Near Field Scanning Optical Microscopy (NSOM): Development and Biophysical Applications

A new method for high-resolution imaging, near-field scanning optical microscopy (NSOM), has been developed. The concepts governing this method are discussed, and the technical challenges encountered in constructing a working NSOM instrument are described. Two distinct methods are presented for the fabrication of well-characterized, highly reproducible, subwavelength apertures. A sample one-dimensional scan is provided and compared to the scanning electron micrograph of a test pattern. From this comparison, a resolution of > 1,500 Å (i.e., λ/3.6) is determined, which represents a significant step towards our eventual goal of 500 Å resolution. Fluorescence has been observed through apertures smaller than 600 Å and signal-to-noise calculations show that fluorescent imaging should be feasible. The application of such imaging is then discussed in reference to specific biological problems. The NSOM method employs nonionizing visible radiation and can be used in air or aqueous environments for nondestructive visualization of functioning biological systems with a resolution comparable to that of scanning electron microscopy.     

The relation between stomatal aperture and gas exchange under consideration of pore geometry and diffusional resistance in the mesophyll

The quantitative relation between stomatal aperture and gas exchange through the stomatal pore can be described by physical models derived from Fick's first law of diffusion. Such models, usually based on a simplified pore geometry, are used to calculate leaf conductance from stomatal pore dimensions or vice versa. In this study a combination of gas-exchange measurements and simultaneous microscopical observations of stomatal apertures was used to empirically determine this relationship. The results show a substantial deviation between measured stomatal conductance and that calculated from the simplified models. The main difference is a much steeper increase of conductance with aperture at small apertures. When the calculation was based on a realistic pore geometry derived from confocal laser scanning microscopy, a good fit to the experimentally found relationship could be obtained if additionally a significant contribution of a mesophyll diffusional resistance was taken into account.     

Shaped Apertures in Photoresist Films Enhance the Lifetime and Mechanical Stability of Suspended Lipid Bilayers

Planar lipid bilayers suspended in apertures provide a controlled environment for ion channel studies. However, short lifetimes and poor mechanical stability of suspended bilayers limit the experimental throughput of bilayer electrophysiology experiments. Although bilayers are more stable in smaller apertures, ion channel incorporation through vesicle fusion with the suspended bilayer becomes increasingly difficult. In an alternative bilayer stabilization approach, we have developed shaped apertures in SU8 photoresist that have tapered sidewalls and a minimum diameter between 60 and 100 μm. Bilayers formed at the thin tip of these shaped apertures, either with the painting or the folding method, display drastically increased lifetimes, typically >20 h, and mechanical stability, being able to withstand extensive perturbation of the buffer solution. Single-channel electrical recordings of the peptide alamethicin and of the proteoliposome-delivered potassium channel KcsA demonstrate channel conductance with low noise, made possible by the small capacitance of the 50 μm thick SU8 septum, which is only thinned around the aperture, and unimpeded proteoliposome fusion, enabled by the large aperture diameter. We anticipate that these shaped apertures with micrometer edge thickness can substantially enhance the throughput of channel characterization by bilayer lipid membrane electrophysiology, especially in combination with automated parallel bilayer platforms.     

Multi-mode Hybrid Plasmonic Waveguides with Enhanced Confinement and Propagation

A hybrid waveguide, which consists of a dielectric wire above a dielectric-metal interface, has been previously proposed to achieve high confinement with low loss. By exciting this geometry with an aperture in the metal that takes advantage of the extraordinary transmission through subwavelength apertures, it is possible to strongly couple to multiple modes. The real part of the fundamental mode is in fact capable of exceeding the index of refraction of all the materials used while maintaining a manageable imaginary part, as a result of appropriate choice of materials for the dielectric wire and the metal. In addition, as the confinement of the second mode is comparable to that of the fundamental mode but has a much longer propagation length, this mode can be utilized in light-guiding applications where enhanced confinement and propagation is desired.     

