Search PubMed⌕ Search

SEARCH · Search PubMed

Results for “spatial patterning”

Search indexed PubMed citations on genomics, clinical trials, systematic reviews and public health. Explore titles, authors and supplied subject terms, then open the PubMed record.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 1,585 records · Page 88Linked to original sources

Localization of odor-induced neuronal activity in the antennal lobes of the blowfly Calliphora vicina: a [3H] 2-deoxyglucose labeling study.

The distribution of odor-evoked neuronal activity in the antennal lobes of the blowfly Calliphora vicina has been studied by means of [3H] 2-deoxyglucose (2-DG) uptake. Stimulation with natural attractants like meat or cheese induced uptake of 2-DG in a large number of glomeruli, stimulation with the single odorant butyric acid only in a small number of glomeruli. In control brains, the majority of glomeruli showed low 2-DG uptake. The distribution of labeled glomeruli was odor-specific and consistent in different specimen. The labeling patterns evoked by different odors overlapped partially but were clearly distinct. The highest uptake within the glomeruli was found in the axons of antennal receptor neurons. The present data provide evidence that different odors are represented as defined spatial patterns of activity across the antennal lobe glomeruli. The overlapping patterns suggest that certain glomeruli participate in the nervous processing of different odors.

Animals↗

Expression of Tfap2d, the gene encoding the transcription factor Ap-2 delta, during mouse embryogenesis.

Tfap2d encodes a novel member of the AP-2 family of transcription factors, called Ap-2 delta. Ap-2 delta has a unique DNA sequence binding specificity and lacks a PY motif as well as several highly conserved residues in the transactivation domain that are essential for transcriptional activation for other AP-2 proteins. In this study, we characterized the expression pattern of Tfap2d in mouse embryos from E7.5 to E16.5 using in situ hybridization as a first step towards understanding the role of Ap-2 delta during development. Overall, Tfap2d is expressed with a more restricted temporal and spatial pattern than the other Tfap2 genes, with signals observed in the central nervous system, retina, and, uniquely, in the developing heart. Signals were not detected in tissues such as the neural crest, facial mesenchyme, and limbs where the other Tfap2 genes are expressed. The expression of Tfap2d was first noted at E9.5, later than other Tfap2 genes, with signals from the heart and brain. The expression in the developing myocardium persisted through E10.5. Expression of Tfap2d was diffuse in the developing brain at E10.5 to E11.0, but became restricted to the roof of the third vesicle with two narrow columns extending forward along the wall of the third vesicle and the roof of the heopallial cortex in the forebrain from E12.5 onwards. Tfap2d expression was also observed in the spinal cord at E10.5. From E13.5 to E16.5, Tfap2d was expressed in the retinal epithelium. Based on Tfap2d's unique expression pattern and functional features, we believe that Ap-2 delta plays a role during mammalian development that is non-overlapping with those of the other Ap-2 transcription factors.

Animals↗

Imaging the structure of the striatum: a fractal approach to SPECT image interpretation.

The spatial pattern of striatal dopamine transporter density in the living human brain was tested by duplicate SPECT scans with [123I]PE2I, [123I]beta-CIT or [123I]beta-CIT-FP and striatal phantom measurements. The resolution-dependent spatial variation was calculated by the fractal analysis of SPECT images. This variation, which depends on the size of the region of interest, was described by the spatial dispersion i.e. the standard deviation of the count densities divided by the mean density. In each sub-region, the observed and methodological dispersions were computed, and the resulting spatial dispersion was calculated. The methodological dispersion is caused by the imaging resolution, flood field non-uniformity, count density, scatter, reconstruction errors and partial volume effects, whereas the spatial dispersion is based on the cerebral heterogeneity of the dopamine transporter density. Recognition of the normal variation in heterogeneity is important in evaluation of the striatal dopamine transporter density between controls and patients suffering from various neuropsychiatric disorders.

Adult↗

Effective membrane model of the immunological synapse.

The immunological synapse is a patterned collection of different types of receptors and ligands that forms in the intercellular junction between T cells and antigen presenting cells during recognition. The synapse is implicated in information transfer between cells, and is characterized by different spatial patterns of receptors at different stages in the life cycle of T cells. We obtain a minimalist model that captures this experimentally observed phenomenology. A functional renormalization group analysis provides further insights.

Antigen-Presenting Cells↗

A neural network model of temporal code generation and position-invariant pattern recognition.

