2023
Site-specific crosslinking reveals Phosphofructokinase-L inhibition drives self-assembly and attenuation of protein interactions
Sivadas A, McDonald E, Shuster S, Davis C, Plate L. Site-specific crosslinking reveals Phosphofructokinase-L inhibition drives self-assembly and attenuation of protein interactions. Advances In Biological Regulation 2023, 90: 100987. PMID: 37806136, PMCID: PMC11108229, DOI: 10.1016/j.jbior.2023.100987.Peer-Reviewed Original ResearchConceptsProtein interactionsProtein-protein interactionsSite-specific crosslinkingSite-specific incorporationMetabolic proteinsRegulated stepProtein assembliesCentral enzymePuncta formationMetabolic fluxHuman cellsInterface 2Amino acidsCytoskeletonLiver isoformCentral roleCompartmentalizationGlycolysisActive siteInteractorsInhibitionInterface 1IsoformsProteinCitrate inhibitionNaV1.7: A central role in pain
Waxman S, Dib-Hajj S. NaV1.7: A central role in pain. Neuron 2023, 111: 2615-2617. PMID: 37678164, DOI: 10.1016/j.neuron.2023.08.011.Peer-Reviewed Original ResearchRediscovering the intricacies of secretory granule biogenesis
Campelo F, Tian M, von Blume J. Rediscovering the intricacies of secretory granule biogenesis. Current Opinion In Cell Biology 2023, 85: 102231. PMID: 37657367, DOI: 10.1016/j.ceb.2023.102231.Peer-Reviewed Original ResearchConceptsTrans-Golgi networkSG biogenesisRegulated secretionImmature SGsEssential cellular processesSecretory granulesSecretory granule biogenesisImmature secretory granulesCargo selectionCargo receptorsCellular processesGranule biogenesisGranule cargoCargo moleculesBiogenesisBiophysical mechanismsDisease mechanismsCellular communicationCargoCentral roleDiverse rangeNew lightTraffickingMechanismProtein
2022
The origins of skin diversity: lessons from dermal fibroblasts
Myung P, Andl T, Atit R. The origins of skin diversity: lessons from dermal fibroblasts. Development 2022, 149 PMID: 36444877, PMCID: PMC10112899, DOI: 10.1242/dev.200298.Peer-Reviewed Original ResearchConceptsFibroblast subtypesSingle-cell levelWnt/β-cateninLineage diversificationHair follicle growthDermal developmentDermal fibroblastsExtraordinary diversityPositional signalsNatural variationFibroblast heterogeneityΒ-cateninDevelopmental originsDiverse groupMolecular heterogeneityCentral roleDiversityFibroblastsFollicle growthImportant roleLineagesSpeciesDiversificationDifferentiationOriginA multi-purpose, regenerable, proteome-scale, human phosphoserine resource for phosphoproteomics
Gassaway BM, Li J, Rad R, Mintseris J, Mohler K, Levy T, Aguiar M, Beausoleil SA, Paulo JA, Rinehart J, Huttlin EL, Gygi SP. A multi-purpose, regenerable, proteome-scale, human phosphoserine resource for phosphoproteomics. Nature Methods 2022, 19: 1371-1375. PMID: 36280721, PMCID: PMC9847208, DOI: 10.1038/s41592-022-01638-5.Peer-Reviewed Original ResearchConceptsPhosphorylation site localizationPhosphorylation positionsCellular signalingPosition of phosphorylationProtein phosphorylationComplex biological systemsPhosphorylated isomersData analysis pipelinePhosphoproteomicsAnalysis pipelinePhosphopeptide standardsPhosphorylationPhosphopeptidesCentral roleBiological systemsWeb toolLocalizationSignalingFragmentation spectraEmerging Concepts in Defective Macrophage Phagocytosis in Cystic Fibrosis
