2022
Impaired neurogenesis alters brain biomechanics in a neuroprogenitor-based genetic subtype of congenital hydrocephalus
Duy PQ, Weise SC, Marini C, Li XJ, Liang D, Dahl PJ, Ma S, Spajic A, Dong W, Juusola J, Kiziltug E, Kundishora AJ, Koundal S, Pedram MZ, Torres-Fernández LA, Händler K, De Domenico E, Becker M, Ulas T, Juranek SA, Cuevas E, Hao LT, Jux B, Sousa AMM, Liu F, Kim SK, Li M, Yang Y, Takeo Y, Duque A, Nelson-Williams C, Ha Y, Selvaganesan K, Robert SM, Singh AK, Allington G, Furey CG, Timberlake AT, Reeves BC, Smith H, Dunbar A, DeSpenza T, Goto J, Marlier A, Moreno-De-Luca A, Yu X, Butler WE, Carter BS, Lake EMR, Constable RT, Rakic P, Lin H, Deniz E, Benveniste H, Malvankar NS, Estrada-Veras JI, Walsh CA, Alper SL, Schultze JL, Paeschke K, Doetzlhofer A, Wulczyn FG, Jin SC, Lifton RP, Sestan N, Kolanus W, Kahle KT. Impaired neurogenesis alters brain biomechanics in a neuroprogenitor-based genetic subtype of congenital hydrocephalus. Nature Neuroscience 2022, 25: 458-473. PMID: 35379995, PMCID: PMC9664907, DOI: 10.1038/s41593-022-01043-3.Peer-Reviewed Original ResearchConceptsCongenital hydrocephalusCerebral ventricular dilatationPrimary defectNeuroepithelial cell differentiationRisk genesCerebrospinal fluid homeostasisWhole-exome sequencingNeuroepithelial stem cellsCortical hypoplasiaReduced neurogenesisVentricular dilatationVentricular enlargementCH mutationsPrenatal hydrocephalusDisease heterogeneityBrain surgeryCSF circulationHydrocephalusGenetic subtypesFluid homeostasisNeuroepithelial cellsNovo mutationsBrain transcriptomicsStem cellsCell differentiation
2020
PIWI–piRNA pathway-mediated transposable element repression in Hydra somatic stem cells
Teefy BB, Siebert S, Cazet JF, Lin H, Juliano CE. PIWI–piRNA pathway-mediated transposable element repression in Hydra somatic stem cells. RNA 2020, 26: 550-563. PMID: 32075940, PMCID: PMC7161359, DOI: 10.1261/rna.072835.119.Peer-Reviewed Original ResearchConceptsPIWI-piRNA pathwayTE expressionSomatic stem cellsTransposable elementsTE transcriptsStem cellsFreshwater cnidarianSmall RNA pathwaysTransposable element repressionSomatic cell lineagesGermline of animalsInterstitial stem cellsStem cell populationInterstitial lineageSomatic piRNAsDegradome sequencingEpithelial cellsAncestral functionRNA pathwaysGermline piRNAsPIWI proteinsTE repressionGermline competenceSequence signaturesRNA immunoprecipitation
2019
Heat shock protein DNAJA1 stabilizes PIWI proteins to support regeneration and homeostasis of planarian Schmidtea mediterranea
Wang C, Yang ZZ, Guo FH, Shi S, Han XS, Zeng A, Lin H, Jing Q. Heat shock protein DNAJA1 stabilizes PIWI proteins to support regeneration and homeostasis of planarian Schmidtea mediterranea. Journal Of Biological Chemistry 2019, 294: 9873-9887. PMID: 31076507, PMCID: PMC6597837, DOI: 10.1074/jbc.ra118.004445.Peer-Reviewed Original ResearchConceptsPIWI proteinsPIWI-interacting RNA (piRNA) biogenesisPlanarian adult stem cellsHeat shock protein 40 family membersDifferent evolutionary lineagesPlanarian Schmidtea mediterraneaStem cell maintenanceStem cell regulationCo-immunoprecipitation assaysStem cellsSomatic stem cellsControl of proteinAdult stem cellsHuman gastric cancer cellsPiRNA biogenesisRNA biogenesisEvolutionary lineagesPiwi-like RNASchmidtea mediterraneaTwo-hybridSMEDWI-1Planarian speciesCell maintenanceGastric cancer cellsPlanarian regeneration
