The Extraction of Depth Structure from Shading and Texture in the Macaque Brain

We used contrast-agent enhanced functional magnetic resonance imaging (fMRI) in the alert monkey to map the cortical regions involved in the extraction of 3D shape from the monocular static cues, texture and shading. As in the parallel human imaging study [1], we contrasted the 3D condition to several 2D control conditions. The extraction of 3D shape from texture (3D SfT) involves both ventral and parietal regions, in addition to early visual areas. Strongest activation was observed in CIP, with decreasing strength towards the anterior part of the intraparietal sulcus (IPS). In the ventral stream 3D SfT sensitivity was observed in a ventral portion of TEO. The extraction of 3D shape from shading (3D SfS) involved predominantly ventral regions, such as V4 and a dorsal potion of TEO. These results are similar to those obtained earlier in human subjects and indicate that the extraction of 3D shape from texture is performed in both ventral and dorsal regions for both species, as are the motion and disparity cues, whereas shading is mainly processed in the ventral stream.     

Uniform versus Asymmetric Shading Mediates Crown Recession in Conifers

In this study we explore the impact of asymmetrical vs. uniform crown shading on the mortality and growth of upper and lower branches within tree crowns, for two conifer species: shade intolerant lodgepole pine (Pinus contorta) and shade tolerant white spruce (Picea glauca). We also explore xylem hydraulics, foliar nutrition, and carbohydrate status as drivers for growth and expansion of the lower and upper branches in various types of shading. This study was conducted over a two-year period across 10 regenerating forest sites dominated by lodgepole pine and white spruce, in the lower foothills of Alberta, Canada. Trees were assigned to one of four shading treatments: (1), complete uniform shading of the entire tree, (2) light asymmetric shading where the lower 1/4–1/3 of the tree crown was shaded, (3) heavy asymmetric shading as in (2) except with greater light reduction and (4) control in which no artificial shading occurred and most of the entire crown was exposed to full light. Asymmetrical shading of only the lower crown had a larger negative impact on the bud expansion and growth than did uniform shading, and the effect was stronger in pine relative to spruce. In addition, lower branches in pine also had lower carbon reserves, and reduced xylem-area specific conductivity compared to spruce. For both species, but particularly the pine, the needles of lower branches tended to store less C than upper branches in the asymmetric shade, which could suggest a movement of reserves away from the lower branches. The implications of these findings correspond with the inherent shade tolerance and self-pruning behavior of these conifers and supports a carbon based mechanism for branch mortality – mediated by an asymmetry in light exposure of the crown.     

Spatiotemporally Asymmetric Excitation Supports Mammalian Retinal Motion Sensitivity

1. Download : Download high-res image (223KB)
2. Download : Download full-size image

     

Shading Beats Binocular Disparity in Depth from Luminance Gradients: Evidence against a Maximum Likelihood Principle for Cue Combination

Perceived depth is conveyed by multiple cues, including binocular disparity and luminance shading. Depth perception from luminance shading information depends on the perceptual assumption for the incident light, which has been shown to default to a diffuse illumination assumption. We focus on the case of sinusoidally corrugated surfaces to ask how shading and disparity cues combine defined by the joint luminance gradients and intrinsic disparity modulation that would occur in viewing the physical corrugation of a uniform surface under diffuse illumination. Such surfaces were simulated with a sinusoidal luminance modulation (0.26 or 1.8 cy/deg, contrast 20%-80%) modulated either in-phase or in opposite phase with a sinusoidal disparity of the same corrugation frequency, with disparity amplitudes ranging from 0’-20’. The observers’ task was to adjust the binocular disparity of a comparison random-dot stereogram surface to match the perceived depth of the joint luminance/disparity-modulated corrugation target. Regardless of target spatial frequency, the perceived target depth increased with the luminance contrast and depended on luminance phase but was largely unaffected by the luminance disparity modulation. These results validate the idea that human observers can use the diffuse illumination assumption to perceive depth from luminance gradients alone without making an assumption of light direction. For depth judgments with combined cues, the observers gave much greater weighting to the luminance shading than to the disparity modulation of the targets. The results were not well-fit by a Bayesian cue-combination model weighted in proportion to the variance of the measurements for each cue in isolation. Instead, they suggest that the visual system uses disjunctive mechanisms to process these two types of information rather than combining them according to their likelihood ratios.     

