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Polypeptide analysis for nanopore-based protein identification

Nano research 2022年第11期15卷 9831-9842页

作者： Mazdak Afshar Bakshloo Safia Yahiaoui Fabien Piguet Manuela Pastoriza-Gallego régis daniel Jérôme Mathé John J.Kasianowicz Abdelghani Oukhaled CY Cergy Paris Université CNRSLAMBE95000CergyFrance UniversitéParis-Saclay Univ EvryCNRSLAMBE91025Evry-CourcouronnesFrance University of South Florida Dept.of PhysicsTampaFL 33620USA Freiburg Institute for Advanced Studies Universität FreiburgFreiburg 79104Germany

Presently,proteins are identified by cleaving them with proteases,measuring the mass to charge ratio of the fragments with a mass spectrometer,and matching the fragments to segments within known proteins in *** earlier demonstrated that a nanometer-scale pore formed by aerolysin(AeL)can discriminate between,and therefore identify,three similar size proteins from their trypsin-cleaved polypeptide *** this nanopore-protease method,the protein’s identity is instead determined from characteristic ionic current blockade patterns caused by the polypeptide fragments that enter the *** results also suggested that not all of the theoretically expected cleavage products partition into the *** better understand the mechanism by which polypeptide fragments are captured,and how different polypeptides reduce the pore’s ionic current,we studied the effects of 11 identical length polypeptides with different net charges and charge *** show that under certain experimental conditions,negative,positive,and neutral polypeptides are driven into the AeL pore by the same applied voltage *** capture rate and dwell time of polypeptides in the pore depend strongly on the ionic strength,the magnitude of the applied voltage,and the net charge and charge distribution of the *** dwell time distribution depends nonmonotonically on the applied voltage(regardless of the polymer’s net charge),and its maximum value depends on the polypeptide net charge and charge *** maximum dwell time for different polypeptides does not occur at the same applied voltage amplitude,which conceivably might complicate the detection and discrimination of some polypeptide *** additional experiments,computer simulations,and artificial intelligence research are needed to better understand how to optimize the partitioning of enzymatically cleaved fragments into the AeL nanopore,the method is still capable of accurately identifying

关键词： protein identification nanopores trypsin enzymatic degradation

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Amyloid-β-induced disruption of axon-initial-segment mitochondria localization:consequences for TAU missorting in Alzheimer's disease pathology

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Neural regeneration research 2025年第5期20卷 1407-1408页

作者： daniel Adam Felix Langerscheidt Hans Zempel Institute of Human Genetics University Hospital CologneCologneGermany Center for Molecular Medicine Cologne(CMMC) University of CologneCologneGermany

TAU is a neuronal microtubule-associated protein preferentially located in *** a battery of neurodegenerative diseases termed"tauopathies,"including Alzheimer's disease (AD),TAU is missorted and abnormally phosphorylated,leading to filamentous accumulations of hyperphosphorylated TAU,a pathological hallmark and potential disease driver of AD and related tauopathies (Zempel,2024).

关键词： Alzheimer tau diseases

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Complement-dependent neuroinflammation in spinal cord injury:from pathology to therapeutic implications

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Neural regeneration research 2025年第5期20卷 1324-1335页

作者： Hassan Saad Bachar El Baba Ali Tfaily Firas Kobeissy Juanmarco Gutierrez Gonzalez daniel refai Gerald r.rodts Christian Mustroph David Gimbel Jonathan Grossberg daniel L.Barrow Matthew F.Gary Ali M.Alawieh Department of Neurosurgery Emory University School of MedicineAtlantaGAUSA Department of Neurology Yale UniversityNew HavenCTUSA Center for Neurotrauma Multiomics&Biomarkers(CNMB)Morehouse School of MedicineAtlantaGAUSA