2017
Post-transcriptional regulation of mouse neurogenesis by Pumilio proteins
Zhang M, Chen D, Xia J, Han W, Cui X, Neuenkirchen N, Hermes G, Sestan N, Lin H. Post-transcriptional regulation of mouse neurogenesis by Pumilio proteins. Genes & Development 2017, 31: 1354-1369. PMID: 28794184, PMCID: PMC5580656, DOI: 10.1101/gad.298752.117.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsCell DifferentiationCytoplasmDentate GyrusFemaleFragile X Mental Retardation ProteinGene Expression Regulation, DevelopmentalGene Knockout TechniquesGene SilencingLearning DisabilitiesMaleMemory DisordersMiceNeural Stem CellsNeurogenesisNeuronsRNA, MessengerRNA-Binding ProteinsStem CellsConceptsPost-transcriptional regulationPost-transcriptional regulatorsNeural stem cellsTarget mRNAsMost target mRNAsRNA-dependent interactionCross-linking immunoprecipitationThousands of mRNAsMental retardation proteinPUM proteinsPumilio proteinsPumilio 1Mouse neurogenesisMammalian neurogenesisPerinatal apoptosisPUM1PUM2Stem cellsProteinCommon targetMRNARegulatorNeurogenesisCell compositionRegulation
2016
The Role of PIWIL4, an Argonaute Family Protein, in Breast Cancer*
Wang Z, Liu N, Shi S, Liu S, Lin H. The Role of PIWIL4, an Argonaute Family Protein, in Breast Cancer*. Journal Of Biological Chemistry 2016, 291: 10646-10658. PMID: 26957540, PMCID: PMC4865913, DOI: 10.1074/jbc.m116.723239.Peer-Reviewed Original ResearchConceptsP-element-induced wimpy testisPIWI-interacting RNAsPIWI proteinsMDA-MB-231 cellsArgonaute family proteinsGermline developmentDiverse organismsWimpy testisFamily proteinsProteome analysisClass II proteinsPIWIL4Potential therapeutic targetStem cellsProteinMHC class II proteinsMigration abilityRNATherapeutic targetPIWIL4 expressionCancer tissuesBreast cancer tissuesCellsKey roleBiogenesisPiwi maintains germline stem cells and oogenesis in Drosophila through negative regulation of Polycomb group proteins
Peng JC, Valouev A, Liu N, Lin H. Piwi maintains germline stem cells and oogenesis in Drosophila through negative regulation of Polycomb group proteins. Nature Genetics 2016, 48: 283-291. PMID: 26780607, PMCID: PMC4767590, DOI: 10.1038/ng.3486.Peer-Reviewed Original Research
2015
Embryonic Stem Cells License a High Level of Dormant Origins to Protect the Genome against Replication Stress
Ge XQ, Han J, Cheng EC, Yamaguchi S, Shima N, Thomas JL, Lin H. Embryonic Stem Cells License a High Level of Dormant Origins to Protect the Genome against Replication Stress. Stem Cell Reports 2015, 5: 185-194. PMID: 26190528, PMCID: PMC4618655, DOI: 10.1016/j.stemcr.2015.06.002.Peer-Reviewed Original ResearchConceptsEmbryonic stem cellsStem/progenitor cellsNeural stem/progenitor cellsStem cellsProgenitor cellsTissue stem/progenitor cellsMCM2-7 complexDNA replication originsTissue-specific stem/progenitor cellsStem cell typesGenome integrityGenomic integrityReplication stressDormant originsReplication forksReplicative stressDNA replicationReplication originsNeural lineagesDNA damageS phaseCell typesAbnormal neurogenesisCellsGenomePiwi Is a Key Regulator of Both Somatic and Germline Stem Cells in the Drosophila Testis
