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Single-cell and spatial omics:exploring hypothalamic heterogeneity

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Neural Regeneration Research 2025年第6期20卷 1525-1540页

作者： Muhammad Junaid Eun Jeong Lee Su Bin Lim Department of Biochemistry&Molecular Biology Ajou University School of MedicineSuwonSouth Korea Department of Biomedical sciences Graduate School of Ajou UniversitySuwonSouth Korea Department of Brain Science Ajou University School of MedicineSuwonSouth Korea

Elucidating the complex dynamic cellular organization in the hypothalamus is critical for understanding its role in coordinating fundamental body functions. Over the past decade, single-cell and spatial omics technologies have significantly evolved, overcoming initial technical challenges in capturing and analyzing individual cells. These high-throughput omics technologies now offer a remarkable opportunity to comprehend the complex spatiotemporal patterns of transcriptional diversity and cell-type characteristics across the entire hypothalamus. Current single-cell and single-nucleus RNA sequencing methods comprehensively quantify gene expression by exploring distinct phenotypes across various subregions of the hypothalamus. However, single-cell/single-nucleus RNA sequencing requires isolating the cell/nuclei from the tissue, potentially resulting in the loss of spatial information concerning neuronal networks. Spatial transcriptomics methods, by bypassing the cell dissociation, can elucidate the intricate spatial organization of neural networks through their imaging and sequencing technologies. In this review, we highlight the applicative value of single-cell and spatial transcriptomics in exploring the complex molecular-genetic diversity of hypothalamic cell types, driven by recent high-throughput achievements.

关键词： cellular diversity hypothalamus multi-omics single-cell transcriptomics spatial transcriptomics

Analysis of forest structural complexity using airborne LiDAR data and aerial photography in a mixed conifer–broadleaf forest in northern Japan

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Journal of Forestry Research 2018年第2期29卷 473-487页

作者： Sadeepa Jayathunga Toshiaki Owari Satoshi Tsuyuki Department of Global agricultural sciences Graduate School of Agricultural and Life SciencesThe University of Tokyo The University of Tokyo Hokkaido Forest Graduate School of Agricultural and Life SciencesThe University of Tokyo

Determining forest structural complexity,i.e.,a measure of the number of different attributes of a forest and the relative abundance of each attribute,is important for forest management and *** this study,we examined the structural complexity of mixed conifer–broadleaf forests by integrating multiple forest structural attributes derived from airborne Li DAR data and aerial *** sampled 76 plots from an unmanaged mixed conifer–broadleaf forest reserve in northern ***-level metrics were computed for all plots using both field and remote sensing data to assess their ability to capture the vertical and horizontal variations of forest structure.A multivariate set of forest structural attributes that included three Li DAR metrics(95 th percentile canopy height,canopy density and surface area ratio) and one image metric(proportion of broadleaf cover),was used to classify forest structure into structural complexity *** results revealed significant correlation between field and remote sensing metrics,indicating that these two sets of measurements captured similar patterns of structure in mixed conifer–broadleaf ***,cluster analysis identified six forest structural complexity classes includingtwo low-complexity classes and four high-complexity classes that were distributed in different elevation *** this study,we could reliably analyze the structural complexity of mixed conifer–broadleaf forests using a simple and easy to calculate set of forest structural attributes derived from airborne Li DAR data and high-resolution aerial *** study provides a good example of the use of airborne Li DAR data sets for wider purposes in forest ecology as well as in forest management.

关键词： Airborne laser scanning High resolution imagery Hokkaido Forest structure Pan-mixed forests

Base flow separation for soil erosion simulation in a granitic forested headwater catchment using a process-based model, GeoWEPP

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International Journal of Sediment Research 2023年第4期38卷 494-502页

作者： Takuhei Yamasaki Shoichiro Hamamoto Taku Nishimura The graduate school of agricultural and life sciences The University of Tokyo

Distributed erosion models, which simulate the physical processes of water flow and soil erosion, are effective for predicting soil erosion in forested catchments. Although subsurface flow through multiple pathways is dominant for runoff generation in forested headwater catchments, the process-based erosion model, Geo-spatial interface for Water Erosion Prediction Project(Geo WEPP), does not have an adequate subsurface component for the simulation of hillslope water flow. In the current study, the quick flow related to soil erosion during rainfall events is separated from the total hydrograph using base flow separation for Geo WEPP to use direct runoff to predict sediment discharge from a granitic-forested catchment in Japan. Water runoff and sediment discharge also are simulated using the conventional method that reproduces the total hydrograph, and the accuracy of the calculation and estimated erodibility parameters are evaluated. The proposed procedure reproduced the quick-flow runoff during rainfall and the cumulative sediment discharge from the catchment. Simultaneously, the proposed procedure overestimates water runoff during extreme weather events, such as typhoons. The estimated erodibility parameters for the hillslope soil were comparable to those of the surface soil in Japan using both the proposed procedure and the conventional one. Conversely, the channel erodibility obtained from the proposed procedure matched the observed sediment characteristics in the granitic forested catchment. The proposed procedure is a promising method to predict sediment discharge from forested catchments based on the geological features of the catchment.

