometer scale on the determination of diffusion constants in the membrane bilayer by the use of such optical-microscope-based single-particle tracking (SPT) procedures. We specifically examined motion of a single molecule along (i) a locally planar and (ii) a locally rough surface. Our results indicate a need for caution in applying overly simplistic analytical strategies to the analysis of data from SPT measurements and provide upper and lower bounds for the likely degree of error introduced on the basis of surface roughness effects alone. Additionally we present an empirical method based on an autocorrelation function approach that may prove useful in identifying the existence of surface roughness and give some idea of its extent.     

Biofilm thickness variability investigated with a laser triangulation sensor

Measurement of the surface roughness and thickness of biological films is laborious and usually destructive, thus hampering research in this area. We developed a laser triangulation sensor (LTS) set-up for the fast and nondestructive measurement of these biofilm parameters during growth. Using LTS measurements, the morphological development of a dichloromethane-(DCM) degrading biofilm cultured on a wetted-wall column was studied. The measurements show that the biofilm develops faster at the entrance of the reactor. The biofilm consisted of a base film in which microbial colonies were embedded. The biofilm-surface area gradually increased by 23% compared to the bare surface due to the formation of a large number of these colonies. The number and shape of these colonies were followed in time. Using LTS measurements, biofilms distinctly different in surface roughness could be distinguished in a laboratory trickling filter removing DCM from a waste gas. The consequences of the observed surface characteristics for the reaction-diffusion process in the biofilm and for the falling film hydrodynamics are discussed.     

Measurement of surface area of stones

The surface area of stones can be quickly, accurately, and precisely estimated from linear regression equations of area on a two-dimensional term of the form (xy + yz + zx) where x, y, and z are either the axial dimensions or the axial perimeters of stones. Dimension measurements are made with calipers, and perimeters are measured with a tape measure or a mapping wheel. The best fit slopes for the equations are determined from a representative sample of stones whose surface areas are measured by mapping. Estimates of surface areas of river-worn cobbles by these methods had mean percentage absolute errors of about 4%, considerably better than other methods examined.     

Microform bed clusters: are they preferred habitats for invertebrates in a flood‐prone stream?

SUMMARY 1. Microform bed clusters are bedform microunits in streams. They consist of an obstacle clast (a large surface stone) against which other stones are stacked in a specific manner. Stream ecologists have suggested that these clusters are better flood refugia and more valuable habitats for invertebrates than single surface stones because of their higher stability during high‐flow events and their greater diversity of microhabitats available for colonisation. 2. To test these predictions in the Schmiedlaine, a flood‐prone prealpine stream, we sampled invertebrates on clustered and single stones on a total of seven occasions including before and after a moderate spate, two major floods and a minor spate. We also monitored surface particle stability during the second major flood and the minor spate. 3. Before the second flood (return period 1–2 years), we determined the exact positions of 60 clusters (60 obstacle clasts with 136 associated smaller particles) and 50 single stones in a 250‐m reach. We sampled the fauna on stones in the clusters, on well‐embedded single stones, and on loose single stones. Only six obstacle clasts and one single stone remained after the flood, implying movement of almost the entire surface layer. Therefore, we sampled the invertebrates on stones in newly formed clusters, on well‐embedded and single loose stones 3 and 11 days after the flood. The minor spate, in contrast to the second flood, moved only one of 495 monitored surface particles. 4. Three days after the flood, invertebrate density on clustered stones and both single stone categories were similar and equalled 34% of the mean pre‐flood density. Eight days later, density had almost doubled. The relatively high survival and rapid recovery suggest that invertebrates found refugia during the flood. However, the very low stability of clusters and single stones implied that surface particles were unimportant as refugia. 5. Total invertebrate density and taxon richness were never higher on clustered than on single stones (regardless of the timing of sampling relative to the last previous high‐flow event). Densities of the seven most common taxa and invertebrate community structure were also generally similar between particle types. We conclude that microform bed clusters cannot be regarded as more valuable invertebrate habitats than single surface stones in the Schmiedlaine.     

Fractal nature of protein surface roughness: a note on quantification of change of surface roughness in active sites,before and after binding

Year 2010 marked the 25th year since we came to know that roughness of a protein surface has fractal symmetry. Ever since the publication of Lewis and Rees' paper, hundreds of works from a spectrum of perspectives have established that fractal dimension (FD) can be considered as a reliable marker that describes roughness of protein surface objectively. In this article, we introduce readers to the fundamentals of fractals and present categorical biophysical and geometrical reasons as to why FD‐based constructs can describe protein surface roughness more accurately. We then review the commonality (and the lack of it) between numerous approaches that have attempted to investigate protein surface with fractal measures, before exploring the patterns in the results that they have produced. Apart from presenting the genealogy of approaches and results, we present an analysis that quantifies the difference in surface roughness in stretches of protein surface containing the active site, before and after binding to ligands, to underline the utility of FD‐based measures further. It has been found that surface stretches containing the active site, in general, undergo a significant increment in its roughness after binding. After presenting the entire repertoire of FD‐based surface roughness studies, we talk about two yet‐unexplored problems where application of FD‐based techniques can help in deciphering underlying patterns of surface interactions. Finally, we list the limitations of FD‐based constructs and put down several precautions that one must take while working with them. Copyright © 2013 John Wiley & Sons, Ltd.     