Numerous studies have suggested that the brain may encode information in the temporal firing pattern of neurons. However, little is known regarding how information may come to be temporally encoded and about the potential computational advantages of temporal coding. Here, it is shown that local inhibition may underlie the temporal encoding of spatial images. As a result of inhibition, the response of a given cell can be significantly modulated by stimulus features outside its own receptive field. Feedforward and lateral inhibition can modulate both the firing rate and temporal features, such as latency. In this article, it is shown that a simple neural network model can use local inhibition to generate temporal codes of handwritten numbers. The temporal encoding of a spatial pattern has the interesting and computationally beneficial feature of exhibiting position invariance. This work demonstrates a manner by which the nervous system may generate temporal codes and shows that temporal encoding can be used to create position-invariant codes.

Nervous System Physiological Phenomena↗

Visualization of high content screening data.

Visualization is essential to the understanding of complex data derived from high content screening. It is necessary to present information in a way that captures patterns and trends in the data in order to answer specific questions while also providing a way to formulate new questions and hypothesis. Specific types of visualizations can provide information on the quality of the data, temporal, and spatial patterns of cellular response, cell phenotype, and the relationship to additional data such as the chemical structure of test compounds. Interacting with this data through linked visualizations and visual filtering facilitates exploration and hypothesis generation to better understand biological systems.

Image Processing, Computer-Assisted↗

Measurement of Net Fluxes of Ammonium and Nitrate at the Surface of Barley Roots Using Ion-Selective Microelectrodes : II. Patterns of Uptake Along the Root Axis and Evaluation of the Microelectrode Flux Estimation Technique.

Net fluxes of NH(4) (+) and NO(3) (-) into roots of 7-day-old barley (Hordeum vulgare L. cv Prato) seedlings varied both with position along the root axis and with time. These variations were not consistent between replicate plants; different roots showed unique temporal and spatial patterns of uptake. Axial scans of NH(4) (+) and NO(3) (-) net fluxes were conducted along the apical 7 centimeters of seminal roots of intact barley seedlings in solution culture using ion-selective microelectrodes in the unstirred layer immediately external to the root surface. Theoretically derived relationships between uptake and concentration gradients, combined with experimental observations of the conditions existing in our experimental system, permitted evaluation of the contribution of bulk water flow to ion movement in the unstirred layer, as well as a measure of the spatial resolution of the microelectrode flux estimation technique. Finally, a method was adopted to assess the accuracy of this technique.

Journal Article↗

Two-photon calcium imaging reveals an odor-evoked map of activity in the fly brain.

An understanding of the logic of odor perception requires a functional analysis of odor-evoked patterns of activity in neural assemblies in the brain. We have developed a sensitive imaging system in the Drosophila brain that couples two-photon microscopy with the specific expression of the calcium-sensitive fluorescent protein, G-CaMP. At natural odor concentration, each odor elicits a distinct and sparse spatial pattern of activity in the antennal lobe that is conserved in different flies. Patterns of glomerular activity are similar upon imaging of sensory and projection neurons, suggesting the faithful transmission of sensory input to higher brain centers. Finally, we demonstrate that the response pattern of a given glomerulus is a function of the specificity of a single odorant receptor. The development of this imaging system affords an opportunity to monitor activity in defined neurons throughout the fly brain with high sensitivity and excellent spatial resolution.

Animals↗

TGF-beta family factors in Drosophila morphogenesis.

Many Drosophila genes have now been identified with substantial sequence similarity to vertebrate protooncogenes and growth factors. Some of these have been isolated directly by cross-hybridization with vertebrate probes and some have been recognized in the sequences of genes cloned because of their intiguing mutant phenotypes. An example of a gene isolated for its interesting development functions but with homology to a vertebrate growth factor is the Drosophila decapentaplegic gene (dpp). An example of a Drosophila gene isolated by virtue of its sequence conservation is the vgr/60A gene. Both dpp and vgr/60A are members of the transforming growth factor-beta family and are most similar to the human bone morphogenetic proteins. The regulation of the dpp gene by several different groups of pattern formation genes including the dorsal/ventral group, the terminal group, the segment polarity genes, and the homeotic genes indicates that many events in embryogenesis require the cell to cell communication mediated by the secreted dpp protein. The temporal and spatial pattern of vgr/60A expression differs from that of dpp indicating that it may be regulated by different pattern information genes. The experimental advantages of the Drosophila system should permit a better understanding of the importance of growth factor homologs in specific developmental events, aid in establishing the functional interactions between these regulatory molecules, and identify new genes that are important for the biological functions of growth factors. It is likely that some of the newly identified genes will have vertebrate homologs and the analysis of these may be helpful in studies on vertebrate development and tumor biology.