Discrimination of Low-Frequency Tones Employs Temporal Fine Structure

An auditory neuron can preserve the temporal fine structure of a low-frequency tone by phase-locking its response to the stimulus. Apart from sound localization, however, much about the role of this temporal information for signal processing in the brain remains unknown. Through psychoacoustic studies we provide direct evidence that humans employ temporal fine structure to discriminate between frequencies. To this end we construct tones that are based on a single frequency but in which, through the concatenation of wavelets, the phase changes randomly every few cycles. We then test the frequency discrimination of these phase-changing tones, of control tones without phase changes, and of short tones that consist of a single wavelet. For carrier frequencies below a few kilohertz we find that phase changes systematically worsen frequency discrimination. No such effect appears for higher carrier frequencies at which temporal information is not available in the central auditory system.     

终止子的概念与结构之辨析

指出一些生物化学,分子生物学及遗传学方面高等院校教材和著作中,较为普遍存在的关于转录终止子概念与结构的描述和解释方面的错误。     

Long-Range Surface Plasmon Supported by Asymmetric Bimetallic Structure

With this study, we prove that an asymmetric bimetallic structure can support long-range surface plasmon (LRSP) and propose a procedure for its optimization. By applying different criteria we prove that the plasmon which is supported by the structure is indeed LRSP. Unlike all known asymmetric structures supporting LRSP, our structure provides prism excitation and can be used as a biochip for biosensing. Moreover, we show that the structure supports a plasmon with the same propagation constant as LRSP and which is excited at the interface of metal and buffer. This plasmon can be used as a reference channel providing information for the temperature of the structure.     

Estimating Cell Depth from Somatic Mutations

The depth of a cell of a multicellular organism is the number of cell divisions it underwent since the zygote, and knowing this basic cell property would help address fundamental problems in several areas of biology. At present, the depths of the vast majority of human and mouse cell types are unknown. Here, we show a method for estimating the depth of a cell by analyzing somatic mutations in its microsatellites, and provide to our knowledge for the first time reliable depth estimates for several cells types in mice. According to our estimates, the average depth of oocytes is 29, consistent with previous estimates. The average depth of B cells ranges from 34 to 79, linearly related to the mouse age, suggesting a rate of one cell division per day. In contrast, various types of adult stem cells underwent on average fewer cell divisions, supporting the notion that adult stem cells are relatively quiescent. Our method for depth estimation opens a window for revealing tissue turnover rates in animals, including humans, which has important implications for our knowledge of the body under physiological and pathological conditions.     

Depth inferences from vertically imbedded cephalopods

Raup, D. M.: Depth inferences from vertically imbedded cephalopods.
Vertically imbedded cephalopods are not uncommon in the fossil record. Experiments with modern Nautilus show that after death the shell cannot maintain a vertical orientation on the sea floor unless the depth is less than about 10 m. At greater depths, hydrostatic pressure causes flooding of the phragmocone sufficient to make the shell fall over. The depth limit applies whether the shell floats after death or not. Calculations made on data from six ammonite species indicate that the same depth limit can be applied to fossil coiled cephalopods. Vertical preservation can occur in deeper water only if the shell is vertically oriented upon impact and if the sediment is such as to trap the shell in that position.     

Discrimination: from behaviour to brain

Discrimination is a skill needed by many organisms for survival: decisions about food, shelter, and mate selection all require the ability to distinguish among stimuli. This article reviews the how and why of discrimination and how researchers may exploit this natural skill in the laboratory to learn more about what features of stimuli animals use to discriminate. The paper then discusses the possible neurophysiological basis of discrimination and proposes a model, based on one of stimulus-association put forth by Beninger and Gerdjikov (2004) [Beninger, R.J., Gerdjikov, T.V., 2004. The role of signaling molecules in reward-related incentive learning. Neurotox. Res., 6, 91-104], to account for the role of dopamine in how an animal learns to discriminate rewarded from non-rewarded stimuli.     

