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PubMed2002

Differences in the susceptibility of Streptococcus pyogenes to rokitamycin and erythromycin A revealed by morphostructural atomic force microscopy.

The aim of this study was to use atomic force microscopy (AFM), an innovative type of microscopy, to investigate the different behaviours of erythromycin A (a 14-membered ring) and rokitamycin (a 16-membered ring) in disrupting the morphology of Streptococcus pyogenes with the M phenotype. AFM scanning and sensing of the topography of a sample makes it possible to obtain simultaneous high-resolution digital measurements of the x, y and z coordinates at any point on the bacteria surface. The images obtained before and 2, 4 and 6 h after incubation with erythromycin A (32 mg/L) and rokitamycin (2 mg/L) clearly show that not even high concentrations of erythromycin A interfere with the M phenotype of S. pyogenes, whereas rokitamycin has a progressive action that leads to the formation of abnormally large cells, the loosening of chain structure and the formation of clusters.

Drug Resistance, Bacterial↗
PubMed2006

Long polymeric tips of atomic force microscopy for large biological samples.

We show a new atomic force microscopy technique for obtaining high-resolution topographic images of large bio-samples. To obtain high-resolution topographic images for the samples, we fabricated a long polymeric tip with a small protrusion using two-photon adsorbed photo-polymerization techniques. The obtained tip length was over 50 microm, and the tip was used directly to visualize COS-1 and 293 cells. Compared with commercial tips, the long tip made it easier to obtain topographic images of the large cells. In the magnified topographic images, the sub-100-nm resolution was confirmed with the long tips. This long probe tip is expected to broaden large sample-related studies and applications in the future.

Animals↗
PubMed2004

DNA structure and dynamics: an atomic force microscopy study.

This review primarily outlines the most recent atomic force microscopy (AFM) studies of DNA structure and dynamics. Sample preparation techniques allowing reliable and reproducible imaging of various DNA topologies are reviewed. Such important issues as imaging of supercoiled DNA conformations at different ionic conditions and detection of local alternative structures that are stabilized by negative DNA supercoiling are discussed in length in the article. The possibility of imaging DNA structural dynamics at different levels is another major focus of the article. Using time-lapse AFM imaging mode of nondried samples, such extensive DNA dynamic processes as transition of one local structure into another (H-DNA to B-form transition), the conformational transitions of DNA Holliday junctions and their branch migration were observed. Potential future applications of this single-molecule dynamics mode of AFM to analyses of various biochemical processes involving DNA are discussed.

Biophysics↗
PubMed2001

An atomic force microscopy investigation of protein crystal surface topography.

Tapping mode atomic force microscopy was employed to study the surface structure of different protein crystals in a liquid environment. The (101) face of hen egg-white lysozyme crystals and the (111) face of horse spleen ferritin crystals were studied. On the (101) face of lysozyme crystals we observed islands delimitated by micro-steps and elongated in the [010] direction. The elongation direction coincides with the preferential growth direction predicted by a growth model reported in the literature. The islands observed on the ferritin (111) face are also delimitated by micro-steps but have circular symmetry. Sectioning of the images allowed us to measure the step heights. The surface free energy was estimated from the growth step morphology. Molecular resolution was achieved for ferritin crystals, showing a hexagonal surface packing, as expected for the molecular lattice of a (111) face in a fcc crystal.

Animals↗
PubMed2002

The size of lipid rafts: an atomic force microscopy study of ganglioside GM1 domains in sphingomyelin/DOPC/cholesterol membranes.

Atomic force microscopy has been used to study the distribution of ganglioside GM1 in model membranes composed of ternary lipid mixtures that mimic the composition of lipid rafts. The results demonstrate that addition of 1% GM1 to 1:1:1 sphingomyelin/dioleoylphosphatidylcholine/cholesterol monolayers leads to the formation of small ganglioside-rich microdomains (40-100 nm in size) that are localized preferentially in the more ordered sphingomyelin/cholesterol-rich phase. With 5% GM1 some GM1 microdomains are also detected in the dioleoylphosphatidylcholine-rich phase. A similar preferential localization of GM1 in the ordered phase is observed for bilayers with the same ternary lipid mixture in the upper leaflet. The small GM1-rich domains observed in these experiments are similar to the sizes for lipid rafts in natural membranes but considerably smaller than the ordered bilayer domains that have been shown to be enriched in GM1 in recent fluorescence microscopy studies of lipid bilayers. The combined data from a number of studies of model membranes indicate that lateral organization occurs on a variety of length scales and mimics many of the properties of natural membranes.