Animals↗

Floral homeotic gene expression defines developmental arrest stages in Brassica oleracea L. vars. botrytis and italica.

Brassica oleracea L. vars, italica (broccoli) and botrytis (cauliflower) both undergo developmental arrests which result in heading phenotypes. We characterized these arrested tissues at the morphological and molecular levels, and defined the developmental changes that ensure after arrest has been broken. We found that the order of floral organ initiation and the positions of resulting floral organ primordia in this species in some respects from that of Arabidopsis, which is a member of the same family, Brassicaceae. We also cloned homologs of the Arabidopsis floral homeotic genes APETALA1 (AP1) and APETALA3 (AP3) from B. oleracea and characterized their expression patterns. We found that the AP1 homolog was expressed in some of the meristems of arrest-stage cauliflower, providing evidence that this tissue is florally determined. In broccoli, both the AP1 and AP3 homologs were expressed. However, the spatial pattern of expression of the broccoli AP1 homolog differed from that of Arabidopsis. In addition we identified a homolog of the CAULIFLOWER (CAL) gene, BoiCAL, from broccoli. The predicted amino acid sequence indicated that the BoiCAL gene product does not contain the mutation thought to be responsible for the early arrest exhibited in cauliflower (Kempin et al. 1995), but contains other changes that might play a role in the broccoli heading phenotype.

Amino Acid Sequence↗

Larval sensory abilities and mechanisms of habitat selection of a coral reef fish during settlement.

Sensory abilities and preferences exhibited by mobile larvae during their transition to juvenile habitats can establish spatial heterogeneity that drives subsequent species interactions and dynamics of populations. We conducted a series of laboratory and field experiments using coral reef fish larvae (Chromis viridis) to determine: ecological determinants of settlement choice (conspecifics vs. heterospecifics vs. coral substrates); sensory mechanisms (visual, acoustic/vibratory, olfactory) underlying settlement choice; and sensory abilities (effective detection distances of habitat) under field conditions. C. viridis larvae responded positively to visual, acoustic/vibratory, and olfactory cues expressed by conspecifics. Overall, larvae chose compartments of experimental arenas containing conspecifics in 75% of trials, and failed to show any significant directional responses to heterospecifics or coral substrates. In field trials, C. viridis larvae detected reefs containing conspecifics using visual and/or acoustic/vibratory cues at distances <75 cm; detection distances increased to <375 cm when olfactory capacity was present (particularly for reefs located up-current). We conducted high performance liquid chromatography (HPLC) analyses of seawater containing C. viridis juveniles and isolated high concentrations of several organic compounds. Subsequent laboratory trials demonstrated that C. viridis larvae responded positively to only one of these organic compounds. This compound was characterized by a weak polarity and was detected at 230 nm with a 31-min retention time in HPLC. Overall, our results suggest that fishes may use a range of sensory mechanisms effective over different spatial scales to detect and choose settlement sites, and species-specific cues may play a vital role in establishment of spatial patterns at settlement.

Animals↗

Spatial diversity in gene expression for VDCCgamma subunit family in developing and adult mouse brains.

The gamma subunit of voltage-dependent Ca2+ channels (VDCCs) is characterized by molecular diversity and regulation of AMPA-type glutamate receptors as well as VDCCs. In the present study, we examined expressions for the VDCCgamma1-8 subunit mRNAs in developing and adult mouse brains by in situ hybridization. In adult brains, the gamma2 and gamma7 subunit mRNAs were widely expressed in various grey matter regions with the highest level in cerebellar Purkinje cells and granule cells. The gamma3 and gamma8 subunit mRNAs predominated in the telencephalon, with the latter being at striking levels in the hippocampus. The gamma4 subunit mRNA was enriched in the olfactory bulb, striatum, thalamus and hypothalamus. The gamma5 subunit mRNA was abundant in the olfactory bulb, hippocampal CA2, thalamus, inferior colliculus and Bergmann glia. Transcripts of these subunits were detected in embryonic brains: some showed well-preserved spatial patterns (gamma2, gamma5, gamma7 and gamma8), while others underwent developmental up- (gamma3) or down-regulation (gamma4). In contrast, the gamma1 and gamma6 subunit mRNAs were negative or very low throughout brain development. Therefore, the present study has revealed spatial diversity in gene expression for individual VDCCgamma subunits, presumably reflecting functional diversity of this protein family and their differential involvement in neural function.

