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Biology subjects

Morimoto, T.

Publications and source records attributed to Morimoto, T..

At least 19 recordsLinked to original sources

Active manipulation of surface orientation under directional illumination improves color discrimination

Two surfaces that appear different colors under one illumination might appear the same color under another illumination. This phenomenon is known as illuminant metamerism and is thought to limit surface color discrimination. However, real-world lighting environments are not directionally uniform. In theory, surfaces that appear the same color at one tilt might not appear the same color at another tilt where they sample a different illumination spectrum. We tested whether human observers could use this directional variation to improve surface color discrimination. Our results confirm that human color discrimination is improved when observers are able to tilt surfaces to sample directional lighting. Observer sampling motions were spatiotemporally structured and appeared to be directed towards the general lighting geometry rather than systematically maximizing color discriminating information for specific surface pairs.

neuroscience↗

Identification of surface colors across environmental illuminations

When objects are embedded in a complex lighting environment, the illumination they receive depends on their geometric relationship to the environment. We measured performance in an odd-one-out color constancy task, with objects rendered in complex lighting environments. Observers identified the odd object among four objects, with two rendered under each of two lighting environments, sampled from a wide range of object orientations and camera positions. Constancy was high. The presence of a surrounding context increased accuracy. Gloss provided no measurable benefit. We also tested a condition in which the global color impression provided misleading information about the lighting environment, but this impaired performance only slightly. These findings suggest that human color constancy remains robust even under complex lighting environments, contrary to predictions of many simple models of illuminant discounting.

neuroscience↗

Environmental color statistics shape the anisotropic geometry of human color discrimination

Hue is a powerful cue for object discrimination, but human color discrimination is anisotropic: hue thresholds are lower than chroma thresholds for orangish colors, but nearly equal for purplish colors. Here we show that this asymmetry reflects environmental color statistics rather than being a fixed consequence of cone-opponent architecture. Across fifteen image and reflectance databases, orangish hues accounted for 62.5% of chromatic samples, compared with 5.3% for purplish hues. We replicated the hue-chroma asymmetry psychophysically in 44 participants. Magnetoencephalography revealed a corresponding neural asymmetry, with superior decoding of orangish hue differences emerging around 250 ms after stimulus onset. Deep neural networks trained on naturalistic image datasets reproduced the human-like asymmetry without explicit color supervision. Critically, training on hue-inverted images reversed the asymmetry, producing greater hue sensitivity for purplish than for orangish colors. These results suggest that the geometry of color discrimination is shaped by ecological chromatic structure.

neuroscience↗

A coordinated regeneration-selection strategy enables genetic transformation and rapid flowering in apple x pear intergeneric hybrids

Wide hybridization between related species and genera provides valuable opportunities for broadening genetic diversity and introducing desirable traits. In the tribe Maleae (Rosaceae), Malus (apple) and Pyrus (pear) are phylogenetically closely related, and apple x pear hybrids represent promising materials such as for disease-resistance breeding. However, the effective utilization of such hybrids in breeding programs is constrained by long juvenile period. In this study, we established a tissue culture-based regeneration and genetic transformation platform for apple x pear hybrids. Key stages affecting adventitious shoot regeneration were optimized, and appropriate ranges of antibiotic selection pressure and bacterial elimination conditions were systematically evaluated. Regeneration capacity was predominantly genotype-dependent and became further restricted under Agrobacterium infection, necessitating precise balancing between regeneration competence and selection pressure. Using the highly competence line and the established transformation system, MdFT1 gene was successfully introduced and over-expressed in intergeneric hybrids, resulting in transgenic plants exhibiting floral bud initiation approximately six months after infection under in vitro conditions. This study provides a practical and efficient regeneration-transformation framework for apple x pear hybrids and demonstrates its applicability for FT-mediated early flowering. The established system offers technical support for accelerated breeding strategies and facilitates the utilization of novel resources in genetic improvement of pome fruit.

plant biology↗

When the brightest is not the best: illuminant estimation from the geometry of specular highlights