Gonzalez J, Qi H, Liu N, Lin H. Piwi Is a Key Regulator of Both Somatic and Germline Stem Cells in the Drosophila Testis. Cell Reports 2015, 12: 150-161. PMID: 26119740, PMCID: PMC4497877, DOI: 10.1016/j.celrep.2015.06.004.Peer-Reviewed Original ResearchConceptsGermline stem cellsDrosophila testisSomatic cyst cellsPIWI-piRNA pathwayStem cell maintenanceCell-autonomous functionStem cellsGerm cell differentiationStem cell typesFasciclin 3GSC daughtersGermline functionSomatic rolePiwi expressionCyst cellsCell maintenanceEpigenetic mechanismsPiwiGenes keyNuclear localizationKey regulatorMolecular mechanismsCell differentiationGonadal developmentCell types
2014
PIWI Proteins Are Dispensable for Mouse Somatic Development and Reprogramming of Fibroblasts into Pluripotent Stem Cells
Cheng EC, Kang D, Wang Z, Lin H. PIWI Proteins Are Dispensable for Mouse Somatic Development and Reprogramming of Fibroblasts into Pluripotent Stem Cells. PLOS ONE 2014, 9: e97821. PMID: 25238487, PMCID: PMC4169525, DOI: 10.1371/journal.pone.0097821.Peer-Reviewed Original ResearchConceptsPIWI proteinsEmbryonic stem cellsInduced pluripotent stem cellsPluripotent stem cellsIPS cellsPiwi genesGermline stem cell maintenanceStem cellsControl iPS cellsDifferentiated somatic cellsStem cell maintenancePIWI protein familyReprogramming of fibroblastsExpression profiling revealsGermline developmentProtein familyKnockout embryosCell maintenanceFemale fertileSomatic cellsEmbryonic fibroblastsDirect reprogrammingProfiling revealsTeratoma assayGerm layersGeneration of transgenic Hydra by embryo microinjection.
Juliano CE, Lin H, Steele RE. Generation of transgenic Hydra by embryo microinjection. Journal Of Visualized Experiments 2014, 51888. PMID: 25285460, PMCID: PMC4828061, DOI: 10.3791/51888.Peer-Reviewed Original ResearchConceptsTransgenic HydraFundamental biological processesEarly stage embryosPatches of tissuePure cell populationsMulticellular animalsStudy of regenerationGene functionMolecular functionsPhylum CnidariaParticular lineageTransgenic linesGene perturbationsSister groupTransgenic tissuesTransgenic methodsPromoter functionAsexual propagationBiological processesEmbryo microinjectionStage embryosLive cellsStem cellsHatchlingsBiochemical analysis
2013
Piwi Genes Are Dispensable for Normal Hematopoiesis in Mice
Nolde MJ, Cheng EC, Guo S, Lin H. Piwi Genes Are Dispensable for Normal Hematopoiesis in Mice. PLOS ONE 2013, 8: e71950. PMID: 24058407, PMCID: PMC3751959, DOI: 10.1371/journal.pone.0071950.Peer-Reviewed Original ResearchConceptsPiwi genesHematopoietic stem cellsNormal adult hematopoiesisPIWI protein familyStem cellsStem/progenitor cellsDiverse organismsAdult hematopoiesisProtein familyLong-term hematopoiesisMyeloablative stressCompetitive transplantationTransient expressionHuman leukemia cell linesHSC compartmentLeukemia cell linesGenesProliferative stateNormal hematopoiesisCell typesMIWI2Progenitor cellsLineage reconstitutionHematopoiesisCell proliferationRepressing the Repressor: A lincRNA as a MicroRNA Sponge in Embryonic Stem Cell Self-Renewal
Cheng EC, Lin H. Repressing the Repressor: A lincRNA as a MicroRNA Sponge in Embryonic Stem Cell Self-Renewal. Developmental Cell 2013, 25: 1-2. PMID: 23597480, PMCID: PMC3906851, DOI: 10.1016/j.devcel.2013.03.020.Peer-Reviewed Original ResearchCore pluripotency factors Oct4Embryonic Stem Cell Self-RenewalLarge intergenic noncoding RNAsStem Cell Self-RenewalPosttranscriptional gene regulationPluripotency factor OCT4Human embryonic stem cellsIntergenic noncoding RNAsCell Self-RenewalEmbryonic stem cellsGene regulationMicroRNA (miRNA) spongesDevelopmental cellsFactors OCT4Noncoding RNAsSelf-RenewalLinc-RORStem cellsMiR-145SpongesRepressorCellsNanogSOX2RNA