Jaganathan D, Bruscia EM, Kopp BT. Emerging Concepts in Defective Macrophage Phagocytosis in Cystic Fibrosis. International Journal Of Molecular Sciences 2022, 23: 7750. PMID: 35887098, PMCID: PMC9319215, DOI: 10.3390/ijms23147750.Peer-Reviewed Original ResearchConceptsPhagosome formationCystic fibrosis transmembrane conductance regulator (CFTR) geneTransmembrane conductance regulator geneInnate immunityTissue homeostasisRegulator geneMutant CFTRCF macrophagesCystic fibrosisPhagocytic mechanismsPathogenic microbesAdaptive immune systemDefective macrophage phagocytosisCFTRCurrent understandingTherapeutic developmentCentral roleMacrophage phagocytosisCFTR modulatorsPhagocytic cellsPhagocytosisNew therapeutic developmentsMacrophages contributesLung functionChronic inflammation3D structure and in situ arrangements of CatSper channel in the sperm flagellum
Zhao Y, Wang H, Wiesehoefer C, Shah NB, Reetz E, Hwang JY, Huang X, Wang TE, Lishko PV, Davies KM, Wennemuth G, Nicastro D, Chung JJ. 3D structure and in situ arrangements of CatSper channel in the sperm flagellum. Nature Communications 2022, 13: 3439. PMID: 35715406, PMCID: PMC9205950, DOI: 10.1038/s41467-022-31050-8.Peer-Reviewed Original ResearchConceptsCatSper complexSperm flagellaCryo-electron tomographyHigher-order organizationMammalian spermIntracellular domainStructural basisExtracellular domainTetrameric channelChannel CatSperSuccessful fertilizationFlagellar movementCatSper channelsChannel poreSitu mapSitu arrangementHuman sperm flagellumPrimary Ca2CatSperDimer formationFlagellaCentral roleSpermAtomic modelSperm motility
2021
The Role of Myeloid Cells in Acute Kidney Injury and Kidney Repair
Xu L. The Role of Myeloid Cells in Acute Kidney Injury and Kidney Repair. Kidney360 2021, 2: 1852-1864. PMID: 35372990, PMCID: PMC8785849, DOI: 10.34067/kid.0000672021.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus StatementsEvolving A RIG-I Antagonist: A Modified DNA Aptamer Mimics Viral RNA
Ren X, Gelinas AD, Linehan M, Iwasaki A, Wang W, Janjic N, Pyle A. Evolving A RIG-I Antagonist: A Modified DNA Aptamer Mimics Viral RNA. Journal Of Molecular Biology 2021, 433: 167227. PMID: 34487794, DOI: 10.1016/j.jmb.2021.167227.Peer-Reviewed Original ResearchMeSH KeywordsAntigens, ViralAptamers, NucleotideBinding SitesCloning, MolecularCrystallography, X-RayDEAD Box Protein 58Escherichia coliGene ExpressionGenetic VectorsHumansImmunologic FactorsKineticsModels, MolecularMolecular MimicryMutationNucleic Acid ConformationProtein BindingProtein Conformation, alpha-HelicalProtein Conformation, beta-StrandProtein Interaction Domains and MotifsReceptors, ImmunologicRecombinant ProteinsRNA, ViralSELEX Aptamer TechniqueConceptsHigh-resolution crystal structuresResolution crystal structureRIG-I receptorResult of mutationsSame amino acidsVertebrate organismsProtein receptorsInnate immune receptorsRNA virusesImmune receptorsAmino acidsTool compoundsViral ligandsViral RNAImportant receptorPathogenic moleculesGeneralizable strategyDNA aptamersMolecular mimicryCentral roleDisease statesReceptorsTerminusRNAOrganismsThe Complex Integration of T-cell Metabolism and Immunotherapy
Madden M, Rathmell J. The Complex Integration of T-cell Metabolism and Immunotherapy. Cancer Discovery 2021, 11: 1636-1643. PMID: 33795235, PMCID: PMC8295173, DOI: 10.1158/2159-8290.cd-20-0569.Peer-Reviewed Original ResearchConceptsT cell metabolismT cell functionT cellsImmune-oncology approachesEffector T cellsOxidative metabolismAdoptive cell therapyT cell interactionsT cell fateAntitumor immunityCancer immunotherapyImmune oncologyTumor microenvironmentNormal stimulationCell therapyTumorsAerobic glycolysisMetabolic reprogrammingMetabolic reprogramming eventsImmunotherapyMetabolismCellsTherapyCancerCentral roleAn IDH1-vitamin C crosstalk drives human erythroid development by inhibiting pro-oxidant mitochondrial metabolism