Spinal cord injury remains a major cause of disability in young adults,and beyond acute decompression and rehabilitation,there are no pharmacological treatments to limit the progression of injury and optimize recovery in this *** the thorough investigation of the complement system in triggering and propagating cerebral neuroinflammation,a similar role for complement in spinal neuroinflammation is a focus of ongoing *** this work,we survey the current literature investigating the role of complement in spinal cord injury including the sources of complement proteins,triggers of complement activation,and role of effector functions in the *** study relevant data demonstrating the different triggers of complement activation after spinal cord injury including direct binding to cellular debris,and or activation via antibody binding to damage-associated molecular *** effector functions of complement have been implicated in spinal cord injury,and we critically evaluate recent studies on the dual role of complement anaphylatoxins in spinal cord injury while emphasizing the lack of pathophysiological understanding of the role of opsonins in spinal cord *** this pathophysiological review,we systematically review the different translational approaches used in preclinical models of spinal cord injury and discuss the challenges for future translation into human *** review emphasizes the need for future studies to dissect the roles of different complement pathways in the pathology of spinal cord injury,to evaluate the phases of involvement of opsonins and anaphylatoxins,and to study the role of complement in white matter degeneration and regeneration using translational strategies to supplement genetic models.

关键词： complement neuroinflammation neuroplasticity regeneration spinal cord injury targeted therapy

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Vascular endothelial growth factor:a double-edged sword in the development of white matter lesions

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Neural regeneration research 2025年第1期20卷 191-192页

作者： Narek Manukjan daniel Fulton Zubair Ahmed WMatthijs Blankesteijn Sébastien Foulquier Department of Pharmacology and Toxicology Maastricht UniversityMaastrichtThe Netherlands CArIM-School for Cardiovascular Diseases Maastricht UniversityMaastrichtThe Netherlands Neuroscience and Ophthalmology Institute of Inflammation and AgeingUniversity of BirminghamEdgbastonBirminghamUK Centre for Trauma Sciences research University of BirminghamEdgbastonBirminghamUK MHeNs-School for Mental Health and Neuroscience Maastricht UniversityMaastrichtThe Netherlands Department of Neurology Maastricht University Medical CenterMaastrichtThe Netherlands

As the population ages,the burden of age-related diseases becomes ***,over 55 million people suffer from dementia worldwide,with Alzheimer’s disease being the most common ***,it is becoming clearer that underlying vascular pathology such as cerebral small vessel disease(cSVD)may be a more detrimental cause for dementia(Cuadrado-Godia et al.,2018).It is estimated that 10%-30%of the elderly population and 35%-90%of all dementia patients exhibit signs of *** term cSVD refers to pathology affecting the small vessels of the brain,which can lead to lacunar cerebral infarcts,enlarged perivascular spaces,and cortical hemorrhages(Cuadrado-Godia et al.,2018).CSVD is often associated with cognitive decline,gait problems,and dementia(Cuadrado-Godia et al.,2018).

关键词： pathology becoming white

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Comment on:“Completion pancreatectomy or a pancreas-preserving procedure during relaparotomy for pancreatic fistula after pancreatoduodenectomy:a multicentre cohort study and meta-analysis”

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Hepatobiliary Surgery and Nutrition 2022年第1期11卷 94-96页

作者： régis Souche Jean-Michel Fabre Department of Oncologic and Minimally Invasive Digestive Surgery Hospital Saint EloiUniversity Hospital of MontpellierMontpellierFrance

We read with great interest the recently published article of Groen et *** the Dutch Pancreatic Cancer Group(1)appeared on British Journal of *** authors compared salvage completion pancreatectomy with a pancreas-preserving procedure in patients undergoing relaparotomy for severe pancreatic fistula after pancreatoduodenectomy(PD).This retrospective multi center cohort study included patients who underwent relaparotomy for pancreatic fistula after PD from 2005-2018 and provided a systematic review with a meta-analysis on postoperative *** the literature,large retrospective studies dedicated to this question are rare and no randomized study is available to date.

关键词： pancreas fistula

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Persistence and growth of faecal culturable bacterial indicators in water column and sediments of Vidy Bay,Lake Geneva,Switzerland

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Journal of Environmental Sciences 2009年第1期21卷 62-69页

作者： POTE John HALLEr Laurence KOTTELAT régis SASTrE Vincent ArPAGAUS Philippe WILDI Walter University of Geneva F.-A. Forel Institute10 route de Suisse1290 VersoixSwitzerland

