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PubMed2006

Synthesis and biological evaluation of aromatic analogues of conduritol F, L-chiro-inositol, and dihydroconduritol F structurally related to the amaryllidaceae anticancer constituents.

Pancratistatin is a potent anticancer natural product, whose clinical evaluation is hampered by the limited natural abundance and the stereochemically complex structure undermining practical chemical preparation. Fifteen aromatic analogues of conduritol F, l-chiro-inositol, and dihydroconduritol F that possess four of the six pancratistatin stereocenters have been synthesized and evaluated for anticancer activity. These compounds serve as truncated pancratistatin analogues lacking the lactam ring B, but retaining the crucial C10a-C10b bond with the correct stereochemistry. The lack of activity of these compounds provides further insight into pancratistatin's minimum structural requirements for cytotoxicity, particularly the criticality of the intact phenanthridone skeleton. Significantly, these series provide rare examples of simple aromatic conduritol and inositol analogues and, therefore, this study expands the chemistry and biology of these important classes of compounds.

Amaryllidaceae Alkaloids↗
PubMed2005

Influence of a water rinse on the structure and properties of poly(3,4-ethylene dioxythiophene):poly(styrene sulfonate) films.

Poly(3,4-ethylene dioxythiophene):poly(styrene sulfonic acid) (PEDOT:PSS) films exhibit a complex structure of interconnected conductive PEDOT domains in an insulating PSS matrix that controls their electrical properties. This structure is modified by a water rinse, which removes PSS with negligible PEDOT loss. Upon PSS removal, film thickness is reduced by 35%, conductivity is increased by 50%, and a prominent dielectric relaxation is eliminated. These results suggest that the removed PSS is not associated with PEDOT and that the conductive domain network is not substantially altered by the removal of a significant fraction of insulator. The removal of PSS may benefit organic light emitting diode fabrication by reducing acid attack on indium tin oxide electrodes and lead to more robust performance in switching circuits by extending the working frequency range.

Journal Article↗
PubMed2003

[Cellular lipid dynamics].

During the past years, the notion of microdomains at the surface of cellular membranes has been developed. These are constituted by lipid rafts which involve sphingoglycolipids and cholesterol. To these rafts are associated proteins which have a lipid anchor or are transmembrane proteins. These lipid rafts target specific proteins at the plasma membrane surface and can remain associated with them. They are present in surface receptors and endocytosis occurs upon binding of the specific ligands. Thus these rafts participate to major aspects of cellular dynamics. These rafts are complex structures, insoluble in non-ionic detergents. According to the detergent used, many types of rafts can be isolated. Any alteration of cholesterol, sphingoglycolipids, or abnormalities of the proteins themselves, can lead to abnormal targeting at the membrane surface. It is possible that specific sphingoglycolipids are necessary to target specific proteins at the membrane surface. This may explain the complexity of the sphingoglycolipid molecules, both in relation to their oligosaccharide and to their ceramide structures. There is both a cellular and a tissue specificity of these constituents. Complex sphingoglycolipids are involved in cellular differentiation, cellular polarization, and modified in relation to cancer. Virus and bacteria can be linked to the sphingoglycolipids of these microdomains and alter cellular signaling and function. Sphingoglycolipids are involved in autoimmune diseases as antibody targets and in neurolipidoses which are genetic diseases involving their catabolism. The dynamics of the lipid rafts, in relation to cholesterol, can be altered in Niemann-Pick's disease type C and in Alzheimer's disease. Thus these microdomains are involved in many aspects related to normal and pathological cellular dynamics.

Animals↗
PubMed2002

Structure analysis of lipoglycans and lipoglycan-derived carbohydrates by capillary electrophoresis and mass spectrometry.

Lipoglycans (lipopolysaccharides, lipoarabinomannans and glycolipids) are unique components of the cell membrane of all cells and the envelope of many bacteria. They play important roles in determining cell-environment interactions, which, however, are only partly understood due to incomplete description of their structural components, lipids and glycans. Capillary electrophoresis is an analytical technique of high separation efficiency and minimum sample requirements and has successfully been used for the analysis of several molecules of biological importance: proteins, nucleic acids and glycoconjugates. In the last years, a few applications of capillary electrophoresis to the analysis of lipoglycans have been reported. Analysis of lipoglycans involves the study of two parameters: intact molecules and carbohydrate parts. The conjunction of capillary electrophoresis and mass spectroscopy not only enhances the detection sensitivity, but also provides structural information on these structurally complex molecules. The interest in the field is rising and the results from the exact determination on the lipoglycan structure are expected to improve our understanding of the molecular mechanism of lipoglycan binding to proteins and cells of host organisms as well as their relationship to the virulence and pathogenesis of bacteria. In this report, an overview of the capillary electrophoresis methods used to analyze and characterize the intact lipoglycans as well as their carbohydrate parts is presented.