An array of planar apertures for near-field fluorescence correlation spectroscopy

We have developed a method of performing near-field fluorescence correlation spectroscopy via an array of planarized circular apertures of 50 nm diameter. This technique provides 1 μs and 60 nm resolution on proximal samples, including live cells, without incorporating a scanning probe or pulsed lasers or requiring penetration of the sample into the aperture. Millions of apertures are created in an array within a thin film of aluminum on a coverslip and planarized to achieve no height distinction between the apertures and the surrounding metal. Supported lipid bilayers and plasma membranes from live cells adhere to the top of this substrate. We performed fluorescence correlation spectroscopy to demonstrate the sub-diffraction-limited illumination with these devices.     

Measurement in vitro of pulsatile arterial diameter using a helium-neon laser

A noncontacting in vitro measurement of pulsatile arterial diameter using a scanning optical micrometer is described. The major component of this system is a He-Ne laser whose beam scans the pulsating artery to be measured. The laser micrometer was integrated into a pulsatile perfusion apparatus that imposed various hemodynamic conditions on excised canine vessels. The laser system reliably tracked the pulsating arterial diameter at a particular longitudinal site as well as at various increments in the presence of an experimentally created stenosis. The He-Ne laser measured the radial motion of canine arteries and various vascular substitutes anastomosed in an end-to-end fashion. From these novel measurements, calculations were made of arterial compliance and bending stress, two biomechanical parameters that are implicated as potential causes of anastomotic intimal hyperplasia and graft failure. Although this device is inherently limited to in vitro use, it is a potentially useful instrument for vascular physiology and biophysics.     

Phylogenetic implications of sperm storage in Podotremata: Histology and 3D‐reconstructions of spermathecae and gonopores in female carrier crabs (Decapoda: Brachyura: Homoloidea)

Female reproductive systems are important characters for understanding the evolution of Brachyura and resolving its phylogenetic relationships. We herein investigate a podotreme brachyuran reproductive system comprehensively for the first time studying spermathecae and gonopores of Homoloidea with histological methods, micro‐computer tomography and scanning electron microscopy. Our results show that spermathecal apertures are species‐specific and their shape corresponds closely to that of male copulatory organs. Apertures were either enclosed by membranous cuticle areas or otherwise occluded preventing direct access into spermathecae. 3D‐reconstructions reveal that spermathecae differ between the species Paromola cuvieri and Homola barbata with regard to the involvement of sternite 7 and 8, respectively, in forming the sperm storage chamber. The cuticle epithelium that lines the spermathecal chamber is irregular and distinct from the remaining cylindrical cuticle epithelium. A first uniramous pleopod was present in all homoloids studied and always held in a position to cover spermathecal apertures. Specific pulvinated cuticle structures present on both sides of the first pleopod are herein interpreted as adhesive structures functioning in reproductive processes. The coxal gonopores were enclosed by a laterally arising muscular mobile operculum that resembles opercula described in eubrachyuran vaginae, which raises the question whether these two structures are homologous. Our results are compared with data available for other brachyuran groups and discussed in terms of phylogenetic relationships within the Brachyura and possible functions in insemination and fertilization in Podotremata. J. Morphol. 278:89–105, 2017. ©© 2016 Wiley Periodicals,Inc.     

Experimental Study of Indirect Phase Tuning-Based Plasmonic Structures for Finely Focusing

Three types of indirect phase tuning-based plasmonic structures with subwavelength circular grooves/slits and/or central apertures corrugated on Au film supported by glass substrate: depth modulation, width modulation, and hybrid depth-width modulation, were put forth in this paper. They were investigated experimentally by means of nanofabrication and near-filed scanning optical microscope characterization. The plasmonic structures were fabricated using the technique of focused ion beam direct milling. Our experimental results demonstrated that all of the phase tuning-based structures have focusing functions. Both the width and depth modulation-based structures can realize beam focusing and produce an elongated depth of focus. Moreover, after comparison among these three structures, we found that the width modulation-based structure has the best focusing performance.     

