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Morphomics via next-generation electron microscopy

Journal of Molecular Cell Biology 2023年第12期15卷 12-27页

作者： Raku Son Kenji Yamazawa Akiko Oguchi Mitsuo Suga masaru tamura Motoko Yanagita Yasuhiro Murakawa Satoshi Kume RIKEN-IFOM Joint Laboratory for Cancer Genomics RIKEN Center for Integrative Medical SciencesYokohama 230-0045Japan Department of Nephrology Graduate School of MedicineKyoto UniversityKyoto 606-8507Japan Advanced Manufacturing Support Team RIKEN Center for Advanced PhotonicsWako 351-0198Japan Multimodal Microstructure Analysis Unit RIKEN–JEOL Collaboration CenterKobe 650-0047Japan Technology and Development Team for Mouse Phenotype Analysis RIKEN BioResource Research CenterTsukuba 305-0074Japan Institute for the Advanced Study of Human Biology(ASHBi) Kyoto UniversityKyoto 606-8501Japan IFOM—The FIRC Institute of Molecular Oncology Milan 20139Italy Laboratory for Pathophysiological and Health Science RIKEN Center for Biosystems Dynamics ResearchKobe 650-0047Japan Center for Health Science Innovation Osaka City UniversityOsaka 530-0011Japan Osaka Electro-Communication University Neyagawa 572-8530Japan

The living body is composed of innumerable fine and complex *** these structures have been studied in the past,a vast amount of information pertaining to them still remains *** attempting to observe these ultra-structures,the use of electron microscopy(EM)has become ***,conventional EM settings are limited to a narrow tissue area,which can bias ***,new trends in EM research have emerged,enabling coverage of far broader,nano-scale fields of view for two-dimensional wide areas and three-dimensional large ***,cutting-edge bioimage informatics conducted via deep learning has accelerated the quantification of complex morphological *** together,these technological and analytical advances have led to the comprehensive acquisition and quantification of cellular morphology,which now arises as a new omics science termed‘morphomics’.

关键词： comprehensive morphological analysis next-generation electron microscopy 3D bioimaging imaging database deep learning

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Sahara’s surface transformation forced an abrupt hydroclimate decline and Neolithic culture transition in northern China

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The Innovation 2024年第1期5卷 70-79页

作者： Yandong Hou Hao Long Sumiko Tsukamoto Zhengyao Lu Jie Chen Daniel EIbarra Toru tamura Qiong Zhang Weiyi Sun Jingran Zhang Lei Gao Manfred Frechen Ji Shen State Key Laboratory of Lake Science and Environment Nanjing Institute of Geography and LimnologyChinese Academy of Sciences(NIGLAS)Nanjing 210008China Leibniz Institute for Applied Geophysics(LIAG) Department of Geochronology30655 HannoverGermany Department of Physical Geography and Ecosystem Science Lund University22100 LundSweden Key Laboratory of Western China’s Environmental Systems(Ministry of Education) College of Earth and Environmental SciencesLanzhou UniversityLanzhou 730000China College of Atmospheric Sciences Lanzhou UniversityLanzhou 730000China Institute at Brown for Environment and Society and Department of Earth Environmentaland Planetary SciencesBrown UniversityProvidenceRI 02912USA Geological Survey of Japan National Institute of Advanced Industrial Science and TechnologyTsukubaIbaraki 305-8567Japan Graduate School of Frontier Sciences University of TokyoKashiwaChiba 277-8561Japan Department of Physical Geography and Bolin Centre for Climate Research Stockholm University10691 StockholmSweden School of Geography Nanjing Normal UniversityJiangsu Centre for Collaborative Innovation in Geographical Information Resource Development and ApplicationKey Laboratory of Virtual Geographic EnvironmentMinistry of Education of ChinaNanjing 210023China School of Geography and Ocean Science Nanjing UniversityNanjing 210023China

The remote forcing from land surface changes in the Sahara is hypothesized to play a pivotal role in modulating the intensity of the East Asian summer monsoon(EASM)through ocean-atmospheric *** modulation has far-reaching consequences,particularly in facilitating societal shifts documented in northern ***,we present a well-dated lake-level record from the Daihai Lake Basin in northern China,providing quantitative assessments of Holocene monsoonal precipitation and the consequent migrations of the northern boundary of the *** reconstruction,informed by a water-and-energy balance model,indicates that annual precipitation reached700 mm during 8–5 ka,followed by a rapid decline to tween 5 and 4 *** shift coherently aligns with a signi550 mm be-ficant300 km northwestward movement of the EASM northern boundary during the Middle Holocene(MH),in contrast to its current *** findings underscore that these changes cannot be entirely attributed to orbital forcing,as corroborated by simulation *** model simulations deployed in our study suggest that the presence of the Green Sahara during the MH significantly strengthened the EASM and led to a northward shift of the monsoon rainfall ***,the Sahara’s reversion to a desert landscape in the late Holocene was accompanied by a corresponding southward retraction of monsoon *** dramatic hydroclimate changes during5–4 ka likely triggered or at least contributed to a shift in Neolithic cultures and societal transformation in northern *** decreasing agricultural productivity,communities transitioned from millet farming to a mixed rainfed agriculture and animal husbandry ***,our findings elucidate not only the variability of the EASM but also the profound implications of a remote forcing,such as surface transformations of the Sahara,on climatic changes and cultural evolution in northern China.