Gonzalez-Menendez P, Romano M, Yan H, Deshmukh R, Papoin J, Oburoglu L, Daumur M, Dumé AS, Phadke I, Mongellaz C, Qu X, Bories PN, Fontenay M, An X, Dardalhon V, Sitbon M, Zimmermann VS, Gallagher PG, Tardito S, Blanc L, Mohandas N, Taylor N, Kinet S. An IDH1-vitamin C crosstalk drives human erythroid development by inhibiting pro-oxidant mitochondrial metabolism. Cell Reports 2021, 34: 108723. PMID: 33535038, PMCID: PMC9169698, DOI: 10.1016/j.celrep.2021.108723.Peer-Reviewed Original ResearchConceptsIsocitrate dehydrogenase 1Oxidative phosphorylationMitochondrial metabolismReactive oxygen speciesHuman erythroid differentiationHuman erythroid developmentMitochondrial oxidative phosphorylationVitamin C homeostasisHSPC developmentIDH1 knockdownErythroid developmentStepwise differentiationErythroid differentiationLate-stage erythropoiesisTerminal stepCritical regulatorHematopoietic stemMitochondrial superoxideMitochondrial oxidationProgenitor cellsDehydrogenase 1Oxygen speciesCongenital dyserythropoietic anemiaCentral roleDyserythropoietic anemia
2020
Caregiving influences on emotional learning and regulation: applying a sensitive period model
Gee DG. Caregiving influences on emotional learning and regulation: applying a sensitive period model. Current Opinion In Behavioral Sciences 2020, 36: 177-184. PMID: 33718534, PMCID: PMC7945765, DOI: 10.1016/j.cobeha.2020.11.003.Peer-Reviewed Original ResearchEmotional learningSensitive period modelCorticolimbic circuitrySensitive periodCross-species evidenceExperience-dependent mechanismsEmotional developmentDevelopmental differencesEarly adversityDifferential associationsAdversityLearningConceptual modelDevelopmental timingExperienceSpecific ageAdolescenceCircuitryMaltreatmentChildhoodInfancyAssociationEvidenceCentral roleDifferencesSynaptotagmin-1 membrane binding is driven by the C2B domain and assisted cooperatively by the C2A domain
Gruget C, Bello O, Coleman J, Krishnakumar SS, Perez E, Rothman JE, Pincet F, Donaldson SH. Synaptotagmin-1 membrane binding is driven by the C2B domain and assisted cooperatively by the C2A domain. Scientific Reports 2020, 10: 18011. PMID: 33093513, PMCID: PMC7581758, DOI: 10.1038/s41598-020-74923-y.Peer-Reviewed Original ResearchBayesian sparse heritability analysis with high-dimensional neuroimaging phenotypes
Zhao Y, Li T, Zhu H. Bayesian sparse heritability analysis with high-dimensional neuroimaging phenotypes. Biostatistics 2020, 23: 467-484. PMID: 32948880, PMCID: PMC9308456, DOI: 10.1093/biostatistics/kxaa035.Peer-Reviewed Original ResearchConceptsHeritability analysisHuman complex traitsLarge-scale phenotypeQuantitative geneticsComplex traitsPhenotypic variationTrait selectionGenetic datasetsSingle phenotypeDownstream analysisGenetic contributionHeritability estimationPhenotypeTraitsCentral roleNeuroimaging phenotypesUnited Kingdom BiobankHierarchical selectionPhenotypic methodsGeneticsHeritabilitySelectionVariationBrain variationThe palette of techniques for cell cycle analysis
Eastman AE, Guo S. The palette of techniques for cell cycle analysis. FEBS Letters 2020, 594: 2084-2098. PMID: 32441778, PMCID: PMC9261528, DOI: 10.1002/1873-3468.13842.Peer-Reviewed Original ResearchCell cycleCell cycle analysisCell fate specificationCell division cycleCell cycle speedSingle-cell eraSingle-cell resolutionCell cycle progressionCell cycle dynamicsMulticellular organismsFate specificationCell cycle heterogeneityGenomic fidelityDivision cycleBiochemical machineryTissue homeostasisCycle progressionCellular growthCell cycle measurementsCycle analysisPalette of techniquesGenerational periodCycle dynamicsCentral roleCell numberIdentification of a brain fingerprint for overweight and obesity