Enhanced Terahertz Transmission Through Bullseye Plasmonics Lenses Fabricated Using Micromilling Techniques

Imaging applications at terahertz frequencies are, in general, limited to relatively low spatial resolution due to the effects of diffraction. By using a subwavelength aperture in the near-field, however, it is possible to achieve subwavelength resolution, although low transmission through the aperture limits the sensitivity of this approach. Plasmonic lenses in the form of bullseye structures, which consist of a circular subwavelength aperture surrounded by concentric periodic corrugations, have demonstrated enhanced transmission, thereby increasing the utility of near-field imaging configurations. In this paper, the design, fabrication, and experimental performance of plasmonic lenses optimized for 300 GHz are discussed. While nanofabrication techniques are required for optical applications, microfabrication techniques are sufficient for terahertz applications. The process flow for fabricating a double-sided bullseye structure using a precision micromilling technique is described. Transmission and beam profile measurements using a customized terahertz testbed are presented.

     

Complex echo classification by echo-locating bats: a review

Echo-locating bats constantly emit ultrasonic pulses and analyze the returning echoes to detect, localize, and classify objects in their surroundings. Echo classification is essential for bats’ everyday life; for instance, it enables bats to use acoustical landmarks for navigation and to recognize food sources from other objects. Most of the research of echo based object classification in echo-locating bats was done in the context of simple artificial objects. These objects might represent prey, flower, or fruit and are characterized by simple echoes with a single up to several reflectors. Bats, however, must also be able to use echoes that return from complex structures such as plants or other types of background. Such echoes are characterized by superpositions of many reflections that can only be described using a stochastic statistical approach. Scientists have only lately started to address the issue of complex echo classification by echo-locating bats. Some behavioral evidence showing that bats can classify complex echoes has been accumulated and several hypotheses have been suggested as to how they do so. Here, we present a first review of this data. We raise some hypotheses regarding possible interpretations of the data and point out necessary future directions that should be pursued.     

Tailoring Absorption in Metal Gratings with Resonant Ultrathin Bridges

We present a theoretical analysis of the effects of short range surface plasmon polariton excitation on subwavelength bridges in metal gratings. We show that localized resonances in thin metal bridges placed within the slit of a free-standing silver grating dramatically modify transmission spectra and boost absorption regardless of the periodicity of the grating. Additionally, the interference of multiple localized resonances makes it possible to tailor the absorption properties of ultrathin gratings, regardless of the apertures’ geometrical size. This tunable, narrow band, enhanced–absorption mechanism triggered by resonant, short-range surface plasmon polaritons may also enhance nonlinear optical processes like harmonic generation, in view of the large third-order susceptibility of metals.     

Scanning Microphotolysis: Three-Dimensional Diffusion Measurement and Optical Single-Transporter Recording

Scanning microphotolysis (SCAMP) is a combination of fluorescence microphotolysis and confocal laser scanning microscopy. A laser scanning microscope is equipped with an optical switch able to modulate the power or/and wavelength of the laser beam in less than a microsecond while a dedicated computer program is employed to precisely coordinate scanning process and laser beam modulation. By these means it becomes possible to vary the power or/and wavelength of the laser beam during scanning at a precision of one resolution element. Patterns of almost arbitrary design can be written into the object by photolysis, e.g., photobleaching or photoactivation. The dissipation of the photolysis pattern by diffusion or other types of molecular transport can be followed at confocal resolution and used to characterize the transport process. SCAMP can be employed in conjunction with single-photon or multiphoton excitation. Furthermore, it can be easily installed on virtually any confocal laser scanning microscope. We summarize at first the conceptual and practical basis of SCAMP. Then, two novel applications are discussed: (i) measurements of translational diffusion coefficients in truly three-dimensional systems at diffraction-limited resolution, and (ii) optical recording of single transporters in membrane patches.     