Scale-independent roughness value of cell membranes studied by means of AFM technique

The roughness of cell membrane is a very interesting indicator of cell's health state. Atomic Force Microscopy allows us to investigate the roughness of cell membrane in great detail, but the obtained roughness value is scale-dependent, i.e. it strongly depends on measurement parameters, as scanning area and step size. The scale-dependence of the roughness value can be reduced by means of data filtration techniques, that are not standardized at nanometric scale, especially as far as biological data are concerned. In this work, a new method, based on the changes of values of some roughness parameter (root mean square roughness and skewness) as a function of filtration frequencies, has been implemented to optimize data filtering procedure in the calculation of cell membrane roughness. In this way, a root mean square roughness value independent of cell shape, membrane micro-irregularities and measurement parameters can be obtained. Moreover, different filtration frequencies selected with this method allow us to discriminate different surface regimes (nominal form, waviness and roughness) belonging to the raw cell profile, each one related to different features of the cell surface.     

Determination of the Optical Thickness of sub 10-nm Thin Metal Films by SPR Experiments

We discuss the experimental data of surface plasmon resonance (SPR) occurring at the interface between air and single and bimetallic thin layers of Au and Ag prepared on glass substrates. The bilayer configuration allowed for the measurements of the optical constants of metallic films that are ultra thin; e.g., below 10 nm of thickness since SPR modes on such thin films in a single-layer configuration are shallow. We also discuss the effect of film thickness on SPR coupling. Thickness and refractive index of the films were determined by matching experimental SPR curves to the theoretical ones. Thickness and roughness of the films were also measured by atomic force microscopy. The results obtained by experimental measurements are in good agreement with AFM analysis.     

A surface roughness comparison of cartilage in different types of synovial joints

The naturally occurring structure of articular cartilage has proven to be an effective means for the facilitation of motion and load support in equine and other animal joints. For this reason, cartilage has been extensively studied for many years. Although the roughness of cartilage has been determined from atomic force microscopy (AFM) and other methods in multiple studies, a comparison of roughness to joint function has not be completed. It is hypothesized that various joint types with different motions and regimes of lubrication have altered demands on the articular surface that may affect cartilage surface properties. Micro- and nanoscale stylus profilometry was performed on the carpal cartilage harvested from 16 equine forelimbs. Eighty cartilage surface samples taken from three different functioning joint types (radiocarpal, midcarpal, and carpometacarpal) were measured by a Veeco Dektak 150 Stylus Surface Profilometer. The average surface roughness measurements were statistically different for each joint. This indicates that the structure of cartilage is adapted to, or worn by, its operating environment. Knowledge of cartilage micro- and nanoscale roughness will assist the future development and design of treatments for intra- articular substances or surfaces to preserve joint integrity and reduce limitations or loss of joint performance.     

Determination of the accessible surface of lysozyme and human serum albumin molecules by the total tritium labeling method

Amino acids composing an accessible surface of lysozyme and human serum albumin (HSA) globules were determined by the total tritium labelling method. A good correlation between our data on the distribution of the tritium label for the lysozyme molecule and X-ray data on the tertiary structure for this macromolecule was received. Lysozyme was used as a standard for determining the accessible surface of the globule albumin. It was shown that the accessible surface of the albumin globule is substantially more hydrophobic (average accessible surface area of hydrophobic amino acids is 130 A2 in HSA and 20 A2 in lysozyme) than in lysozyme. The HSA molecule is characterized by high values of: the accessible surface area, the ratio of extended area to the folded one, and the surface roughness index. These data indicate that the HSA molecule is less compactly packed than lysozyme.     

Engineered antifouling microtopographies - effect of feature size, geometry, and roughness on settlement of zoospores of the green alga Ulva

The effect of feature size, geometry, and roughness on the settlement of zoospores of the ship fouling alga Ulva was evaluated using engineered microtopographies in polydimethylsiloxane elastomer. The topographies studied were designed at a feature spacing of 2 microm and all significantly reduced spore settlement compared to a smooth surface. An indirect correlation between spore settlement and a newly described engineered roughness index (ERI) was identified. ERI is a dimensionless ratio based on Wenzel's roughness factor, depressed surface fraction, and the degree of freedom of spore movement. Uniform surfaces of either 2 mum diameter circular pillars (ERI=5.0) or 2 microm wide ridges (ERI=6.1) reduced settlement by 36% and 31%, respectively. A novel multi-feature topography consisting of 2 mum diameter circular pillars and 10 microm equilateral triangles (ERI=8.7) reduced spore settlement by 58%. The largest reduction in spore settlement, 77%, was obtained with the Sharklet AF topography (ERI=9.5).     

