Featured Publications
Retroviruses use CD169-mediated trans-infection of permissive lymphocytes to establish infection
Sewald X, Ladinsky MS, Uchil PD, Beloor J, Pi R, Herrmann C, Motamedi N, Murooka TT, Brehm MA, Greiner DL, Shultz LD, Mempel TR, Bjorkman PJ, Kumar P, Mothes W. Retroviruses use CD169-mediated trans-infection of permissive lymphocytes to establish infection. Science 2015, 350: 563-567. PMID: 26429886, PMCID: PMC4651917, DOI: 10.1126/science.aab2749.Peer-Reviewed Original ResearchConceptsHuman immunodeficiency virusLymph nodesMurine leukemia virusCD169/SiglecSecondary lymphoid tissuesPermissive lymphocytesDendritic cellsImmunodeficiency virusSynaptic contactsLymphoid tissueRobust infectionVirological synapsesI-type lectinsRetroviral spreadViral spreadUninfected cellsInfectionLeukemia virusVirusMacrophagesCellsRetrovirusesCell-cell contactCD169LymphocytesTRIM E3 Ligases Interfere with Early and Late Stages of the Retroviral Life Cycle
Uchil PD, Quinlan BD, Chan WT, Luna JM, Mothes W. TRIM E3 Ligases Interfere with Early and Late Stages of the Retroviral Life Cycle. PLOS Pathogens 2008, 4: e16. PMID: 18248090, PMCID: PMC2222954, DOI: 10.1371/journal.ppat.0040016.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsAnti-Retroviral AgentsApoptosisAvian leukosis virusCell SurvivalGag Gene Products, Human Immunodeficiency VirusGene Expression Regulation, ViralGene SilencingHeLa CellsHIVHost-Pathogen InteractionsHumansLeukemia Virus, MurineMiceRetroviridaeUbiquitin-Protein LigasesVirus ReplicationConceptsHuman immunodeficiency virus-1Viral life cycleMurine leukemia virusAvian leukosis virusImmunodeficiency virus-1Antiretroviral activityHIV entryTRIM proteinsAntiviral activityLater stagesVirus 1TRIM11Virus releaseViral releaseLeukemia virusRetroviral life cycleHEK293 cellsLeukosis virusVirusComprehensive screenReleaseCellsProtein
2019
Introducing Genes into Cultured Mammalian Cells
Kumar P, Nagarajan A, Uchil PD. Introducing Genes into Cultured Mammalian Cells. Cold Spring Harbor Protocols 2019, 2019: pdb.top095406. PMID: 31285274, DOI: 10.1101/pdb.top095406.Peer-Reviewed Original ResearchDNA Transfection by Electroporation.
Kumar P, Nagarajan A, Uchil PD. DNA Transfection by Electroporation. Cold Spring Harbor Protocols 2019, 2019: pdb.prot095471. PMID: 31262956, DOI: 10.1101/pdb.prot095471.Peer-Reviewed Original ResearchDNA Transfection Mediated by Cationic Lipid Reagents
Kumar P, Nagarajan A, Uchil PD. DNA Transfection Mediated by Cationic Lipid Reagents. Cold Spring Harbor Protocols 2019, 2019: pdb.prot095414. PMID: 30824617, DOI: 10.1101/pdb.prot095414.Peer-Reviewed Original ResearchConceptsCell typesSpecific cell typesCationic lipid reagentsSuspension cell typesDNA transfectionLiposomal transfection reagentTransfection procedureCell linesLipid reagentsFuGENE 6Transfection reagentPresence of serumLipofectamine 2000Number of manipulationsGeneralistsTransfectionAlternative protocolManipulationCellsMost adherentLipofectin
2018
Optical Transfection.
Kumar P, Nagarajan A, Uchil PD. Optical Transfection. Cold Spring Harbor Protocols 2018, 2018: pdb.top096222. PMID: 30510131, DOI: 10.1101/pdb.top096222.Peer-Reviewed Original ResearchSelective Agents for Stable Transfection.
Kumar P, Nagarajan A, Uchil PD. Selective Agents for Stable Transfection. Cold Spring Harbor Protocols 2018, 2018: pdb.top096230. PMID: 30181228, DOI: 10.1101/pdb.top096230.Peer-Reviewed Original ResearchAnalysis of Cell Viability by the Lactate Dehydrogenase Assay.
Kumar P, Nagarajan A, Uchil PD. Analysis of Cell Viability by the Lactate Dehydrogenase Assay. Cold Spring Harbor Protocols 2018, 2018: pdb.prot095497. PMID: 29858337, DOI: 10.1101/pdb.prot095497.Peer-Reviewed Original ResearchConceptsCytoplasmic enzymePlasma membraneConversion of lactateLactate dehydrogenase assayLactate dehydrogenaseCellular damageYellow tetrazolium saltCell viabilityAmount of LDHDehydrogenase assayEnzymeCellsNADHTetrazolium saltCell culture supernatantsCulture supernatantsLDH activityAmount of formazanApoptosisDehydrogenaseMembraneActivityAssaysAnalysis of Cell Viability by the MTT Assay.