Effects of Shading on Shoot Morphology, Wood Production and Structure of Nothofagus procera Seedlings

Four-year-old seedlings of Nothofagus procera were grown outof doors in pots while subjected to two levels of shading (mediumand dense shades) and to full light. Shoot morphological andwood anatomical studies showed that growing N. procera in mediumlight, rather than in full light, can result in fewer leaves,but higher shoot growth, a greater amount of fibres, a widerwood growth increment and thicker fibre walls. Significant positivecorrelations were found between the rate of shoot extensionand the rate of wood production. Conversely, significant negativecorrelations were obtained between fibre lumen diameter andfibre wall thickness. The significance of these findings isdiscussed. Southern beech, Nothofagus procera, shading, shoot morphology, wood production, wood anatomy     

Role of Secondary Structure in Discrimination between Constitutive and Inducible Activators

We have examined structural differences between the proto-oncogene c-Myb and the cyclic AMP-responsive factor CREB that underlie their constitutive or signal-dependent activation properties. Both proteins stimulate gene expression via activating regions that articulate with a shallow hydrophobic groove in the KIX domain of the coactivator CREB-binding protein (CBP). Three hydrophobic residues in c-Myb that are conserved in CREB function importantly in cellular gene activation and in complex formation with KIX. These hydrophobic residues are assembled on one face of an amphipathic helix in both proteins, and mutations that disrupt c-Myb or CREB helicity in this region block interaction of either factor with KIX. Binding of the helical c-Myb domain to KIX is accompanied by a substantial increase in entropy that compensates for the comparatively low enthalpy of complex formation. By contrast, binding of CREB to KIX entails a large entropy cost due to a random coil-to-helix transition in CREB that accompanies complex formation. These results indicate that the constitutive and inducible activation properties of c-Myb and CREB reflect secondary structural characteristics of their corresponding activating regions that influence the thermodynamics of formation of a complex with CBP.     

Depth Discrimination in Diffuse Optical Transmission Imaging by Planar Scanning Off-Axis Fibers: INITIAL Applications to Optical Mammography

We present a method for depth discrimination in parallel-plate, transmission mode, diffuse optical imaging. The method is based on scanning a set of detector pairs, where the two detectors in each pair are separated by a distance δD_i along direction δD_i within the x-y scanning plane. A given optical inhomogeneity appears shifted by α_iδD_i (with 0≤ α_i ≤1) in the images collected with the two detection fibers of the i-th pair. Such a spatial shift can be translated into a measurement of the depth z of the inhomogeneity, and the depth measurements based on each detector pair are combined into a specially designed weighted average. This depth assessment is demonstrated on tissue-like phantoms for simple inhomogeneities such as straight rods in single-rod or multiple-rod configurations, and for more complex curved structures which mimic blood vessels in the female breast. In these phantom tests, the method has recovered the depth of single inhomogeneities in the central position of the phantom to within 4 mm of their actual value, and within 7 mm for more superficial inhomogeneities, where the thickness of the phantom was 65 mm. The application of this method to more complex images, such as optical mammograms, requires a robust approach to identify corresponding structures in the images collected with the two detectors of a given pair. To this aim, we propose an approach based on the inner product of the skeleton images collected with the two detectors of each pair, and we present an application of this approach to optical in vivo images of the female breast. This depth discrimination method can enhance the spatial information content of 2D projection images of the breast by assessing the depth of detected structures, and by allowing for 3D localization of breast tumors.     