Colour constancy supports stable object-colour perception across changes in illumination. Illuminant colour can be inferred from white surfaces or specular highlights, and many models adopt a "brightest is white" heuristic to identify illuminant colour. We tested an alternative: observers use structured changes in the proximal image to locate highlights even when they are not the brightest elements. Using computer-rendered scenes, we manipulated the reliability of two cues--brightest element and highlight geometry. Each scene showed a single textured sphere lit by multiple point lights with identical spectra. The sphere had uniform spectral reflectance, while a noise texture attenuated the reflectance by a variable scale factor. We tested three specularity levels (matte, low, mid). Observers viewed a 1.5 s animation and judged whether chromatic changes reflected an illuminant or material change. Performance for matte surfaces was near chance but improved sharply with increasing specularity. Observers outperformed an ideal observer relying solely on the brightest element. When highlights landed on darker texture regions, performance improved further, contrary to the brightest-element prediction. Phase scrambling, which disrupted highlight geometry while preserving global statistics, substantially reduced performance. Overall, observers do not rely solely on the brightest element; they exploit diffuse-specular regularities to resolve surface-illuminant ambiguity.

neuroscience↗

Material perception relies on context-dependent active sensing strategies

Material perception is typically studied under passive and highly constrained viewing conditions, thus leaving it unclear whether humans rely on active sampling strategies to resolve perceptual ambiguities. In everyday vision, however, observers naturally move their heads and manipulate objects with their hands to obtain informative cues, thus raising the question of how such exploratory actions contribute to material recognition. We used immersive virtual reality to examine whether viewpoint changes and object manipulations support the discrimination of visually challenging materials, specifically metal versus glass, whose appearances depend strongly on the associated illumination and viewing geometry. On the basis of three experiments, we revealed that observers systematically increased their exploration tendencies when the identity of a material was ambiguous and that this increased movement was associated with higher discrimination accuracy. By independently manipulating head- and hand-based motions, we identified the context-dependent contributions of each modality, revealing that viewpoint changes dominated when multiple objects could be compared simultaneously, whereas object manipulation was more effective when only a single target was available. Moreover, the participants differed in terms of the efficiency of their sampling strategies, and those who employed more informative exploration patterns exhibited both higher accuracy and greater performance gains across different trials. These results demonstrate that material recognition depends on flexible, context-dependent active sensing rather than passive evaluations of static images. Our findings introduce a new framework, according to which material perception emerges from an adaptive perception-action loop, thus highlighting the functional role of exploratory behaviors in complex visual environments. Significance StatementThe task of material perception in natural environments depends not only on the optical properties of surfaces but also on the actions that observers take to reveal informative visual cues. However, most laboratory studies rely on passive viewing, and how humans actively regulate their own movements to reduce perceptual uncertainty remains unknown. On the basis of three virtual-reality experiments, we showed that observers flexibly perform head- and hand-based explorations to enhance the discriminability of visually ambiguous materials. These exploratory strategies were strongly context-dependent and exhibited systematic individual differences that predicted learning-related improvements. Our findings demonstrate that material perception emerges from an adaptive perception-action loop rather than static image analyses, providing a framework for understanding how humans actively acquire diagnostic sensory information in complex environments.

neuroscience↗

Spatially resolved analysis of growth dynamics in pome and drupe fruits of Rosaceae using 3D Gaussian Splatting

Fruit growth has long been described using single- or double-sigmoid curves; however, these temporal models cannot fully capture the spatial heterogeneity that ultimately shapes a fruit. Here, we present a three-dimensional analysis pipeline that non-destructively tracks spatial fruit growth dynamics from field-collected imaginary. Surface landmarks were drawn, and video recordings were taken throughout development for three pome fruits, apple (Malus x domestica), Japanese pear (Pyrus pyrifolia) and European pear (Pyrus communis), and two drupe fruits, peach (Prunus persica) and Japanese apricot (Prunus mume), to track their motion. Using 3D Gaussian Splatting, we successfully reconstructed 3D models of the fruits, and the landmark displacement could be measured with high accuracy, with R2 [≥] 0.98 when compared to manual recordings. We found a common spatial growth gradient in the longitudinal growth shared in the pomes and drupes of the Rosaceae; proximal (stem-end) regions exhibited more pronounced growth than the distal (stylar) end. An exception was found in European pear Bartlett, which showed relatively vigorous growth in the distal region, explaining its distinct shape with expanded distal end. Transverse expansion varied far less than longitudinal expansion, with a possible association with initial fruit morphology. Inter-fruit growth variability peaked in the fastest-growing regions, particularly in the distal area of the European pear, highlighting the link between growth vigor and phenotypic variance. These results provide foundational insights into the developmental dynamics of both pome and drupe fruits of the Rosaceae family, contributing to the optimization of fruit size, shape, and uniformity.