Carbohydrate Conformation↗
PubMed1999

Chitin biosynthesis and structural organization in vivo.

Many organisms utilize chitin as a structural component of the protective cell walls or exoskeletons which surround them. These structures are light and resistant composites with specific structural and mechanical properties which allow them to fulfill their protective role. Chitin, in the form of microfibrils, is immersed in a matrix of proteins and other polysaccharides. Chitin microfibrils provide the high strength which allows them to resist tensions and modulus. The cementing compounds protect chitin from chemical attack; keep the microfibrils separate, preventing fracture; and provide support to tensions. The resulting structures adopt specific forms which are conserved during growth and are transmitted in a hereditary fashion. Synthesis of these complex structures involves the following steps: (i) synthesis of chitin either intracellularly or at the interphase with the extracellular medium; (ii) transport of the chitin molecules to the extracellular space; (iii) chemical modification of part of the noncrystallized chitin and association with other molecules; (iv) crystallization of the unmodified chitin which is covered by the rest of the components. The resulting supramolecular structure acquires viscoelastic mechanical properties; (v) maturation of the composite through formation of secondary covalent bonds among its components, and deposition of different substances.

Animals↗
PubMed2004

Structures of wild-type and P28L/Y173F tryptophan synthase alpha-subunits from Escherichia coli.

The alpha-subunit of tryptophan synthase (alphaTS) catalyzes the cleavage of indole-3-glycerol phosphate to glyceraldehyde-3-phosphate and indole, which is used to yield the amino acid tryptophan in tryptophan biosynthesis. Here, we report the first crystal structures of wild-type and double-mutant P28L/Y173F alpha-subunit of tryptophan synthase from Escherichia coli at 2.8 and 1.8A resolution, respectively. The structure of wild-type alphaTS from E. coli was similar to that of the alpha(2)beta(2) complex structure from Salmonella typhimurium. As compared with both structures, the conformational changes are mostly in the interface of alpha- and beta-subunits, and the substrate binding region. Two sulfate ions and two glycerol molecules per asymmetric unit bind with the residues in the active sites of the wild-type structure. Contrarily, double-mutant P28L/Y173F structure is highly closed at the window for the substrate binding by the conformational changes. The P28L substitution induces the exposure of hydrophobic amino acids and decreases the secondary structure that causes the aggregation. The Y173F suppresses to transfer a signal from the alpha-subunit core to the alpha-subunit surface involved in interactions with the beta-subunit and increases structural stability.

Amino Acid Sequence↗
PubMed2004

Interindividual differences of medial temporal lobe activation during encoding in an elderly population studied by fMRI.

Functional MRI (fMRI) is used to study medial temporal lobe (MTL) activation during encoding of new information into memory. In most studies, fMRI data of different subjects are averaged in standard coordinate space. However, interindividual differences in activation can be extensive, reflecting functional heterogeneity. Further, anatomical differences in brain structure cause additional variance and loss of registration accuracy. Such differences in structural and functional MTL characteristics may interfere with the efficiency of averaging data across subjects, and may become more significant with aging and dementia. The current study concerns the analysis of individual differences in MTL activation associated with episodic encoding.Twenty-nine healthy elderly men between 60 and 70 years old performed a simple face encoding task during fMRI scanning. Individual data were analyzed in native space, and compared to the group average in standard space (Talairach and Tournoux).MTL volumes between subjects varied between 6.34 and 11.27 cm(3), and had considerable variation when mapped to standard space. Eighteen of the 29 subjects showed MTL activity and activation patterns varied both in location and size (ranging from 0.11 to 1.78 cm(3)), with the strongest activation in the left posterior part of the MTL. In standard space, no region was significantly activated on a group level at a comparable alpha level. We conclude that while the majority of elderly subjects show MTL activation during episodic encoding of faces, there is considerable structural and functional variability between subjects. Group analysis in standard space may not be appropriate for studies of a complex structure such as the MTL, particularly not in aging and dementia.