2012
High‐Efficiency Transfection and siRNA‐Mediated Gene Knockdown in Human Pluripotent Stem Cells
Ma Y, Lin H, Qiu C. High‐Efficiency Transfection and siRNA‐Mediated Gene Knockdown in Human Pluripotent Stem Cells. Current Protocols In Stem Cell Biology 2012, 21: 5c.2.1-5c.2.9. PMID: 22605647, DOI: 10.1002/9780470151808.sc05c02s21.Peer-Reviewed Original ResearchConceptsHigh transfection efficiencyPluripotent stem cellsTransfection efficiencyTransfection reagent Lipofectamine 2000Human embryonic stem cellsStem cellsHuman pluripotent stem cellsEmbryonic stem cellsPluripotent cell linesLipofectamine 2000SiRNA-mediated gene knockdownPluripotent cellsExpensive equipmentPluripotent genesGene knockdownProtocolEfficiencyPrimary cellsGenesCell linesCarriersCellsApplicationsTransfection
2011
The microRNA regulation of stem cells
Huang XA, Lin H. The microRNA regulation of stem cells. Wiley Interdisciplinary Reviews Membrane Transport And Signalling 2011, 1: 83-95. PMID: 23024929, PMCID: PMC3459065, DOI: 10.1002/wdev.5.Peer-Reviewed Original ResearchStem cellsMore mRNA targetsAdult tissue stem cellsDistinct expression profilesEmbryonic stem cellsTissue stem cellsMiRNA pathwayNegative feedback loopGene regulationMicroRNA regulationMRNA targetsTranscription factorsGene expressionRegulatory mechanismsEpigenetic factorsExpression profilesBiological processesDifferent miRNAsConcerted controlRegulatory roleIPS cellsMiRNAsSuch regulationRegulationCellsUniting Germline and Stem Cells: The Function of Piwi Proteins and the piRNA Pathway in Diverse Organisms
Juliano C, Wang J, Lin H. Uniting Germline and Stem Cells: The Function of Piwi Proteins and the piRNA Pathway in Diverse Organisms. Annual Review Of Genetics 2011, 45: 447-469. PMID: 21942366, PMCID: PMC3832951, DOI: 10.1146/annurev-genet-110410-132541.Peer-Reviewed Original ResearchConceptsPIWI-interacting RNAsPIWI proteinsDiverse organismsStem cellsArgonaute protein familyPIWI-piRNA pathwayStem cell maintenanceSomatic stem/progenitor cellsAdult stem cellsStem/progenitor cellsPiRNA pathwayGermline specificationAnimal phylogenyGenome integrityProtein familyPosttranscriptional regulationCell maintenanceProtein bindsSomatic cellsEpigenetic programmingGermlineProgenitor cellsProteinOrganismsCommon mechanismGenome‐Wide Studies Reveal That Lin28 Enhances the Translation of Genes Important for Growth and Survival of Human Embryonic Stem Cells
Peng S, Chen L, Lei X, Yang L, Lin H, Carmichael GG, Huang Y. Genome‐Wide Studies Reveal That Lin28 Enhances the Translation of Genes Important for Growth and Survival of Human Embryonic Stem Cells. Stem Cells 2011, 29: 496-504. PMID: 21425412, DOI: 10.1002/stem.591.Peer-Reviewed Original ResearchConceptsRNA helicase AHuman embryonic stem cellsEmbryonic stem cellsLin28-dependent stimulationTranslation of genesStem cellsLet-7 microRNADominant negative inhibitorPolysome profilingGenes ImportantRibosomal proteinsCellular mRNAsTarget genesDeep sequencingReporter analysisMetabolic enzymesLin28Cell growthExpression levelsGenesTranslationCellsGrowthImmunoprecipitationMicroRNAs
2010
The Yb Body, a Major Site for Piwi-associated RNA Biogenesis and a Gateway for Piwi Expression and Transport to the Nucleus in Somatic Cells*