关键词： Holocene monsoon abrupt

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Increasing spatial coverage in rough terrain and vegetated areas using InSAR optimized pixel selection:application to Tohoku,Japan

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Geo-Spatial Information Science 2022年第2期25卷 295-311页

作者： Tamer ElGharbawi Masayuki tamura Civil and Earth Resources Engineering Department Kyoto UniversityKyotoJapan

One of the major limitations of using Interferometric Synthetic Aperture Radar(InSAR)in time series analysis is the low-phase coherence associated with rough terrain and vegetated areas,which results in limited spatial coverage in such *** scatterers technique was introduced to overcome this limitation using time-series ***,identifying major scatterers within a pixel requires the single-looked pixels oversampling which can be a demanding process especially with large interferometric stacks and vast study ***,using multilooked temporal coherent pixels was proposed to increase processing efficiency and coverage by utilizing distributed targets,but this technique may exclude pixels with reliable phase returns because of their temporal varying neighboring *** this paper,we propose a technique to identify multilooked temporal stable pixels with reliable phase returns independent of their neighboring *** conduct a simulation analysis to relate the spatial coherence of a pixel with its expected temporal correlation in the time series analysis *** found that a liberal temporal correlation threshold of 0.53 in multilooked pixels stack is equivalent to a spatial coherence threshold of 0.2 when using number of looks of 9,which is considered acceptable in temporal coherent pixels,in terms of phase standard *** these findings to study the 2011 Tohoku earthquake in the northeastern part of Japan resulted in increasing the number of usable pixels and spatial coverage index by nearly 50.4%and 36.8%,respectively,compared to the temporal coherent ***,we propose an approach to integrate GPS observations with InSAR time series analysis,which resulted in deformation maps of the megathrust 2011 Tohoku earthquake with mean RMSE of 11.4 mm and a correlation of 98%in comparison to GPS observations.

关键词： 2011 Tohoku earthquake temporal stable pixels coherence phase noise GPS coverage index

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Pediatric kidney transplantation during the COVID-19 pandemic

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World Journal of Clinical Cases 2022年第34期10卷 12494-12499页

作者： Hiroshi tamura Department of Pediatrics Kumamoto UniversityKumamoto 860-8556Japan

A waiting list for non-emergency transplant medical care was recommended in the first half of 2020 due to the coronavirus disease 2019(COVID-19)***,the number of kidney transplants temporarily ***,the waiting list for transplant medical care was lifted in the latter half of 2020 with the establishment of a polymerase chain reaction test system and the spread of infection *** basic stance is to recommend vaccination to posttransplant recipients,recipients,and donors who are scheduled to undergo transplantation,and their families,with the start of vaccine therapy in *** mortality rate of patients undergoing kidney transplants who had COVID-19 is slightly higher than healthy persons,and acute kidney injury was reported to lead to graft ***,pediatric cases of severe disease are rare and without *** transplantation medical care will be continuously provided by implementing infection prevention and treatments based on the latest evidence,promoting donated kidney transplantation,and hoping that pediatric patients with renal failure will grow up healthy,both physically and mentally,and become independent members of society,just like healthy children.

关键词： Kidney transplantation COVID-19 pandemic Children

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Protein phase separation of plant nuclear pore complex

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Molecular Plant 2023年第6期16卷 973-974页

作者： Kentaro tamura Masaya Koide School of Food and Nutritional Sciences Department of Environmental and Life SciencesUniversity of ShizuokaShizuoka 422-8526Japan

The nuclear pore complex(NPC)is an evolutionally conserved channel that controls the exchange of macromolecules between the nucleus and *** pores of the NPC form a permeability barrier that allows free permeability of small molecules(<40 kDa or~5 nm in diameter)(Schmidt and Gorlich,2016).However,larger molecules must interact with nuclear transport receptors(NTRs)to overcome the NPC permeability barrier.