Aged↗
PubMed2006

Membrane proteins shape up: understanding in vitro folding.

Progress in structural biology has begun to reveal the precise architecture of integral membrane proteins. However, the manner in which these complex structures are achieved remains unclear. Recent developments are starting to shed light on the unfolding and folding of a small but growing number of membrane proteins. Mechanistic details derived from kinetic and thermodynamic experiments now enable comparison of the folding of different membrane proteins and their water-soluble cousins. This work also has important implications for other structural and functional studies of membrane proteins in vitro.

Animals↗
PubMed2000

Structural stability of ribosomes subjected to RNase treatment evidenced by dielectric spectroscopy and differential scanning microcalorimetry.

Previous studies from our laboratory demonstrated the existence of at least two levels of structural complexity in E. coli 70S ribosomes. Ribosomal RNA seems to be principally involved in the overall stability of these structures. In this paper we present an investigation of ribosomes subjected to treatment with RNase. The study is based on both differential scanning microcalorimetry and dielectric spectroscopy. In the thermograms obtained on treated ribosomes only the low temperature peak of the two typical denaturation events observed in native ribosomes, is promptly eliminated by the enzyme treatment. Dielectric spectroscopy measurements carried out on the same samples indicate an alteration of the dielectric behavior previously shown to consist of two subsequent relaxation processes. In fact, only the low frequency relaxation is affected by the treatment. The second one, observed at higher frequency, remains unaltered. The same effect on the dielectric parameters is observed if the ribosome particles are heated and then cooled prior to measurement. These results are consistent with the idea that two different structures are present within the ribosome. One is very stable and withstands both temperature and RNase treatment while the second is promptly abolished by both treatments. Data presented here strongly suggest that the RNA domains exposed to the solvent play a fundamental role in the stability of the 3-D structure of the ribosome particle.

Calorimetry, Differential Scanning↗
PubMed2002

Analysis of molecular square size and purity via pulsed-field gradient NMR spectroscopy.

The size (volume) of a large tetrametallic molecular square, that has resisted characterization by mass spectrometry, has been determined by pulsed-field gradient NMR spectroscopy, a technique that reports on self-diffusion coefficients. These scale inversely with hydrodynamic radii, which in turn scale approximately as the cube of the assembly's mass. The technique has also been used to determine whether NMR spectral complexities observed for the new compound are due to contamination with chemically related assemblies, or instead reflect the intrinsic structural complexities of the compound itself.

Journal Article↗
PubMed1987

An approach to modelling radiation damage by fast ionizing particles.

This paper presents a statistical approach to modelling the damaging effects of radiation by fast heavy ionizing particles in small biological structures such as enzymes, viruses, and some cells. Irreparable damage is assumed to be caused by the occurrence of ionizations within sensitive regions of a structure. For structures containing double-stranded DNA, one or more ionizations occurring within each strand of the DNA will cause inactivation; for simpler structures without double-stranded DNA a single ionization within the structure will be sufficient for inactivation. Damaging ionizations occur along tracks of primary irradiating particles or along tracks of secondary particles released at primary ionizations. An inactivation probability is derived for each damage mechanism, and is expressed in integral form in terms of the radius of the biological structure (assumed spherical), the rate of ionization along primary tracks, and the maximum energy for secondary particles. The performance of each model is assessed by comparing results from the model with results derived from data from various experimental studies extracted from the literature. For the simpler structures, where a single ionization is sufficient for inactivation, the model gives qualitatively promising results. However, for larger more complex structures containing double-stranded DNA, the model requires some further refinements.

DNA↗
PubMedDate not supplied

Visualization of fibrous and thread-like data.