plant biology↗

Human gloss perception reproduced by tiny neural networks

A key goal of visual neuroscience is to explain how our brains infer object properties like colour, curvature, or gloss. Here, we used machine learning to identify computations underlying human gloss judgments from object images--traditionally considered a challenging inference. Thousands of object images of varied shapes were rendered with a Ward reflectance model under diverse lighting and viewpoints, and we crowdsourced gloss estimates for each image. Curiously, observers judgments were highly consistent with one another, yet systematically deviated from reality. We compared these responses with neural networks trained either to estimate physical reflectance ("ground-truth networks") or to reproduce human judgments ("human-like networks"). By reducing network size, we identified the minimum computations needed for each objective. While estimating physical reflectance required deep networks, shallow networks--with as few as three layers--accurately replicated human judgments. Remarkably, even a miniscule network with just a single filter could predict human judgments better than the best ground-truth network. The human-like networks also captured known gloss illusions outside the training range. These results suggest human gloss judgments rely on simpler, more general-purpose computations than previously thought, and demonstrate the power of using tiny but interpretable neural networks to uncover functional computations in human brains.

neuroscience↗

Single cone photoreceptors experience global image statistics through gaze shifts

Our visual experience does not merely reflect a static view of the world but is a dynamic consequence of our actions, most notably our continuously shifting gaze. These shifts determine the spectral diet of any individual cone photoreceptor. The aim of this study was to characterize that diet and its relationship to scene adaptation. Gaze shifts were recorded from observers freely viewing scenes outdoors for five minutes. Hyperspectral images of the scenes were also recorded from the observers eye position. As a control, gaze shifts were also recorded from observers viewing the images on a computer-controlled display in the laboratory. From the hyperspectral data, spatially local histograms of estimated excitations in long-, medium-, and short-wavelength-sensitive cones were accumulated over time at different retinal locations. A global illuminant change was then introduced to test how well local retinal adaptation discounted its effects. The results suggest that over short periods individual cones tend to experience the statistics of full scenes, with local adaptation compensating for illumination changes almost as well as global adaptation. This compensation may help to maintain our stable local perception of scene colour despite changes in scene illumination.

neuroscience↗

How many colours can you see? Real environmental lighting increases discriminability of surface colours

Color supports object identification. However, two objects that differ in color under one light can appear indiscriminable under a second light. This phenomenon, known as illuminant metamerism, underlies the difficulty faced by consumers of selecting matching fabric or paint colors in a store only to find that they appear not to match under home lighting. The frequency of illuminant metamerism has been evaluated only under single, uniform illuminants. However, in real world conditions, the spectral content of light falling on an object varies with direction (Morimoto et al. 2019), meaning that a surface will sample different spectra depending on its angle within the environment. Here we used computer-graphics techniques to simulate a pair of planar surfaces placed under newly measured hyperspectral illumination maps that quantify the directional variability of real-world lighting environments. We counted the instances of illuminant metamerism that can be solved simply by viewing surfaces tilted to a different direction. Results show that most instances of illuminant metamerism can in theory be resolved for both trichromatic and dichromatic observers. Color deficient observers benefit more than trichromats implying that the directional variability allows the recovery of the missing dimension in their colour vision systems. This study adds a new perspective to the classic trichromatic theory of human vision and emphasizes the importance of carefully considering the environments in which biological vision operates in daily life. It is striking that the physical directional variability available in natural lighting environments substantially mitigates the biological limitations of trichromacy or dichromacy.

neuroscience↗

Human color constancy in cast shadows

Most natural scenes contain cast shadows to a varying extent. Illuminant conditions inside and outside the shadow typically differ largely both in intensity and in chromaticity. Nevertheless, our daily experiences suggest that colored materials appear to have the same color in shadows even though the reflected light from the material might be very different. Two experiments were conducted to reveal mechanisms that support human color constancy in cast shadows. In all experiments we built a real scene that consisted of colored hexagons illuminated by two independent liquid crystal projectors simulating "sunlight" and "skylight", respectively. A part of the scene included a cast shadow under which observers were instructed to change the luminance and the chromaticity of a test field so that it appeared as a full-white paper under the shadow. The color of the skylight was manipulated, testing if our visual system uses a prior that the skylight is typically bluish or yellowish to achieve color constancy. We also created a condition where a cast shadow is not recognized as a shadow. Results showed that color constancy generally holds well in shadows and changing skylight color had little effect. Recognizing a cast shadow as a shadow also had no effect. Overall, these results are consistent with our daily experiences that we stably judge objects color even in shadows, providing a key step to reveal mechanisms of color perception in real-world scenes where lighting conditions spatially vary.

neuroscience↗

Nobiletin, a Polymethoxyflavonoid, Activates the Desuccinylase Activity of SIRT5 and Prevents the Development of Heart Failure