Qi H, Watanabe T, Ku HY, Liu N, Zhong M, Lin H. The Yb Body, a Major Site for Piwi-associated RNA Biogenesis and a Gateway for Piwi Expression and Transport to the Nucleus in Somatic Cells*. Journal Of Biological Chemistry 2010, 286: 3789-3797. PMID: 21106531, PMCID: PMC3030380, DOI: 10.1074/jbc.m110.193888.Peer-Reviewed Original ResearchConceptsYb bodiesSomatic cellsPiRNA pathwayGerm lineEndo-siRNA pathwaySomatic niche cellsTudor-like domainGonadal somatic cellsPutative RNA helicaseCo-immunoprecipitation experimentsSomatic stem cellsFlamenco locusSomatic piRNAsPiRNA biogenesisEndo-siRNAsRNA biogenesisRNA pathwaysPiwi expressionRNA helicaseNovel proteinPiwiNiche cellsMolecular basisStem cellsBiogenesisHigh-efficiency siRNA-based gene knockdown in human embryonic stem cells
Ma Y, Jin J, Dong C, Cheng EC, Lin H, Huang Y, Qiu C. High-efficiency siRNA-based gene knockdown in human embryonic stem cells. RNA 2010, 16: 2564-2569. PMID: 20978109, PMCID: PMC2995416, DOI: 10.1261/rna.2350710.Peer-Reviewed Original ResearchIdentification of Piwil2-Like (PL2L) Proteins that Promote Tumorigenesis
Ye Y, Yin DT, Chen L, Zhou Q, Shen R, He G, Yan Q, Tong Z, Issekutz AC, Shapiro CL, Barsky SH, Lin H, Li JJ, Gao JX. Identification of Piwil2-Like (PL2L) Proteins that Promote Tumorigenesis. PLOS ONE 2010, 5: e13406. PMID: 20975993, PMCID: PMC2958115, DOI: 10.1371/journal.pone.0013406.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsArgonaute ProteinsBase SequenceCell Line, TumorCell Transformation, NeoplasticDNA PrimersFemaleHumansImmunohistochemistryMaleMiceMice, Inbred C57BLNeoplasm MetastasisNeoplasmsNF-kappa BPrecancerous ConditionsProteinsProto-Oncogene Proteins c-bcl-2Reverse Transcriptase Polymerase Chain ReactionRNA InterferenceRNA, MessengerSTAT3 Transcription FactorStem CellsTransplantation, HeterologousUp-RegulationConceptsGermline stem cellsStem cellsAGO gene familyCell cycle entryPrecancerous stem cellsTumor developmentTumor cell survivalBCL2 gene expressionGene familyCycle entryGene expressionTumor cellsNF-κBCell survivalAnticancer drug developmentPIWIL2S phaseGene exonsNovel insightsProteinMouse tumor cellsCancer developmentNovel monoclonal antibodyTranscriptsTypes of humanA Drosophila Chromatin Factor Interacts With the Piwi-Interacting RNA Mechanism in Niche Cells to Regulate Germline Stem Cell Self-Renewal
Smulders-Srinivasan TK, Szakmary A, Lin H. A Drosophila Chromatin Factor Interacts With the Piwi-Interacting RNA Mechanism in Niche Cells to Regulate Germline Stem Cell Self-Renewal. Genetics 2010, 186: 573-583. PMID: 20647505, PMCID: PMC2954472, DOI: 10.1534/genetics.110.119081.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsArgonaute ProteinsChromatinChromosomal Proteins, Non-HistoneDNA-Binding ProteinsDrosophilaDrosophila ProteinsEpigenesis, GeneticFemaleGerm CellsHedgehog ProteinsMalePolycomb-Group ProteinsPolymerase Chain ReactionRepressor ProteinsRNA-Induced Silencing ComplexRNA, Small InterferingSignal TransductionStem Cell NicheStem CellsConceptsGermline stem cellsNiche cellsEpigenetic programmingStem Cell Self-RenewalEnhancer of PolycombTrithorax group genesPotential genetic interactionsCell Self-RenewalNovel epigenetic mechanismStem cellsDrosophila ovaryGSC divisionChromatin factorsNiche signalingChromatin proteinsGenetic interactionsPiwi expressionStem cell defectEpigenetic regulationPiwiEpigenetic mechanismsGroup genesRNA mechanismExpression of hedgehogSelf-Renewal