Thread-like structures are becoming more common in modern volumetric data sets as our ability to image vascular and neural tissue at higher resolutions improves. The thread-like structures of neurons and micro-vessels pose a unique problem in visualization since they tend to be densely packed in small volumes of tissue. This makes it difficult for an observer to interpret useful patterns from the data or trace individual fibers. In this paper we describe several methods for dealing with large amounts of thread-like data, such as data sets collected using Knife-Edge Scanning Microscopy (KESM) and Serial Block-Face Scanning Electron Microscopy (SBF-SEM). These methods allow us to collect volumetric data from embedded samples of whole-brain tissue. The neuronal and microvascular data that we acquire consists of thin, branching structures extending over very large regions. Traditional visualization schemes are not sufficient to make sense of the large, dense, complex structures encountered. In this paper, we address three methods to allow a user to explore a fiber network effectively. We describe interactive techniques for rendering large sets of neurons using self-orienting surfaces implemented on the GPU. We also present techniques for rendering fiber networks in a way that provides useful information about flow and orientation. Third, a global illumination framework is used to create high-quality visualizations that emphasize the underlying fiber structure. Implementation details, performance, and advantages and disadvantages of each approach are discussed.

Anatomy, Cross-Sectional↗
PubMed2005

New insights into the molecular biology of the glomerular filtration barrier and associated disease.

The glomerular filtration barrier of the kidney can no longer be considered as an inert and adynamic structure, viewed by electron microscopy. Molecular biology, medical genetics and protein chemistry have enabled us to further understand the complex structure and function of this highly specialized barrier of the kidney. Minor aberrations of physiology can lead to fatal disease. Recent advances in the understanding of the physiology of endothelial cells, glomerular epithelial cells and the glomerular basement membrane and its components, and how these relate to disease, will be considered systematically.

Animals↗
PubMed2001

Engineered cartilage, bone, joints, and menisci. Potential for temporomandibular joint reconstruction.

Reconstruction of many musculoskeletal structures can be accomplished by bone grafting and implantation of prostheses. Alternate approaches are needed, however, for repair of complex structures such as articular cartilage surfaces and the temporomandibular meniscus and joint. Tissue engineering, either cell-free or cell-based, offers promise because of recent advances in materials research and in our knowledge of the cellular and molecular mechanisms of tissue repair. There are three considerations in designing a construct for engineered tissue: the source of cells, if any; the nature of the carrier or scaffold; and use, if any, of genes, factors, or adjuvants. Autogenous cells, often expanded in vitro, have been useful for cartilage tissue engineering. Precursor/progenitor cells are advantageous for bone tissue. There are many natural and synthetic resorbable materials with good biocompatibility and tissue compatibility that can be modified to have the porosity and mechanical properties needed for specific applications. The scaffolds can also be modified to provide biological signals to augment repair and integration.

Animals↗
PubMed2005

Fractal geometry of airway remodeling in human asthma.

RATIONALE: Airway wall remodeling is an important aspect of asthma. It has proven difficult to assess quantitatively as it involves changes in several components of the airway wall. OBJECTIVE: To develop a simple method for quantifying the overall severity of airway wall remodeling in asthmatic airways using fractal geometry. METHODS: Negative-pressure silicone rubber casts of lungs were made using autopsy material from three groups: fatal asthma, nonfatal asthma, and nonasthma control. All subjects were lifelong nonsmokers. A fractal dimension was calculated on two-dimensional digital images of each cast. RESULTS: Nonasthma control casts had smooth walls and dichotomous branching patterns with nontapering segments. Asthmatic casts showed many abnormalities, including airway truncation from mucous plugs, longitudinal ridges, and horizontal corrugations corresponding to elastic bundles and smooth muscle hypertrophy, respectively, and surface projections associated with ectatic mucous gland ducts. Fractal dimensions were calculated from digitized images using an information method. The average fractal dimensions of the airways of both the fatal asthma (1.72) and nonfatal asthma (1.76) groups were significantly (p<0.01 and p=0.032, respectively) lower than that of the nonasthma control group (1.83). The lower fractal dimension of asthmatic airways correlated with a decreased overall structural complexity and pathologic severity of disease. CONCLUSION: Fractal analysis is a simple and useful technique for quantifying the chronic structural changes of airway remodeling in asthma.

Adolescent↗
PubMed1998

Microanatomy of the female reproductive organs in postmenopause by scanning electron microscopy.