Nobiletin is a natural compound useful for the prevention and treatment of several diseases. However, the precise role of nobiletin in heart failure is unclear. Nobiletin treatment prevents pressure overload- and myocardial infarction-induced heart failure. Using affinity purification of biotinylated nobiletin from rat heart cell lysates, we identified sirtuin 5 (SIRT5) as a novel nobiletin-binding protein. Nobiletin enhanced the desuccinylase activity of SIRT5 in vitro. Compared to wild-type mice, SIRT5-overexpressing transgenic mice resisted pressure overload-induced systolic dysfunction. Conversely, SIRT5 knockout disrupted the nobiletin-mediated therapeutic effects on heart failure in mice. SIRT5 desuccinylated p300 at lysine 1568 and reduced the histone acetyltransferase (HAT) activity of p300. The desuccinylated p300 mutant suppressed the phenylephrine-induced cardiomyocyte hypertrophic responses. These findings suggest that nobiletin prevents heart failure development through SIRT5-dependent inhibition of p300-HAT activity. Nobiletin, a nontoxic dietary compound, is a potential therapeutic agent for heart failure in humans.

molecular biology↗

Divisome minimization shows that FtsZ and SepF can form an active Z-ring, and reveals BraB as a new cell division influencing protein in Bacillus subtilis

One of the aims of synthetic biology is the construction of a minimal cell. Since bacteria are the simplest life forms, they are the preferred blueprint for such a cell. In this study, we tried to find the minimal set of proteins required for division of a cell wall containing cell, using the bacterial model system Bacillus subtilis. Bacterial cytokinesis begins with polymerization of the tubulin homologue FtsZ at midcell into the Z-ring, which recruits the late cell division protein that synthesize the division septum. Assembly of FtsZ is carefully regulated, involving a dozen conserved cell division proteins. These proteins are not essential, but removing more than one is in many cases lethal. We made use of known suppressor mutations to find a gene deletion route that eventually enabled us to remove eight conserved cell division proteins: ZapA, MinC, MinJ, UgtP, ClpX, Noc, EzrA and FtsA. Only FtsZ and its membrane anchor SepF appeared to be required for Z-ring formation. Interestingly, SepF is also the FtsZ anchor in archaea, and both proteins may date back to the Last Universal Common Ancestor (LUCA). Curiously, viability was not greatly affected by the multiple deletions, although the frequency of cell division was considerably reduced. However, genome sequencing exposed the accumulation of several suppressor mutations, and revealed an unexpected cell division regulation function for the branched chain amino acid transporter BraB. The implications of these findings for the role of SepF in cell division, and the construction of a minimal cell division machinery are discussed.

microbiology↗

Myogenetic oligodeoxynucleotide induces myocardial differentiation of murine pluripotent stem cells

An 18-base myogenetic oligodeoxynucleotide (myoDN), iSN04, acts an anti-nucleolin aptamer and induces myogenic differentiation of skeletal muscle myoblasts. This study investigated the effect of iSN04 on murine embryonic stem cells (ESCs) and induced pluripotent stem cells (iPSCs). In the undifferentiated state, iSN04 inhibited the proliferation of ESCs and iPSCs but did not affect the expression of pluripotent markers. In the differentiating condition, iSN04 treatment of ESCs/iPSCs from day 5 onward dramatically induced the differentiation into Nkx2-5+ beating cardiomyocytes with upregulation of Gata4, Isl1, and Nkx2-5, whereas iSN04 treatment from earlier stages completely inhibited cardiomyogenesis. RNA sequencing revealed that iSN04 treatment from day 5 onward contributes to the generation of cardiac progenitors by modulating the Wnt signaling pathway. Immunostaining showed that iSN04 suppressed the cytoplasmic translocation of nucleolin and restricted it to the nucleoli. These results demonstrate that nucleolin inhibition by iSN04 facilitates the terminal differentiation of cardiac mesoderm into cardiomyocytes, but interferes with the differentiation of early mesoderm into the cardiac lineage. This is the first report on the generation of cardiomyocytes from pluripotent stem cells using a DNA aptamer. Since iSN04 did not induce hypertrophic responses in primary-cultured cardiomyocytes, iSN04 would be useful and safe for the regenerative therapy of heart failure using stem cell-derived cardiomyocytes.