关键词： separation overcome pores

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Acute renal failure with severe loin pain and patchy renal ischemia after anaerobic

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World Journal of Nephrology 2023年第3期12卷 56-65页

作者： Hiroshi tamura Department of Pediatrics Kumamoto UniversityKumamoto 8608556Japan

BACKGROUND There are two known types of exercise-induced acute renal *** is the long-known myoglobinuria-induced acute renal failure due to severe rhabdomyolysis,and the other is the recently recognized non-myoglobinuria-induced acute renal failure with mild ***-induced acute renal failure was first reported in ***-myoglobinuria-induced acute renal failure is associated with severe low back pain and patchy renal vasoconstriction,and it is termed post-exercise acute renal failure because it usually occurs hours after *** is also called acute renal failure with severe loin pain and patchy renal ischemia after anaerobic exercise(ALPE).AIM To makes a significant contribution to medical literature as it presents a study that investigated a not-widely-known type of exercise-induced acute renal failure known as *** We performed a database search selecting papers published in the English or Japanese language.A database search was lastly accessed on September 1,*** results of this study were compared with those reported in other case *** The study evaluated renal hypouricemia as a key risk factor of *** development of ALPE is due to the sum of risk factors such as exercise,hypouricemia,nonsteroidal anti-inflammatory drugs,vasopressors,and *** In conclusion,hypouricemia plays a key role in the development of ALPE and is often associated with anaerobic *** development of ALPE is a result of the cumulative effects of risk factors such as exercise,hypouricemia,NSAIDs,vasopressors,and dehydration.

关键词： Acute kidney injury Exercise Vasoconstriction Renal hypouricemia

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陆基养殖牡蛎减少污染风险

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商业周刊（中文版） 2024年第1期 12-12页

作者： Yasutaka tamura 汪泽(译) 不详

2006年,吉田则(Hidenori Yoshida)在监督他的连锁牡蛎酒吧的扩张工作,当时的一场诺如病毒疫情让日本各地几万人进了医院。尽管他的餐厅无一与这些病例有关,吉田则的销售额仍然暴跌。但他没有放弃牡蛎,而是加大了投人,自己养殖牡蛎,以便... 详细信息

2006年,吉田则(Hidenori Yoshida)在监督他的连锁牡蛎酒吧的扩张工作,当时的一场诺如病毒疫情让日本各地几万人进了医院。尽管他的餐厅无一与这些病例有关,吉田则的销售额仍然暴跌。但他没有放弃牡蛎,而是加大了投人,自己养殖牡蛎,以便能保证自己提供的牡蛎的安全性。

关键词：诺如病毒污染风险牡蛎吉田销售额安全性

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Porphyromonas gingivalis,a periodontal pathogen,impairs post-infarcted myocardium by inhibiting autophagosome–lysosome fusion

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International Journal of Oral Science 2023年第4期15卷 626-639页

作者： Yuka Shiheido-Watanabe Yasuhiro Maejima Shun Nakagama Qintao Fan Natsuko tamura Tetsuo Sasano Department of Cardiovascular Medicine Graduate School of Medical and Dental SciencesTokyo Medical and Dental UniversityTokyoJapan

While several previous studies have indicated the link between periodontal disease (PD) and myocardial infarction (MI), theunderlying mechanisms remain unclear. Autophagy, a cellular quality control process that is activated in several diseases, includingheart failure, can be suppressed by Porphyromonas gingivalis (P.g.). However, it is uncertain whether autophagy impairment byperiodontal pathogens stimulates the development of cardiac dysfunction after MI. Thus, this study aimed to investigate therelationship between PD and the development of MI while focusing on the role of autophagy. Neonatal rat cardiomyocytes(NRCMs) and MI model mice were inoculated with wild-type P.g. or gingipain-deficient P.g. to assess the effect of autophagyinhibition by P.g. Wild-type P.g.-inoculated NRCMs had lower cell viability than those inoculated with gingipain-deficient P.g. Thisstudy also revealed that gingipains can cleave vesicle-associated membrane protein 8 (VAMP8), a protein involved in lysosomalsensitive factor attachment protein receptors (SNAREs), at the 47th lysine residue, thereby inhibiting autophagy. Wild-type P.g.-inoculated MI model mice were more susceptible to cardiac rupture, with lower survival rates and autophagy activity thangingipain-deficient P.g.-inoculated MI model mice. After inoculating genetically modified MI model mice (VAMP8-K47A) with wildtype P.g., they exhibited significantly increased autophagy activation compared with the MI model mice inoculated with wild-typeP.g., which suppressed cardiac rupture and enhanced overall survival rates. These findings suggest that gingipains, which arevirulence factors of P.g., impair the infarcted myocardium by cleaving VAMP8 and disrupting autophagy. This study confirms thestrong association between PD and MI and provides new insights into the potential role of autophagy in this relationship.