Farruggia MC, van Kooten MJ, Perszyk EE, Burke MV, Scheinost D, Constable RT, Small DM. Identification of a brain fingerprint for overweight and obesity. Physiology & Behavior 2020, 222: 112940. PMID: 32417645, PMCID: PMC7321926, DOI: 10.1016/j.physbeh.2020.112940.Peer-Reviewed Original ResearchConceptsPercent body fatWaist circumferenceBody fatWhole-brain functional connectivityBrain network patternsGlucose toleranceBlood insulinObesityOverweightPathophysiological phenotypesFunctional connectivity networksFunctional connectivityMilkshake consumptionBrain correlatesBrain fingerprintsBMIAdiposityBrainCircumferenceConnectivity networksFatDiabetesPathophysiologyCentral roleInsulinIntegrin-mediated adhesions in regulation of cellular senescence
Shin EY, Park JH, You ST, Lee CS, Won SY, Park JJ, Kim HB, Shim J, Soung NK, Lee OJ, Schwartz MA, Kim EG. Integrin-mediated adhesions in regulation of cellular senescence. Science Advances 2020, 6: eaay3909. PMID: 32494696, PMCID: PMC7202880, DOI: 10.1126/sciadv.aay3909.Peer-Reviewed Original ResearchConceptsClathrin-mediated endocytosisCellular senescenceG protein-coupled receptor kinasesProtein-coupled receptor kinasesElevated reactive oxygen species (ROS) productionIntegrin-mediated adhesionIntegrin endocytosisAmphiphysin 1Exchange factorReactive oxygen species productionReceptor kinaseOxygen species productionMolecular mechanismsCalpain cleavageSenescenceCell adhesionDirect competitionHuman fibroblastsGIT levelsSpecies productionΒPixNew therapeutic directionIntegrinsEndocytosisCentral roleChapter 20 Phosphorus homeostasis and related disorders
Carpenter T, Bergwitz C, Insogna K. Chapter 20 Phosphorus homeostasis and related disorders. 2020, 469-507. DOI: 10.1016/b978-0-12-814841-9.00020-8.ChaptersEndocrine fibroblast growth factorsSupply of phosphateComplex regulatory systemMolecular regulationRegulatory signalsFibroblast growth factorIntricate mechanismsPhosphate transferRegulatory systemNovel targetBone biologyMammalian boneCritical roleDistinct classesGrowth factorSkeletal mineralizationCentral rolePhosphate metabolismPrincipal mediatorEndocrine organClasses of transportersPhosphorus homeostasisBiologyTransportersLocal milieu
2019
The Injectisome, a Complex Nanomachine for Protein Injection into Mammalian Cells
Lara-tejero M, Galán J. The Injectisome, a Complex Nanomachine for Protein Injection into Mammalian Cells. 2019, 245-259. DOI: 10.1128/9781683670285.ch20.Peer-Reviewed Original ResearchSecretion machineType III protein secretion systemType III secretion machinesProtein secretion systemTarget eukaryotic cellsCell biological processesType III systemMultiprotein nanomachineEukaryotic hostsComplex nanomachinesGram-negative bacteriaPlant pathogensSymbiotic interactionsEukaryotic cellsEffector proteinsSecretion systemMammalian cellsImportant humanBiological processesStructural organizationInjectisomeBacteriaCurrent knowledgeCentral rolePrimary functionThe Injectisome, a Complex Nanomachine for Protein Injection into Mammalian Cells
Lara-Tejero M, Galán JE. The Injectisome, a Complex Nanomachine for Protein Injection into Mammalian Cells. EcoSal Plus 2019, 8: 10.1128/ecosalplus.esp-0039-2018. PMID: 30942149, PMCID: PMC6450406, DOI: 10.1128/ecosalplus.esp-0039-2018.Peer-Reviewed Original ResearchConceptsEffector proteinsGram-negative bacteriaSecretion systemBacterial envelopeType III protein secretion systemProtein secretion systemHost cellular functionsEukaryotic plasma membraneEukaryotic cell membranesHost cell cytosolMultiprotein nanomachineEukaryotic hostsComplex nanomachinesImportant bacterial pathogensCellular functionsMammalian cellsNeedle complexOuter membranePlasma membraneCell cytosolInjectisomeCell membraneProteinBacterial pathogensCentral role
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