Cholesterol↗
PubMed1997

Atomic force microscopy as a tool for study of human hair.

Atomic force microscopy (AFM) is a newly developed microscopic technique that offers high-resolution power, less intrusive measurement, and requires little sample pretreatment for elucidating structures of biological materials in three dimensions and in their natural environment. In this study, AFM has been used not only as an imaging technique for examining human hair structure at high resolution, but also as a tool for quantitative assessment of the effect of treatment in 10 mM phosphate buffered saline of pHs 3.0, 7.0, and 11.0 and heating on human hair structure. It is observed that the hair cuticle is a sensitive indicator of external influences on hair structure, and that its height can be used as a parameter for quantitative assessment. The experimental results obtained show that the swelling of hair caused by the incubation in the buffer decreases with the increase of the pH values and that, depending on the duration of heating, the hair undergoes structural expansion and shrinkage. This study demonstrates that AFM can be used as a valuable alternative to conventional microscopic techniques for hair research.

Asian↗
PubMedDate not supplied

[Amino-modified probes with immobilized linkers and proteins for atomic force microscopy].

Functionalized by bovine serum albumin (BSA) probes for atomic force microscopy (AFM) which can be used for molecular recognition studies has been obtained. Modification and functionalization procedure of AFM probe includes three stages. First, amino probes were obtained by modification in vapors of amino silane derivative. Then surface amino groups of the amino probe interacted with homobifunctional amino reactive crosslinker. And finally, the probe with covalently attached crosslinker was functionalized by BSA molecules. Obtained AFM probes were characterized on the different stages of the modification by force measurements and the adhesion forces were determined. Process of modification was confirmed by visualization of BSA and supercoiled pGEMEX DNA molecules immobilized on the standard amino mica and amino mica modified by crosslinker.

Aluminum Silicates↗
PubMed1997

Imaging excised apical plasma membrane patches of MDCK cells in physiological conditions with atomic force microscopy.

We combined the patch-clamp technique with atomic force microscopy (AFM) to visualize plasma membrane proteins protruding from the extracellular surface of cultured kidney cells (MDCK cells). To achieve molecular resolution, patches were mechanically isolated from whole MDCK cells by applying the patch-clamp technique. The excised inside-out patches were transferred on freshly cleaved mica and imaged with the AFM in air and under physiological conditions (i. e. in fluid). Thus, the resolution could be increased considerably (lateral and vertical resolutions 5 and 0.1 nm, respectively) as compared to experiments on intact cells, where plasma membrane proteins were hardly detectable. The apical plasma membrane surface of the MDCK cells showed multiple protrusions which could be identified as membrane proteins through the use of pronase. These proteins had a density of about 90 per micron(2), with heights between 1 and 9 nm, and lateral dimensions of 20-60 nm. Their frequency distribution showed a peak value of 3 nm for the protein height. A simplified assumption - modelling plasma membrane proteins as spherical structures protruding from the lipid bilayer - allowed an estimation of the possible molecular weights of these proteins. They range from 50 kDa to 710 kDa with a peak value of 125 kDa. We conclude that AFM can be used to study the molecular structures of membranes which were isolated with the patch-clamp technique. Individual membrane proteins and protein clusters, and their arrangement and distribution in a native plasma membrane can be visualized under physiological conditions, which is a first step for their identification.

Animals↗
PubMed2001

Blood cell adhesion on sensor materials studied by light, scanning electron, and atomic-force microscopy.