Effects of Shading Soybean Plants on N2O Emission from Soil

The effect of photosynthesis on N₂O emission from soil was investigated by shading soybean (Gycline max. L) plant at flowering, pod-setting and grain-filling stages. The results showed that by stopping photosynthesis through shading the plants stimulated N₂O emission significantly at flowering stage and pod-setting stage, and suppressed N₂O emission dramatically at grain-filling stage. At flowering stage, soybean species seem to rely mainly on fertilizer N and shaded plants decreased the N uptake. Interaction between the relative increase in available N for N₂O production by shading and the presence of root exudates promoted N transformation (nitrification/denitrification) and N₂O emission. At pod-setting stage, the available soil nitrogen seems to be a critical limiting factor and without substantial release of symbiotically fixed N through plant roots, resulted in a weak effect of shading on N₂O emission. At grain-filling stage, available N for N₂O production was derived from symbiotically fixed N and was greatly affected by photosynthesis. These results indicated that the effect of soybean growth on N₂O emission from soil varies with plant growth stages as available N for N₂O production is mainly from fertilizer N and organic mineralization during the early growth of soybean plants, while N₂O emission is controlled by the quantity and perhaps also the quality of root exudates, which is closely related with plant photosynthesis in the late season of soybean growth.     

Different Pressure Resistance of Lactate Dehydrogenases from Hagfish is Dependent on Habitat Depth and Caused by Tetrameric Structure Dissociation

The effects of high hydrostatic pressure on lactate dehydrogenase (LDH) activities from two species of hagfish were examined. LDH from Eptatretus okinoseanus, a deep-sea species, retained 67% of the original activity even at 100 MPa. LDH activity from Eptatretus burgeri, a shallow-sea species, was completely lost at 50 MPa but recovered to the original value at 0.1 MPa. The tetrameric structure of LDH-A₄ from E. okinoseanus did not change at 50 MPa. In contrast, almost all LDH tetramers from E. burgeri dissociated to dimers and monomers at 50 MPa but reverted to tetramers at 0.1 MPa. These results show that the dissociation of tetramers caused the inactivation of E. burgeri LDH. The difference depends on the number 6 and 10 amino acids. The mechanism of the slight, gradual inactivation of E. okinoseanus LDH at high pressure differs and is probably due to the metamorphosis of its inner structures.     

Optical Bifacial Transmission by Asymmetric Charge-Oscillation-Induced Light Transmission Through a Plasmonic Structure

From first-principles computation, we reveal that optical bifacial transmission can be induced within an asymmetric metallic subwavelength structure. This phenomenon can be explained by a concrete picture in which the intensity of the driving forces for surface plasmon or charge wave is asymmetric for the two incident directions. Two distinguished different numerical methods, finite difference time domain (FDTD), and rigorous coupled wave analysis (RCWA) are utilized to verify that optical bifacial transmission can exist for linear plasmonic metamaterial. Previous results are also reviewed to confirm the physical meaning of optical bifacial transmission for a planar linear metamaterial. The incident light can provide direct driving forces for surface plasmon in one direction. While in the opposite direction, forces provided by the light diffraction are quite feeble. With the asymmetric driving forces, the excitation, propagation, and light-charge conversion of surface plasmon give the rise of bifacial charge-oscillation-induced transmission. In periodic a structure, the excitation of surface plasmon polariton can lead to the spoof vanish of such phenomenon. The transmissions for two incident directions get the same in macroscopic while the bifacial still exists in microscale.     

Structure of an Asymmetric Ternary Protein Complex Provides Insight for Membrane Interaction

1. Download : Download high-res image (364KB)
2. Download : Download full-size image

Highlights? S100A10, annexin A2, and AHNAK are involved in membrane repair ? The AHNAK binding region forms a coiled structure ? Both S100A10 and annexin A2 make contacts to AHNAK and are necessary for binding ? The asymmetric architecture provides a model for AHNAK translocation to the membrane     

Asymmetric stem cell division: lessons from Drosophila

Asymmetric cell division is an important and conserved strategy in the generation of cellular diversity during animal development. Many of our insights into the underlying mechanisms of asymmetric cell division have been gained from Drosophila, including the establishment of polarity, orientation of mitotic spindles and segregation of cell fate determinants. Recent studies are also beginning to reveal the connection between the misregulation of asymmetric cell division and cancer. What we are learning from Drosophila as a model system has implication both for stem cell biology and also cancer research.