The aims of this study was to investigate the persistence and the growth of culturable bacterial indicators （CBI） including total coliforms （TC） and faecal coliforms represented by Escherichia coli, enterococcus （ENT）, and aerobic mesophilic bacteria （AMB） in the surface sediments and the water column of Vidy Bay fLake Geneva, City of Lausanne, Switzerland）. The study was carded out for 60 d using microcosms containing Sewage Treatment Plant （STP） effluent and nonsterile water without CBI, as well as contaminated and non-contaminated sediments. The effects of water temperature and of organic matter associated with sediments on the survival of CBI in the sediments and the water column were observed. The number of CBI colonies in the contaminated sediments of Vidy Bay and in the STP effluent was almost identical in the order of 10^5-10^7, 10^4-10^6, 10^5-10^5, and 10^4-10^7 CFU/100 g sediment or/100 mL water for TC, E. coli, ENT, and AMB respectively. A degradation of CBI was observed in the sediments where organic mater content was low and in the water column at a temperature of 10℃ after 5 d of experimentation. In addition, a growth of CBI was observed in the sediment which is rich in organic matter at 20℃. The results of this study indicate：（1） the higher concentrations of the CBI observed in different points in the water column of Vidy Bay may not be explained only by the recent contribution of the three potential sources of the Bay contamination including STP and the Chamberonne and Flon rivers, but also by the persistence, removal from sediment and multiplication of CBI in the sediment and water column; （2） the sediment of Vidy Bay constitute a reservoir of CBI and can even support their growth; and （3） the CBI not only survive in sediments, but also can be remobilized and increased in the water column, therefore, it become a permanent microbiological pollution in Vidy Bay.

关键词： Lake Geneva faecal pollution persistence multiplication human health risk

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Machine Learning Techniques in Predicting Hot Deformation Behavior of Metallic Materials

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Computer Modeling in Engineering & Sciences 2025年第1期142卷 713-732页

作者： Petr Opela Josef Walek Jaromír Kopecek Department of Metallurgical Technologies Faculty of Materials Science and TechnologyVSB–Technical University of OstravaOstrava70800Czech Republic FZU—Institute of Physics of the Czech Academy of Sciences Prague18200Czech Republic

In engineering practice,it is often necessary to determine functional relationships between dependent and independent *** relationships can be highly nonlinear,and classical regression approaches cannot always provide sufficiently reliable ***,Machine Learning(ML)techniques,which offer advanced regression tools to address complicated engineering issues,have been developed and widely *** study investigates the selected ML techniques to evaluate their suitability for application in the hot deformation behavior of metallic *** ML-based regression methods of Artificial Neural Networks(ANNs),Support Vector Machine(SVM),Decision Tree regression(DTr),and Gaussian Process regression(GPr)are applied to mathematically describe hot flow stress curve datasets acquired experimentally for a medium-carbon *** the GPr method has not been used for such a regression task before,the results showed that its performance is the most favorable and practically unrivaled;neither the ANN method nor the other studied ML techniques provide such precise results of the solved regression analysis.

关键词： Machine learning Gaussian process regression artificial neural networks support vector machine hot deformation behavior

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Topological Modeling of a One Stage Spur Gear Transmission

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Chinese Journal of Mechanical Engineering 2014年第5期27卷 900-908页

作者： MILADI CHAABANE Mariem PLATEAUX régis CHOLEY Jean-Yves KArrA Chafik rIVIErE Alain HADDAr Mohamed Mechanical Modeling and Manufacturing Unit National Engineering School of Sfax(ENIS) BP 1173 – 3038 – Sfax – Tunisia Laboratory of Engineering of the Mechanical Structures and Materials High Institute of Mechanic of Paris(SUPMECA)3 rue Fernand HainautNational 93407 Saint-Ouen Cedex Mechanical Modeling and Manufacturing Unit National Engineering School of Sfax(ENIS) BP 1173–3038–Sfax–Tunisia

Finding a basis of unification for the modeling of mechatronic systems is the search subject of several *** paper is a part of a general research designed to the application of topology as a new approach for the modeling of mechatronic ***,the modeling of a one stage spur gear transmission using a topological approach is *** approach is based on the concepts of topological collections and transformations and implemented using the MGS（modeling of general systems）*** topological collections are used to specify the interconnection laws of the one stage spur gear transmission and the transformations are used to specify the local behavior laws of its different *** order to validate this approach,simulation results are presented and compared with those obtained with MODELICA language using Dymola *** good results are achieved,this approach might be used as a basis of unification for the modeling of mechatronic systems.