Unwanted interactions of biomedical sensors with surrounding tissues, body fluids, and cells are one of the most crucial problems affecting their long-term stability. In vivo processes were simulated in a computer-controlled bioreactor connected to a flow chamber system. Optical sensor materials were inserted into a parallel-plate chamber and monitored by light microscopy in order to get information about the number of adhered cells. Tests with thrombocyte-enriched plasma show that novel phosphorylcholine (PC)-polymer-coated sensors appear to be more bioinert, and thus demonstrate better haemocopatibility in comparison with untreated glass sensors. The influence of different materials on the morphology of adhered cells was investigated by off-line methods such as scanning electron microscopy (SEM) and atomic-force microscopy (AFM). SEM showed a reduction in the number of adhered thrombocytes and the lack of any fibrin network on the PC-polymer-modified glass surface, in contrast to the pure glass surface. AFM gives topographical information, and the calculated contact areas and cell volumes indicate smaller interactions between cells and sensor material in the case of PC-polymer-coated sensors.

Bioreactors↗
PubMed2004

The cohesive-adhesive balances in dry powder inhaler formulations I: Direct quantification by atomic force microscopy.

PURPOSE: To obtain a quantitative assessment of the cohesive and adhesive force balance within dry powder inhaler formulations. METHODS: The atomic force microscope (AFM) colloid probe technique was used to measure the adhesive and cohesive force characteristics of dry powder systems containing an active component (budesonide, salbutamol sulphate) and alpha-lactose monohydrate. To minimize the variations in contact area between colloid probe and substrates, nanometer smooth crystal surfaces of the drugs and the excipient were prepared. RESULTS: The uniformity in contact area allowed accurate and reproducible force measurements. Cohesive-adhesive balance (CAB) graphs were developed to allow direct comparison of the interaction forces occurring in model carrier-based formulations. A salbutamol sulphate-lactose system revealed a significant tendency for the two materials to adhere, suggesting a propensity for the powder to form a homogenous blend. In contrast, the budesonide-lactose system exhibited strong cohesive properties suggesting that the formulation may exhibit poor blend homogeneity and potential for segregation upon processing and handling. CONCLUSIONS: The novel approach provides a fundamental insight into the cohesive-adhesive balances in dry powder formulations and further understanding of powder behavior.

Adhesiveness↗
PubMed2006

Atomic force microscopy applied to study macromolecular content of embedded biological material.

We demonstrate that atomic force microscopy represents a powerful tool for the estimation of structural preservation of biological samples embedded in epoxy resin, in terms of their macromolecular distribution and architecture. The comparison of atomic force microscopy (AFM) and transmission electron microscopy (TEM) images of a biosample (Caenorhabditis elegans) prepared following to different types of freeze-substitution protocols (conventional OsO4 fixation, epoxy fixation) led to the conclusion that high TEM stainability of the sample results from a low macromolecular density of the cellular matrix. We propose a novel procedure aimed to obtain AFM and TEM images of the same particular organelle, which strongly facilitates AFM image interpretation and reveals new ultrastructural aspects (mainly protein arrangement) of a biosample in addition to TEM data.

Animals↗
PubMedDate not supplied

[A quantitative analysis of complex formation between IgM and immobilized ligand using atomic force microscopy].

Specific interaction between human IgM and polyclonal antibodies immobilized on support was studied by atomic force microscopy. Human IgMs are responsible for a number of side effects arising during the xenotransplantation of mammalian organs to man. On the basis of atomic force microscopy, a quantitative analysis of complexes with IgM was performed. The data of the analysis agree well with the results of enzyme immunoassay. It was shown that the method of detection of immune complexes based on atomic force microscopy is able to detect specific antibodies/antigens in serum.

Aluminum Silicates↗
PubMed2006

Visualization of single and aggregated hulless oat (Avena nuda L.) (1-->3),(1-->4)-beta-D-glucan molecules by atomic force microscopy and confocal scanning laser microscopy.

Surfactants were used to disperse oat beta-glucan. Atomic force microscopy (AFM) images of the resulting samples revealed a distribution of extended chainlike molecules and allowed, for the first time, direct visualization of single oat beta-glucan molecules with cross-sectional heights of about 0.44 nm. The number-average contour length (L(n)) and root-mean-square end-to-end distance ((R(ee)2)(1/2)) measured from the AFM images were 938 and 912 nm, respectively. The calculated persistence length (L(p)) was 526 nm. The weight-average molecular weight (M(w)) calculated from single beta-glucan molecules was 4.43 x 10(5). Samples without surfactant showed a strong tendency to form aggregates. The sample concentration, reserving time, and calcofluor as well as freezing could affect the formation of aggregates. These aggregates were visualized by both AFM and confocal scanning laser microscopy. The shape of the aggregates changed from small dots with diameters of approximately 20-50 nm to microfibrils over 3 microm long with the increasing of the concentration of oat beta-glucan from 10 to 100 microg/mL. The particle size distribution obtained by a laser particle size analyzer was 926 nm, which confirmed the size of oat beta-glucan molecules obtained from AFM images.