Modeling Fluorescence Enhancement from Metallic Nanocavities

We study the excitation and emission enhancement mechanisms for fluorescence from molecules confined within subwavelength metal apertures, or nanocavities. The variation in these enhancements with wavelength is calculated for individual round nanocavities in gold of varying diameters and dielectric environments. Enhancement peaks are associated with localized surface plasmon resonances of the nanocavity. In addition, these enhancements strongly vary with location within the nanocavity. These results should aid future work in maximizing overall fluorescence enhancement from these structures.     

Laser spatial scanning in flow cytometry]

The main flow laser cytometry principles, based on the elastic light scattering, spheres of its applications, problems of its realization and utilization in the immunological investigations and diagnostics are analysed. The experimental model of a flow cytometer with laser probing beam space scanning, originally proposed by the authors, is described. The apparatus was tested by polystyrene latex spheres and biological objects. The experiments showed that the achieved sensitivity was enough to register red blood cells, their complexes and bacterial cells.     

Pollen of African Spermacoce species (Rubiaceae) Morphology and evolutionary aspects

Pollen morphology of 43 African species of the genus Spermacoce has been investigated by scanning electron and light microscopy. The genus is eurypalynous, which is reflected in the remarkable variation of almost all pollen characters. The average equatorial diameter (E) ranges from 15.8 w m to 115.5 w m. Grains are colporate or pororate. The number of apertures varies from 3 up to more than 25. The majority of species has apertures situated only at the equator (being zonoaperturate), but a few species have pantoaperturate grains. The endoaperture is generally an endocingulum, often with a secondary lolongate or lalongate thinning at the ectocolpus; endocolpi and endopores are also observed. The sexine is usually perforate, but eutectate, foveolate, and (micro)reticulate tecta were also found. Supratectal elements are present as granules, microspines or spines. The inner nexine surface is granular, often with irregular grooves (endocracks). Among native African species, nine pollen types are recognized mainly on the basis of pollen size, aperture morphology and tectum peculiarities. In two of the pantoaperturate types, apertures are in a configuration not yet recorded for the angiosperms in general. Some evolutionary trends are proposed that await verification by further systematic study. Pollen morphological characters have a high taxonomic value in the genus Spermacoce . They provide almost unique identification marks for the species, which enables sharpening of species boundaries. Small groups of related species often share the same pollen type. The genus Borreria , previously separated from Spermacoce on the basis of its fruit morphology only, is not supported by pollen data.     

Exploration of the intercellular heterogeneity of topotecan uptake into human breast cancer cells through compartmental modelling

A mathematical multi-cell model for the in vitro kinetics of the anti-cancer agent topotecan (TPT) following administration into a culture medium containing a population of human breast cancer cells (MCF-7 cell line) is described. This non-linear compartmental model is an extension of an earlier single-cell type model and has been validated using experimental data obtained using two-photon laser scanning microscopy (TPLSM). A structural identifiability analysis is performed prior to parameter estimation to test whether the unknown parameters within the model are uniquely determined by the model outputs. The full model has 43 compartments, with 107 unknown parameters, and it was found that the structural identifiability result could not be established even when using the latest version of the symbolic computation software Mathematica. However, by assuming that a priori knowledge is available for certain parameters, it was possible to reduce the number of parameters to 81, and it was found that this (Stage Two) model was globally (uniquely) structurally identifiable. The identifiability analysis demonstrated how valuable symbolic computation is in this context, as the analysis is far too lengthy and difficult to be performed by hand.     