cell biology↗

Color and gloss constancy under diverse lighting environments

When we look at an object, we simultaneously see how glossy or matte it is, how light or dark, and what color. Yet, at each point on the objects surface, both diffuse and specular reflections are mixed in different proportions, resulting in substantial spatial chromatic and luminance variations. To further complicate matters, this pattern changes radically when the object is viewed under different lighting conditions. The purpose of this study was to simultaneously measure our ability to judge color and gloss using an image set capturing diverse object and illuminant properties. Participants adjusted the hue, lightness, chroma, and specular reflectance of a reference object so that it appeared to be made of the same material as a test object. Critically, the two objects were presented under different lighting environments. We found that hue matches were highly accurate, except for under a chromatically atypical illuminant. Chroma and lightness constancy were generally poor, but these failures correlated well with simple image statistics. Gloss constancy was particularly poor, and these failures were only partially explained by reflection contrast. Importantly, across all measures, participants were highly consistent with one another in their deviations from constancy. Although color and gloss constancy hold well in simple conditions, the variety of lighting and shape in the real world presents significant challenges to our visual systems ability to judge intrinsic material properties.

neuroscience↗

Modelling surface color discrimination under different lighting environments using image chromatic statistics and convolutional neural networks

We modeled discrimination thresholds for object colors under different lighting environments [1]. Firstly we built models based on chromatic statistics, testing 60 models in total. Secondly we trained convolutional neural networks (CNNs), using 160,280 images labeled either by the ground-truth or by human responses. No single chromatic statistics model was sufficient to describe human discrimination thresholds across conditions, while human-response-trained CNNs nearly perfectly predicted human thresholds. Guided by region-of-interest analysis of the network, we modified the chromatic statistics models to use only the lower regions of the objects, which substantially improved performance.

neuroscience↗

The GPI-anchored Ly6 protein Belly roll regulates Drosophila melanogaster escape behaviors by modulating the excitability of nociceptive peptidergic interneurons

Appropriate modulation of escape behaviors in response to potentially damaging stimuli is essential for survival. Although nociceptive circuitry has been studied, it is poorly understood how genetic contexts affect the relevant escape responses. Using an unbiased genome-wide association analysis, we identified a Ly6/-neurotoxin family protein, Belly roll (Bero), which negatively regulates Drosophila nociceptive escape behavior. We show that Bero is expressed in abdominal leucokinin-producing neurons (ABLK neurons) and bero knockdown in ABLK neurons resulted in enhanced escape behavior. Furthermore, we demonstrated that ABLK neurons responded to the activation of nociceptors and initiated the behavior. Notably, bero knockdown reduced the persistent neuronal activity and increased the evoked nociceptive responses in ABLK neurons. Our findings reveal that Bero modulates an escape response by regulating distinct neuronal activities in ABLK neurons.

neuroscience↗

Fish environmental DNA in lake sediment overcomes the gap of reconstructing past fauna in lake ecosystems

O_LIUnderwater sediments are a natural archive of biological information. Reconstruction of past fauna has been conducted for various taxonomic groups using morphological remains and DNA derived from these remains. However, information on past occurrences of fish species, the top predator of lake ecosystems, could have been reproduced only in exceptional environments, and past quantitative information on fish, particularly in lake ecosystems, has been a knowledge gap in reconstructing past fauna. Tracking the quantitative fluctuations of fish is essential for reconstructing multiple trophic levels of organisms in lake ecosystems. C_LIO_LITo acquire past quantitative fish information from lake sediments, we collected approximately 30 cm-length of underwater sediments in Lake Biwa. We extracted sedimentary environmental DNA (eDNA) and measured temporal fluctuations in the eDNA concentration of the native and fishery target species Plecoglossus altivelis and Gymnogobius isaza. For P. altivelis, we examined the possibility of tracking quantitative fluctuations by comparing sedimentary eDNA with recorded catch per unit effort (CPUE). C_LIO_LIThe chronology of the sediments allowed us to obtain information on sediments collected in Lake Biwa over the past 100 years. The deepest depths at which sedimentary eDNA was detected were 30 and 13 cm for P. altivelis and G. isaza from the surface, corresponding to approximately 100 and 30 years ago, respectively. In the comparison of sedimentary eDNA concentrations and biomass, we found a significant correlation between the CPUE of P. altivelis and its sedimentary eDNA concentration adjusted to compensate for DNA degradation. Sedimentary eDNA fluctuations were observed in P. altivelis, possibly reflecting the abundance fluctuation due to variations in the main food resources of zooplankton. C_LIO_LIOur findings provide essential pieces for the reconstruction of past fauna of lake ecosystems. The addition of quantitative information on fish species will reach a new phase, for instance, by investigating population shifts or biological interactions in the reconstruction of past fauna in lake ecosystems. C_LI

ecology↗