关键词： topological modeling topological collections transformations MGS language one stage spur gear

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Astrocytes in the cerebral cortex play a role in the spontaneous motor recovery following experimental striatal hemorrhage

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Neural regeneration research 2018年第1期13卷 67-68页

作者： Juliana Dalibor Neves régis Gemerasca Mestriner Carlos Alexandre Netto Graduate Program of Physiology Institute of Basic Health Sciences Universidade Federal do Rio Grande do Sul Department of Biochemistry Institute of Basic Health Science Universidade Federal do Rio Grande do Sul Neurorehabilitation and Neural repair research Group Pontifícia Universidade Católica do Rio Grande do Sul

Intracerebral hemorrhage （ICH） is a stroke subtype caused by spontaneous rupture of small vessels and bleeding into the brain paren- chyma, resulting in cell death and sensorimotor deficits. Despite the greater prevalence of the ischemic form of stroke （87%）, ICH has the highest mortality rate of all stroke subtypes. The striatum is the most affected structure in hemorrhagic stroke （35-70%）, followed by cere- bral cortex （15-30%）, brain stem and cerebellum （5-10%）; patients suffering striatal and/or cortical ICH bear persistent sensorimotor disabilities. Although chronic sensorimotor impairment is established, a considerable amount of patients experience some degree of spontaneous recovery during the first six months after stroke （Qureshi et al., 2009）, and the neurobiological basis of this process is not understood.

关键词： Astrocytes in the cerebral cortex play a role in the spontaneous motor recovery following experimental striatal hemorrhage ICH

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The contribution of microorganisms and metazoans to mineral nutrition in bromeliads

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Journal of Plant Ecology 2016年第3期9卷 241-255页

作者： Céline Leroy Jean-François Carrias régis Céréghino Bruno Corbara IrD UMR AMAP(botAnique et Modélisation de l’Architecture des Plantes et des végétations)Boulevard de la LirondeTA A‐51/PS2F‐34398 Montpellier Cedex 5France UMr Ecologie des Forêts de Guyane(AgroParisTech CIRADCNRSINRAUniversitéde GuyaneUniversitédes Antilles)Campus AgronomiqueBP 316F-97379 Kourou cedexFrance UniversitéClermont Auvergne UniversitéBlaise PascalBP 10448F-63000 Clermont-FerrandFrance CNrS UMR 6023Laboratoire Microorganismes:Génome et EnvironnementCampus Universitaire des Cézeaux1 impasse Amélie MuratTSA 60026 CS *** Aubière cedexFrance Universitéde Toulouse INPUPS EcoLab(Laboratoire Ecologie Fonctionnelle et Environnement)F-31062 ToulouseFrance CNrS EcoLab118 Route de NarbonneF-31062 ToulouseFrance

Aims One critical challenge for plants is to maintain an adequate nutrient supply under fluctuating environmental *** is particularly true for epiphytic species that have limited or no access to the pedosphere and often live in harsh *** have evolved key innovations such as epiphytism,water-absorbing leaf trichomes,tank habit and Crassulacean acid metabolism(CAM)photosynthesis that enable them to survive under various environmental *** encompass diverse ecological types that live on different substrates(they can be terrestrial,epilithic or epiphytic)and vary in their ability to retain water(they can be tank-forming or tankless)and photosynthetic pathway(i.e.C3 or CAM).In this review,we outline the nutritional modes and specializations that enable bromeliads to thrive in a wide range of nutrient-poor(mostly nitrogen-depleted)*** FindingsBromeliads have evolved a great diversity of morphologies and functional adaptations leading to the existence of numerous nutritional *** on species that have absorptive foliar trichomes,we review evidence that bromeliads have evolved multi-faceted nutritional strategies to respond to fluctuations in the supply of natural nitrogen(N).These plants have developed mutualistic associations with many different and functionally diverse terrestrial and aquatic microorganisms and metazoans that contribute substantially to their mineral nutrition and,thus,their fitness and *** and fungal microbiota-assisted N provisioning,protocarnivory,digestive mutualisms and myrmecotrophic pathways are the main strategies used by bromeliads to acquire *** combination of different nutritional pathways in bromeliads represents an important adaptation enabling them to exploit nutrient-poor ***,as has been shown for several other vascular plants,multiple partners are involved in nutrient acquisition indicating that there have been convergent adap

关键词： digestive mutualism insect-assisted nutrients leafδ15N multiple N sources myrmecotrophy

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