Fast Tablet Tensile Strength Prediction Based on Non-Invasive Analytics

In this paper, linkages between tablet surface roughness, tablet compression forces, material properties, and the tensile strength of tablets were studied. Pure sodium halides (NaF, NaBr, NaCl, and NaI) were chosen as model substances because of their simple and similar structure. Based on the data available in the literature and our own measurements, various models were made to predict the tensile strength of the tablets. It appeared that only three parameters—surface roughness, upper punch force, and the true density of material—were needed to predict the tensile strength of a tablet. Rather surprising was that the surface roughness alone was capable in the prediction. The used new 3D imaging method (Flash sizer) was roughly a thousand times quicker in determining tablet surface roughness than traditionally used laser profilometer. Both methods gave practically analogous results. It is finally suggested that the rapid 3D imaging can be a potential in-line PAT tool to predict mechanical properties of tablets in production.     

The effect of extracellular polymeric substances on the attachment of Pseudomonas NCIMB 2021 to AISI 304 and 316 stainless steel

Surfaces of AISI 304 and 316 stainless steels were pre-treated with three different types of extracellular polymeric substances, viz. (i) exopolymers released into the culture medium ("free"; or planktonic exopolymers), (ii) capsular exopolymers, and (iii) biofilm exopolymers, produced by continuous cultures of marine Pseudomonas NCIMB 2021. The initial attachment of Pseudomonas cells to exopolymer-conditioned steel surfaces varied with the exopolymer type and concentration. Results gained from wettability studies of exopolymer-treated steel using contact angle measurements, as well as from the surface roughness measurements conducted employing atomic force microscopy analysis, could not account for the observed, statistically significant differences (p < 0.1) in the level of bacterial surface colonisation. It is therefore proposed that neither surface hydrophobicity nor roughness play an important part in the early attachment of Pseudomonas NCIMB 2021 to the conditioned steel surfaces and that a difference in the chemistry of the exopolymers is most likely a key parameter influencing initial cell adhesion to pre-treated steel.     

Dynamic Stability of Passive Bipedal Walking on Rough Terrain:A Preliminary Simulation Study

A simplified 2D passive dynamic model was simulated to walk down on a rough slope surface defined by deterministic profiles to investigate how the walking stability changes with increasing surface roughness.Our results show that the passive walker can walk on rough surfaces subject to surface roughness up to approximately 0.1％ of its leg length.This indicates that bipedal walkers based on passive dynamics may possess some intrinsic stability to adapt to rough terrains although the maximum roughness they can tolerate is small.Orbital stability method was used to quantify the walking stability before the walker started to fall over.It was found that the average maximum Floquet multiplier increases with surface roughness in a non-linear form.Although the passive walker remained orbitally stable for all the simulation cases,the results suggest that the possibility of the bipedal model moving away from its limit cycle increases with the surface roughness if subjected to additional perturbations.The number of consecutive steps before falling was used to measure the walking stability after the passive walker started to fall over.The results show that the number of steps before falling decreases exponentially with the increase in surface roughness.When the roughness magnitude approached to 0.73％ of the walker's leg length,it fell down to the ground as soon as it entered into the uneven terrain.It was also found that shifting the phase angle of the surface profile has apparent affect on the system stability.This is probably because point contact was used to simulate the heel strikes and the resulted variations in system states at heel strikes may have pronounced impact on the passive gaits,which have narrow basins of attraction.These results would provide insight into how the dynamic stability of passive bipedal walkers evolves with increasing surface roughness.     

Surface roughness parameters as predictors of anchorage strength in bone: a critical analysis

The surface roughness of a bone implant was defined parametrically. The values of the parameters defining the surface were varied. Some traditionally used surface roughness parameters were calculated. By means of a theoretical model the bone-implant interfacial shear strength was estimated. No simple correlation between the values of the surface roughness parameters and the estimated interfacial shear strength was found. It was concluded that the value of the traditional surface roughness parameters as predictors of interfacial shear strength is limited. If however a change of the surface topography of an implant is restricted to scale a positive correlation was found between the theoretical interfacial shear strength and some surface roughness parameters. It is suggested that the bone-implant interfacial shear strength in the general case be estimated by means of strength analyses based upon a study of the size, shape and density of the individual elements constituting the rough surface.     

Effects of coating roughness and biofouling on ship resistance and powering

Predictions of full-scale ship resistance and powering are made for antifouling coating systems with a range of roughness and fouling conditions. The estimates are based on results from laboratory-scale drag measurements and boundary layer similarity law analysis. In the present work, predictions are made for a mid-sized naval surface combatant at cruising speed and near maximum speed. The results indicate that slime films can lead to significant increases in resistance and powering, and heavy calcareous fouling results in powering penalties up to 86% at cruising speed. The present estimates show good agreement with results from full-scale ship power trials.