Avena↗
PubMed2003

Revealing the hidden atom in graphite by low-temperature atomic force microscopy.

Carbon, the backbone material of life on Earth, comes in three modifications: diamond, graphite, and fullerenes. Diamond develops tetrahedral sp3 bonds, forming a cubic crystal structure, whereas graphite and fullerenes are characterized by planar sp2 bonds. Polycrystalline graphite is the basis for many products of everyday life: pencils, lubricants, batteries, arc lamps, and brushes for electric motors. In crystalline form, highly oriented pyrolytic graphite is used as a diffracting element in monochromators for x-ray and neutron scattering and as a calibration standard for scanning tunneling microscopy (STM). The graphite surface is easily prepared as a clean atomically flat surface by cleavage. This feature is attractive and is used in many laboratories as the surface of choice for "seeing atoms." Despite the proverbial ease of imaging graphite by STM with atomic resolution, every second atom in the hexagonal surface unit cell remains hidden, and STM images show only a single atom in the unit cell. Here we present measurements with a low-temperature atomic force microscope with pico-Newton force sensitivity that reveal the hidden surface atom.

Freezing↗
PubMed1999

Atomic force microscopy captures length phenotypes in single proteins.

We use single-protein atomic force microscopy techniques to detect length phenotypes in an Ig module. To gain amino acid resolution, we amplify the mechanical features of a single module by engineering polyproteins composed of up to 12 identical repeats. We show that on mechanical unfolding, mutant polyproteins containing five extra glycine residues added to the folded core of the module extend 20 A per module farther than the wild-type polyproteins. By contrast, similar insertions near the N or C termini have no effect. Hence, our atomic force microscopy measurements readily discriminate the location of the insert and measure its size with a resolution similar to that of NMR and x-ray crystallography.

Connectin↗
PubMed2001

Atomic force microscopy analysis of bacteriophages phiKZ and T4.

Bacteriophage phiKZ was investigated by atomic force microscopy (AFM) and transmission electron microscopy (TEM). The well-known phage T4 was used as a reference sample. Reproducible contact mode AFM images of native and partially disintegrated particles of bacteriophage phiKZ in air were obtained. It was demonstrated that the heads of phiKZ and T4 phages were compressed differently and depended on adsorption onto highly ordered pyrolytic graphite and mica. We have established a procedure to partially disintegrate the viral particles after which the internal protein body, which is a helical structure with a cylinder-like form, was easily observable inside the bacteriophage phiKZ head.

Bacteriophage T4↗
PubMed2000

Atomic force microscopy in structural biology: from the subcellular to the submolecular.

Atomic force microscopy (AFM) is capable of generating images within ranges of resolution that are of particular interest in biology. Although atomic resolution may not be possible with biological samples, a great deal of information can still be obtained from images that provide structures at a slightly lower level of resolution. The submolecular resolution images of bacteriorhodopsin and the chaperonin GroES, which revealed, respectively, individual loops and beta-turns, confirmed and complemented other structural investigations, while the molecular-level features in images of membrane-bound VacA, a cytotoxin from Helicobacter pylori, immediately suggested the possibility, subsequently proven, of channel-forming ability. A series of images with macromolecular resolution directly provided details on the mechanisms by which RNA polymerase nonspecifically translocates along DNA, and images with subcellular resolving power of erythrocytic cellular membranes showed, with unambiguous clarity, linear arrays of molecular complexes. In this review, we will describe some of the most biologically relevant findings that have been obtained with AFM within ranges of resolution from the submolecular to the molecular, and from the macromolecular to the subcellular. Furthermore, we will describe some of the sample conditions and imaging environments that are likely important to achieve a particular level of resolution.

Bacterial Proteins↗