关键词： Soil erosion Base flow separation GeoWEPP Headwater catchment Forest

Insights from an academic endeavor into central nervous system drug discovery

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Neural Regeneration Research 2025年第6期20卷 1717-1718页

作者： Lieve van Veggel An M.Voets Tim Vanmierlo Rudy Schreiber BIOMED Biomedical Research Institute Faculty of Medicine and Life SciencesHasselt UniversityHasseltBelgium Department of Psychiatry and Neuropsychology Division of Translational NeuroscienceEuropean Graduate School of NeuroscienceSchool for Mental Health and NeuroscienceMaastricht UniversityMaastrichtThe Netherlands Section of Psychopharmacology Neuropsychology and PsychopharmacologyFaculty of Psychology and NeuroscienceMaastricht UniversityMaastrichtThe Netherlands University MS Center(UMSC) Hasselt-PeltBelgium

Historically,"big pharma"did most central nervous system drug discovery R&D ***,in modern times their"management reductionism"resulted in disappointing pipelines and pharma resided to(late)development,regulatory approval,and marketing(Thong,2015).This had significant consequences for financing and executing research,resulting in a larger role for funding by governments and patient-organizations and a shift of research to academia(Mazzucato,2013).

关键词： academic approval consequences

Review of research on agricultural vehicle autonomous guidance

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International Journal of agricultural and Biological Engineering 2009年第3期2卷 1-16页

作者： Ming Li Kenji Imou Katsuhiro Wakabayashi Shinya Yokoyama graduate school of agricultural and life sciences the University of TokyoJapan

A brief review of research in agricultural vehicle guidance technologies is *** authors propose the conceptual framework of an agricultural vehicle autonomous guidance system,and then analyze its device *** paper introduces navigation sensors,computational methods,navigation planners and steering *** include global positioning systems(GPS),machine vision,dead-reckoning sensors,laser-based sensors,inertial sensors and geomagnetic direction *** methods for sensor information are used to extract features and fuse *** generate movement information to supply control *** transform guidance information into changes in position and direction.A number of prototype guidance systems have been developed but have not yet proceeded to *** and machine vision fused together or one fused with another auxiliary technology is becoming the trend development for agricultural vehicle guidance *** of new popular robotic technologies will augment the realization of agricultural vehicle automation in the future.

关键词： agricultural vehicle guidance machine vision GPS

On improving strigolactone mimics for induction of suicidal germination of the root parasitic plant Striga hermonthica

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aBIOTECH 2021年第1期2卷 1-13页

作者： Ikuo Takahashi Kosuke Fukui Tadao Asami graduate school of agricultural and life sciences The University of TokyoTokyo 113-8657Japan

Strigolactones(SLs)are plant hormones that regulate the branching of plants and seed germination stimulants of root parasitic *** root parasites are a great threat to agricultural production,the use of SL agonists could be anticipated to provide an efficient method for regulating root parasites as suicidal germination inducers.A series of phenoxyfuranone-type SL mimics,termed debranones,has been reported to show potent bioactivities,including reduction of the tiller number on rice,and stimulation of seed germination in the root parasite Striga *** exert both activities,two substituents on the phenyl ring of the molecules were important but at least a substituent at the 2-position must be an electron-withdrawing ***,little is known about the effect of the properties of the substituents at the 2-position on ***,we found that different substituents at the 2-position give different preferences for *** debranones were more effective than the others and SL agonist GR24 for inhibiting rice tiller but far less effective in the induction of *** ***,nitrile and methyl derivatives clearly stimulated the germination of *** *** their IC_(50) values were 100 times higher than that of GR24 in the receptor competitive binding assay,their physiological activities were approximately 1/10 of *** differences could be due to their uptake in plants and/or their physicochemical stability under our experimental *** findings could support the design of more potent and selective SL agonists that could contribute to solving big agricultural issues.