Animals↗

Pathophysiological differences between musician's dystonia and writer's cramp.

Focal hand dystonia (FHD) has been suggested to be a maladaptive response of the brain to repetitive performance of stereotyped and attentionally demanding hand movements. However, not all patients with FHD have a strict history of excessive hand use; for example, patients with musician's dystonia (MD) spend many hours per day with their attention focused on instrumental practice, whereas many patients with writer's cramp (WC) have a history of average hand use. The present experiments test whether seven MD and six WC patients have different pathophysiological deficits by examining the spatial pattern of sensorimotor organization in the motor cortex. Two control groups were used, eight healthy non-musicians and eight healthy musicians. The latter served to control for physiological adaptation of the brain to musical training. We used focal vibration of a single hand muscle to produce sensory input whilst the excitability of corticospinal outputs to the vibrated and other hand muscles was evaluated with transcranial magnetic stimulation. In healthy non-musicians, vibration increases the amplitude of motor-evoked potentials and decreases the short-latency intracortical inhibition (SICI) in the vibrated muscle, whilst having the opposite effect on the non-vibrated hand muscles. The pattern of sensorimotor interaction was abnormal in both patient groups. However, the nature of the deficit differed between them. While vibration had little effect on cortical excitability in WC, it strongly reduced SICI in all hand muscles irrespective of spatial organization in MD. In the healthy musicians we found an organization intermediate between that of healthy non-musicians and MD. The data are consistent with a model in which musical practice in healthy musicians leads to beneficial changes in organization of the motor cortex, but in MD these progress too far and begin to interfere with movement rather than assist it. The fact that sensory input had no effect on motor output in patients with WC suggests that sensory information from the hand may play a smaller role in provoking pathological changes in WC than in MD.

Adult↗

Connexin expression in the developing avian cardiovascular system.

Recent observations have suggested that the patterns of expression of the gap junction protein connexin43 in the developing cardiovascular system of the avian embryo diverge significantly from the patterns previously seen in mammalian species. Therefore, a detailed analysis of connexin43 expression in the chicken embryo was performed by use of immunofluorescent localization with two different connexin43-specific antipeptide antibodies as well as Western and Northern blot analysis. Connexin43 protein was not detected in the avian myocardium, the venous system, or the smaller vessels of the arterial system. Rather, it was limited exclusively to the vessels of the arterial outflow tract in a concentric pattern that became evident by embryonic day 8. Double staining with anti-alpha-smooth muscle actin and connexin43 demonstrated colocalization in the media of outflow tract vessel walls. The developmental expression of connexin43 was found to mirror the spatial patterning of secondary actin; connexin43, however, preceded the expression of secondary actin by a period of 1-2 days. In contrast, antibodies to a related gap junction protein (connexin42) revealed an absence of immunostaining in the avian outflow tract. Double staining with anti-connexin42 and anti-A-cell adhesion molecule (specific for avian intercalated discs) demonstrated colocalization between cardiac myocytes, indicating that connexin42 is a constituent of avian myocardial gap junctions. In light of these findings, developmental expression of differing myocardial connexins may reconcile previous studies showing different physiological properties of avian and mammalian cardiac gap junctions.

Animals↗

Interactions and fates of avian craniofacial mesenchyme.