关键词： inhibiting myocardium periodontal

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Advances in endoscopic therapy using grasping-type scissors forceps(with video)

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World Journal of Gastrointestinal Surgery 2021年第8期13卷 772-787页

作者： Kazuya Akahoshi Keishi Komori Kazuaki Akahoshi Shinichi tamura Shigeki Osada Yuki Shiratsuchi masaru Kubokawa Endoscopy Center Aso Iizuka HospitalIizuka 820-8505Japan Department of Gastroenterology Aso Iizuka HospitalIizuka 820-8505Japan

Endoscopic submucosal dissection(ESD)is a globally accepted minimally invasive therapy for early-stage gastrointestinal tract *** numerous electrosurgical knives have been developed for ESD,technical difficulties and high complication rates(bleeding and perforation)have limited their use *** grasping-type scissors forceps[clutch cutter(CC)]is the first forceps-type resection device developed with reference to hemostatic *** aim was to allow easy and safe ESD throughout the gastro-intestinal tract,as a biopsy technique,using one *** CC can grasp the target tissue accurately and pull it away from the underlying muscle layer prior to energizing the tissue,for safe and effective incision and hemostasis during *** clinical studies showed that ESD using the CC(ESD-CC)is a safe(perforation rate:0%-3.6%;delayed bleeding rate:0%-4.2%),technically efficient(en-bloc resection rate:88.9%-100%),and single-device method for dissecting early-stage gastrointestinal tract *** ESD-CC technique is simple and easy to learn because it can be completed simply by repeating the grasp,pull,and coagulate and/or incise actions using an electrosurgical *** reported self-completion rate by nonexperts was significantly better with the CC than with conventional knives(61.7%vs 24.5%,respectively;P<0.001).Furthermore,the CC is used for other endoscopic therapies,such as endoscopic polypectomy for large pedunculated polyps,endoscopic myotomy for Zenker’s diverticulum,endoscopic treatment of buried bumper syndrome,and endoscopic necrosectomy for wall-off pancreatic *** initial reports using CC for these therapies have shown favorable *** this review,we describe the structural features of the CC,how to use the instrument,efficacies of ESD-CC,and other unique endoscopic therapies using the CC.

关键词： Grasping-type scissors forceps Clutch cutter Endoscopic submucosal dissection Endoscopic polypectomy Zenker’s diverticulum Buried bumper syndrome

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Congenital diaphragmatic hernia survival in an English regional ECMO center

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World Journal of Pediatric Surgery 2023年第2期6卷 77-84页

作者： Elizabeth O'connor Ryo tamura Therese Hannon Sundeep Harigopal Bruce Jaffray Paediatric surgery The Great North Children's HospitalNewcastle upon TyneTyne&WearUK Fetal medicine and obstetrics Royal Victoria InfirmaryNewcastle upon TyneTyne&WearUK Neonatal medicine Royal Victoria InfirmaryNewcastle upon TyneTyne&WearUK

Introduction Congenital diaphragmatic hernia(CDH)remains a cause of neonatal *** aims are to describe contemporary rates of survival and the variables associated with this outcome,contrasting these with our study of two decades earlier and recent *** and methods A retrospective review of all infants diagnosed in a regional center between January 2000 and December 2020 was *** outcome of interest was *** explanatory variables included side of defect,use of complex ventilatory or hemodynamic strategies(inhaled nitric oxide(iNO),high-frequency oscillatory ventilation(HFOV),extracorporeal membrane oxygenation(ECMO),and Prostin),presence of antenatal diagnosis,associated anomalies,birth weight,and *** changes were studied by measuring outcomes in each of four consecutive 63-month *** A total of 225 cases were *** was 60%(134 of 225).Postnatal survival was 68%(134 of 198 liveborn),and postrepair survival was 84%(134 of 159 who survived to repair).Diagnosis was made antenatally in 66%of *** associated with mortality were the need for complex ventilatory strategies(iNO,HFOV,Prostin,and ECMO),antenatal diagnosis,right-sided defects,use of patch repair,associated anomalies,birth weight,and *** has improved from our report of a prior decade and did not vary during the study *** survival has improved despite fewer *** multivariate analysis,the need for complex ventilation was the strongest predictor of death(OR=50,95%CI 13 to 224,p<0.0001),and associated anomalies ceased to be *** Survival has improved from our earlier report,despite reduced numbers of *** may be related to increased use of complex ventilatory strategies.

关键词： Survival termination sided

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