Kumar P, Nagarajan A, Uchil PD. Analysis of Cell Viability by the MTT Assay. Cold Spring Harbor Protocols 2018, 2018: pdb.prot095505. PMID: 29858338, DOI: 10.1101/pdb.prot095505.Peer-Reviewed Original ResearchConceptsInsoluble purple formazanMitochondrial reductaseCell stressCell deathLive cellsDirect cell deathConversion of substrateMetabolic activityCell viabilityPurple formazanViability assaysNonadherent cellsPlate formatCellsAssaysMTT assayMTTChromogenic productSensitive assayReductaseToxic agentsPopular assayFormazanViabilityLarge changes
2017
Assay for β-Galactosidase in Extracts of Mammalian Cells.
Uchil PD, Nagarajan A, Kumar P. Assay for β-Galactosidase in Extracts of Mammalian Cells. Cold Spring Harbor Protocols 2017, 2017: pdb.prot095778. PMID: 28974657, DOI: 10.1101/pdb.prot095778.Peer-Reviewed Original Research
2015
HIV cell-to-cell transmission: effects on pathogenesis and antiretroviral therapy
Agosto LM, Uchil PD, Mothes W. HIV cell-to-cell transmission: effects on pathogenesis and antiretroviral therapy. Trends In Microbiology 2015, 23: 289-295. PMID: 25766144, PMCID: PMC4417442, DOI: 10.1016/j.tim.2015.02.003.Peer-Reviewed Original ResearchConceptsAntiretroviral therapyVirological synapsesT-cell depletionCell transmissionHIV infectionCell depletionHIV cellMatter of debateViral replicationTherapyUninfected cellsReduced efficacyHigh MOISynapsesHIVPathogenesisRecent dataInfectionCell deathTrigger cell deathCellsVivoCell-cell contactCellular surveillanceHigher number
2011
Targeted Disruption of the CCR5 Gene in Human Hematopoietic Stem Cells Stimulated by Peptide Nucleic Acids
Schleifman EB, Bindra R, Leif J, del Campo J, Rogers FA, Uchil P, Kutsch O, Shultz LD, Kumar P, Greiner DL, Glazer PM. Targeted Disruption of the CCR5 Gene in Human Hematopoietic Stem Cells Stimulated by Peptide Nucleic Acids. Cell Chemical Biology 2011, 18: 1189-1198. PMID: 21944757, PMCID: PMC3183429, DOI: 10.1016/j.chembiol.2011.07.010.Peer-Reviewed Original ResearchConceptsHematopoietic stem cellsHIV-1CCR5 geneHIV-1-infected individualsHIV-1 infectionGene modificationHIV-1 entryCCR5-Delta32 mutationImmune system functionStem cellsCCR5 knockoutMonths posttransplantationChemokine receptorsHuman hematopoietic stem cellsTherapeutic strategiesSubsequent engraftmentGenome modificationProtein levelsHuman cellsTargeted disruptionCCR5Peptide nucleic acidInfectionNucleic acidsCells
2008
Retroviruses Human Immunodeficiency Virus and Murine Leukemia Virus Are Enriched in Phosphoinositides
Chan R, Uchil PD, Jin J, Shui G, Ott DE, Mothes W, Wenk MR. Retroviruses Human Immunodeficiency Virus and Murine Leukemia Virus Are Enriched in Phosphoinositides. Journal Of Virology 2008, 82: 11228-11238. PMID: 18799574, PMCID: PMC2573248, DOI: 10.1128/jvi.00981-08.Peer-Reviewed Original ResearchConceptsPlasma membraneMurine leukemia virusHIV-1 buddingLipid contentLeukemia virusMass spectrometry analysisCholesterol-rich regionsOverall lipid contentCell peripheryMutant virionsLipid envelopeTotal lipid contentPhosphorylated derivativesSpectrometry analysisPhosphoinositideRetrovirusesMembraneCellsMatrix domainParticle releaseHuman immunodeficiency virus type 1Immunodeficiency virus type 1VirusVirus type 1PhosphatidylinositolRNA interference screen for human genes associated with West Nile virus infection
Krishnan MN, Ng A, Sukumaran B, Gilfoy FD, Uchil PD, Sultana H, Brass AL, Adametz R, Tsui M, Qian F, Montgomery RR, Lev S, Mason PW, Koski RA, Elledge SJ, Xavier RJ, Agaisse H, Fikrig E. RNA interference screen for human genes associated with West Nile virus infection. Nature 2008, 455: 242-245. PMID: 18690214, PMCID: PMC3136529, DOI: 10.1038/nature07207.Peer-Reviewed Original ResearchMeSH KeywordsComputational BiologyDengue VirusEndoplasmic ReticulumGene Expression ProfilingGenome, HumanHeLa CellsHIVHumansImmunityMonocarboxylic Acid TransportersMuscle ProteinsProtein BindingRNA InterferenceUbiquitinationUbiquitin-Protein LigasesVesiculovirusVirus ReplicationWest Nile FeverWest Nile virus
2005
Viral entry: a detour through multivesicular bodies
Uchil P, Mothes W. Viral entry: a detour through multivesicular bodies. Nature Cell Biology 2005, 7: 641-642. PMID: 15990891, DOI: 10.1038/ncb0705-641.Peer-Reviewed Original Research