关键词： Agonist Rice Root parasitic weed Seed germination Strigolactone Tillering

High mobility group box 1 in the central nervous system:regeneration hidden beneath inflammation

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Neural Regeneration Research 2025年第1期20卷 107-115页

作者： Hanki Kim Bum Jun Kim Seungyon Koh Hyo Jin Cho Xuelian Jin Byung Gon Kim Jun Young Choi Department of Brain Science Ajou University School of MedicineSuwonSouth Korea Department of Biomedical sciences Ajou University Graduate School of MedicineSuwonSouth Korea Department of Neurology Ajou University School of MedicineSuwonSouth Korea Department of Geriatrics The Affiliated Suqian First People’s Hospital of Nanjing Medical UniversitySuqianJiangsu ProvinceChina

High-mobility group box 1 was first discovered in the calf thymus as a DNA-binding nuclear protein and has been widely studied in diverse fields,including neurology and ***-mobility group box 1 in the extracellular space functions as a pro-inflammatory damage-associated molecular pattern,which has been proven to play an important role in a wide variety of central nervous system disorders such as ischemic stroke,Alzheimer’s disease,frontotemporal dementia,Parkinson’s disease,multiple sclerosis,epilepsy,and traumatic brain *** drugs that inhibit high-mobility group box 1 as a damage-associated molecular pattern,such as glycyrrhizin,ethyl pyruvate,and neutralizing anti-high-mobility group box 1 antibodies,are commonly used to target high-mobility group box 1 activity in central nervous system *** it is commonly known for its detrimental inflammatory effect,high-mobility group box 1 has also been shown to have beneficial pro-regenerative roles in central nervous system *** this narrative review,we provide a brief summary of the history of high-mobility group box 1 research and its characterization as a damage-associated molecular pattern,its downstream receptors,and intracellular signaling pathways,how high-mobility group box 1 exerts the repair-favoring roles in general and in the central nervous system,and clues on how to differentiate the pro-regenerative from the pro-inflammatory *** targeting high-mobility group box 1 in the central nervous system may benefit from differentiating between the two functions rather than overall suppression of high-mobility group box 1.

关键词： central nervous system damage-associated molecular pattern ethyl pyruvate glycyrhizzin high mobility group box 1 inflammation neural stem cells neurodevelopment oligodendrocyte progenitor cells redox status regeneration

A meta-analysis of responses of wheat yield formation to elevated ozone concentration

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Chinese Science Bulletin 2009年第2期54卷 249-255页

作者： KOBAYASHI Kazuhiko Department of Global agricultural sciences Graduate School of Agricultural and Life Sciences The University of Tokyo Tokyo 113-8657 Japan

The meta-analysis method was applied to quantitatively investigate effects of the elevated ozone concentration ([O3]) on chlorophyll concentration, gas exchange and yield components of wheat. There were 39 effective references through Web of Science (ISI, USA) and Chinese journal full-text database (CNKI, China). The results of meta-analysis indicated that elevated [O3] decreased grain yield, grain weight, grain number per ear, ear number per plant and harvest index by 26%, 18%, 11%, 5% and 11%, respectively, relative to ambient air. The decrease in leaf physiological characters was much greater than that in yield when wheat was expose to elevated [O3], while light-saturated photosynthetic rate (Asat), stomatal conductance (Gs) and chlorophyll content (Chl) decreased by 40%, 31%, and 46%, respectively. The responses to elevated [O3] between spring wheat and winter wheat were similar. Most of the variables showed a linear decrease trend with an increase of [O3]. The most significant decrease for Asat, Gs and Chl was found in grain filling stage. Elevated [CO2] could significantly ameliorated or offset the detrimental effects caused by elevated [O3].

关键词：小麦二氧化碳浓度臭氧气体交换

Sensing and Uptake of Nitrogen in Rice Plant: A Molecular View

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Rice science 2019年第6期26卷 343-355页

作者： Md Saiful ISLAM Department of Soil Science Patuakhali Science and Technology University graduate school of agricultural and life sciences The University of Tokyo

As a main feature of plant autotrophy, assimilation of inorganic nitrogen (N) is not only of fundamental interest to the crop, but also a crucial factor in crop productivity. N is the main plant mineral nutrient needed for chlorophyll production and other plant cell components (proteins, nucleic acids and amino acids). I highlighted the novel aspects of N responsive sensors, transporters and signaling molecules recently identified in the monocot rice plant, and discussed their potential roles in N sensing and transporting. Furthermore, over the last couple of years, N sensing has been shown to be affected by different external factors, which act as local signals to trigger systemic signaling coordinated by long-distance transport or mobile signals in plant body. Understanding of this complex regulatory network provides a foundation mechanism for the development of novel strategies to increase the acquisition and transportation efficiency of nitrogen under varying N conditions for rice production.

关键词： rice nitrate signaling gene function