The detailed three-dimensional ultrastructural features of the reproductive organs of menopausal and postmenopausal women were studied by means of integrated transmission and scanning electron microscopy (SEM) and reported in a new colored microtopographical fashion. These methods revealed significant alterations in the microanatomy of the various reproductive organs specifically related to the decline of plasma estrogen levels. In particular, the ovary progressively showed characteristic wide areas of loss of epithelium with consequent exposure of the underlying connective tissue. Both endometrial and tubal mucosa demonstrated a gradual but often dramatic decrease in the number of ciliated cells which was more evident in the tube. In addition, the non-ciliated (microvillous secretory) cells of the uterus, including both endocervix and tubal mucosa, became flattened and, in some instances, their apical poles developed unusual wrinkles (microridges or microplicae). The ectocervix and vaginal squamous cells presented a reduction in the number of their microridges and changes in the typical structural organization. These microtopographical results showed that the decline of estrogen during the menopause and postmenopause induces important and complex structural changes of the woman's reproductive system, much more detailed than those revealed to date by the use of only conventional optical and transmission electron microscopy (TEM). The three-dimensional findings offer the opportunity to re-evaluate the classic histopathology of the above aging organs using more refined microtopographical and morphophysiopathological parameters.

Cervix Uteri↗
PubMed2001

[Molecular genetic analysis of Thrithorax-like gene encoded transcriptional factor GAGA in Drosophila melanogaster].

The Drosophila melanogaster Trithorax-like (Trl) gene is classed with the trx-G genes and codes for several isoforms of the GAGA transcription factor (GAF) which regulates expression of homeotic and numerous other genes. GAF acts as a transcriptional antirepressor, i.e., its interaction with nucleosomal DNA results in the open chromatin conformation in promoter gene regions. The regions thereby become accessible to other transcription factors. As mutations of the Trl gene enhance position effect variegation and disturb chromosome segregation in mitosis and meiosis, GAF is thought to play another, more significant role in determining the chromatin structure. To study the molecular basis of its pleiotropic effect, the Trl gene was subjected to a structural analysis. The genomic Trl gene was sequenced, the sizes of its exons and introns was established, and a complex structure of the 5' and 3' gene regions was demonstrated. The Trl13C, Trl62, DfTrlR67, and DfTrlR85 mutations were exactly mapped. In addition, four insertions of the P element were identified as Trl alleles (Trll(3)s2325, TrlEP(3)3184, TrlEP(3)3191, and TrlEP(3)3609). The viability at various developmental stages was studied in homozygotes for the Trl mutations and in interallelic compounds. The following lethality stages were established: hatching, (Trl13C, DfTrlR85, TrlEP(3)3609), larval molts (Trll(3)s2325), pupation, metamorphosis (DfTrlR67, Trl62), and eclosion (several compounds).

Animals↗
PubMed1999

Neuroscience in its context. Neuroscience and psychology in the work of Wilhelm Wundt.

Wilhelm Wundt (1832-1920), the first to establish an Institute devoted exclusively to psychological research in Germany, started his career as a (neuro)physiologist. He gradually turned into a psychologist in the 1860's and 1870's, at a time when neuroscience had to deal with the problem of giving an adequate physiological interpretation of the data accumulated by neuroanatomy. Neither the functional interpretation of brain morphology, nor the options provided by the reflex model seemed acceptable to Wundt. In his Physiological Psychology, first published in 1874, Wundt adds another aspect to this discussion by showing that psychology may help, and indeed is required, to clarify some of the most controversial problems in brain research. He thus became a key figure in neuroscience's struggle to locate itself within the various research traditions. The following theses will be argued for: 1. Wundt's turn to psychology resulted from his view that the methodological basis of physiological brain research of the time was unsatisfactory. 2. Psychology, in its attempt to solve these problems, implied a new conception of an interaction between experimental and theoretical brain research. 3. Wundt tried to demonstrate the necessity of psychological considerations for experimental brain research. These points are discussed with reference to Wundt's treatment of the localization of functions in the brain. According to Wundt, psychology can show, by analyzing the complex structure of intellect and will, that mental phenomena can be realized in the brain only in the form of complex interations of the elements of the brain. The results of the psychological considerations imply that a strict localizations cannot be correct; but they are also turned against the conception of a complete functional equivalence of the various parts of the cortext. For Wundt, a reconstruction of brain processes cannot start with neurones, but only with patterns of a functional organization of brain activity. Wundt accordingly proposes a functional interpretation on the level of the physiology of nervous tissue as well as for the over-all organization of the brain.

Brain↗