Craniofacial mesenchyme is composed of three mesodermal populations - prechordal plate, lateral mesoderm and paraxial mesoderm, which includes the segmented occipital somites and the incompletely segmented somitomeres - and the neural crest. This paper outlines the fates of each of these, as determined using quail-chick chimaeras, and presents similarities and differences between these cephalic populations and their counterparts in the trunk. Prechordal and paraxial mesodermal populations are the sources of all voluntary muscles of the head. The latter also provides most of the connective precursors of the calvaria, occipital, otic-parietal and basisphenoid tissues. Lateral mesoderm is the source of peripharyngeal connective tissues; the most rostral skeletal tissues it forms are the laryngeal and tracheal cartilages. When migrating neural crest cells encounter segmented paraxial mesoderm (occipital and trunk somites), most move into the region between the dermamyotome and sclerotome in the cranial half of each somite. In contrast, most cephalic crest cells migrate superficial to somitomeres. There is, however, a small subpopulation of the head crest that invades somitomeric mesoderm. These cells subsequently segregate presumptive myogenic precursors of visceral arch voluntary muscles from underlying mesenchyme. In the neurula-stage avian embryo, all paraxial and lateral mesodermal populations contain precursors of vascular endothelial cells, which can be detected in chimaeric embryos using anti-quail endothelial anti-bodies. Some of these angioblasts differentiate in situ, contributing directly to pre-existing vessels or forming isolated, nonpatent, cords that subsequently vesiculate and fuse with nearby vessels. Many angioblasts migrate in all directions, invading embryonic mesenchymal and epithelial tissues and participating in new blood vessel formation in distant sites. The interactions leading to proper spatial patterning of craniofacial skeletal, muscular, vascular and peripheral neural tissues has been studied by performing heterotopic transplants of each of these mesodermal and neural crest populations. The results consistently indicate that connective tissue precursors, regardless of their origin, contain spatial information used by the precursors of muscles and blood vessels and by outgrowing peripheral nerves. Some of these connective tissue precursors (e.g. the neural crest, paraxial mesoderm) acquire their spatial programming while in association with the central nervous system or developing sensory epithelia (e.g. otic, optic, nasal epithelia).

Animals↗

Patterns of DNA replication in Drosophila polytene nuclei replicating in Xenopus egg and oocyte extracts.

We have used Xenopus laevis cell-free extracts to study patterns of DNA replication in polytene nuclei isolated from salivary glands of Drosophila melanogaster 3rd instar larvae. Replication was visualized by supplementation with biotin-dUTP so that nascent DNA became labelled, thus allowing detection with fluorescein or Texas-Red-conjugated streptavidin. Biotin incorporation was dependent on incubation in extracts. Transverse bands were labelled in high-speed supernatants of eggs or oocytes in which replication does not initiate de novo. These patterns corresponded to the patterns of endogenous replication forks in polytene nuclei, monitored by bromodeoxyuridine incorporation in intact salivary glands. By contrast, when nuclei were incubated in low-speed supernatants of eggs, they underwent more extensive chromatin decondensation and initiated replication. The spatial patterns of replication are strikingly different from the endogenous patterns. Instead they closely resemble patterns of clustered replication forks seen in Xenopus sperm nuclei replicating in the extract. This indicates that the egg extract can impose its pattern of replication foci even when the template is presented in the highly organized form of a polytene nucleus.

Animals↗

Olfactory fingerprints for major histocompatibility complex-determined body odors.

Recognition of individual body odors is analogous to human face recognition in that it provides information about identity. Individual body odors determined by differences at the major histocompatibility complex (MHC or H-2) have been shown to influence mate choice, pregnancy block, and maternal behavior in mice. Unfortunately, the mechanism and extent of the main olfactory bulb (MOB) and accessory olfactory bulb (AOB) involvement in the discrimination of animals according to H-2-type has remained ambiguous. Here we study the neuronal activation patterns evoked in the MOB in different individuals on exposure to these complex, biologically meaningful sensory stimuli. We demonstrate that body odors from H-2 disparate mice evoke overlapping but distinct maps of neuronal activation in the MOB. The spatial patterns of odor-evoked activity are sufficient to be used like fingerprints to predict H-2 identity using a novel computer algorithm. These results provide functional evidence for discrimination of H-2-determined body odors in the MOB, but do not preclude a role for the AOB. These data further our understanding of the neural strategies used to decode socially relevant odors.

Algorithms↗

Statistically adjusted estimates of geographic mortality profiles.

The spatial variation of site-specific cancer mortality rates at the county or state economic area level can provide a) insights into possible etiologic factors and b) the basis for more detailed epidemiologic studies. One difficulty with such studies, especially for rare cancer types, is that unstable local area rate estimates, resulting from small population sizes, can obscure the underlying spatial pattern of disease risk. This paper presents a methodology for producing more stable rate estimates by statistically weighting the local area rate estimate toward the experience at the national level. The methodology is illustrated by the analysis of the spatial variation of two cancer types, bladder and lung, for U.S. white males over the three decades 1950-79.

Age Factors↗