Using palynomorphological characteristics for the identification of species of Alsinoideae (Caryophyllaceae): a systematic approach

Palynological characters of 18 species belonging to seven genera of the traditional subfamily Alsinoideae including Arenaria, Cerastium, Eremogone, Lepyrodiclis, Minuartia, Sabulina and Stellaria were studied in detail using light and scanning electron microscopy. Pollen grains of subfamily Alsinoideae are subspheroidal or prolate, pantoporate and 20.04 to 51.4 µm in size, prominent and sunken apertures uniformly distributed on the pollen surface. Two types of pollen grain ornamentation were observed, i.e. microechinate-punctate or microechinate-perforate. Echini are present on the surface of the pollen of all investigated species with medium, dense, or sparse echinodensity. These species exhibit variation in polar view, equatorial diameter, number of apertures, exine thickness, diameter of pore, appendages per pore, pore ornamentation, echini arrangement, echinidensity and shape of pollen. Based on qualitative characters, a dichotomous key has been developed for quick and easy identification. The present investigation contributes to the systematic approach using palynological characteristics and correct identification of species for members of subfamily Alsinoideae (Caryophyllaceae).     

Infrageneric variability of pollen morphology in Palaua (Malveae,Malvaceae) and the taxonomic utility of quantitative pollen characters

Palaua (Malvaceae) comprises 15 species endemic to the coastal deserts of Chile and Peru. Previous molecular phylogenetic analyses have shown that this genus is monophyletic and can be subdivided into three clades. In the present study, pollen morphology of all species of Palaua was examined using light and scanning electron microscopy to determine whether it provides additional data in support of the proposed infrageneric groups. The pollen grains are spheroidal, medium to large in diameter, spinose and pantocolporate – the ectocolpi are very short. The tectum is perforate and characterised by granula. In all species the nexine is of a similar thickness in all areas of the pollen grain, while the sexine thickness varies, being notably thicker in the areas where the broad spine bases are sited (‘spine cushions’). Many of the quantitative characters have conspicuous variability, but the variability shows considerable overlap between species. Nonetheless, P. guentheri, P. inconspicua, P. malvifolia and P. modesta are united as a group by having the smallest pollen grains with the smallest apertures, the shortest spines and the shortest interspinal distance. This grouping reflects only partially the suggested infrageneric clades, although it does tend to unite the species with the smallest flowers. A possible link between reproductive resources and pollen size is also considered, as well as the influence of polyploidy. However, the taxonomic utility of these quantitative characters is weakened by species with more than one cytotype.     

Cosmos pollen ontogeny: A scanning electron microscope study

Summary Ontogenetic data concerning pollen not only clarifies the mode of deposition of the elaborate walls but has considerable functional and taxonomic relevance. Hitherto such studies have used optical or transmission electron microscopy but here a recently devised preparative technique has enabled pollen development inCosmos bipinnatus to be studied using the scanning electron microscope. The technique involves freeze-fracturing of osmium fixed, cryoprotected anthers, maceration in dilute osmium tetroxide, critical point drying, sputter coating and examination. The processes of pollen wall development can then be observed in three dimensions, an important aid to understanding the spatial relationships involved in the determination of ornamentation and apertures. Details of the pollen and tapetum are described at various stages between meiosis and anthesis. A close conformity is demonstrated between the results obtained and those of earlier transmission electron microscopic studies of the same and related species although very different interpretations are made.     

Short order nanohole arrays in metals for highly sensitive probing of local indices of refraction as the basis for a highly multiplexed biosensor technology

A small array of subwavelength apertures patterned in a gold film on glass was characterized for use as a biosensor. It is widely believed that such arrays allow the resonance of photons with surface plasmons in the metallic film. Surface plasmon methods (and other evanescent wave methods) are extremely well suited for the measure of real time biospecific interactions. An extremely high sensitivity of 88,000%/refractive index unit was measured on an array with theoretical active area of .09 microm2. The formation of a biological monolayer was monitored. Both sensitivity and resolution were determined through measurement. The measured resolution, for a sensor with an active area of less than 1.5 microm2, is 9.4 x 10(-8) refractive index units which leads to a calculated sensitivity of 3.45E6%/refractive index unit. These values far exceed theoretical and calculated values of other grating coupled surface plasmon resonance (SPR) detectors and prism based SPR detectors. Because the active sensing area can be quite small (.025 microm2) single molecule studies are possible as well as massive multiplexing on a single chip format.