2023
The viral packaging motor potentiates Kaposi’s sarcoma-associated herpesvirus gene expression late in infection
McCollum C, Didychuk A, Liu D, Murray-Nerger L, Cristea I, Glaunsinger B. The viral packaging motor potentiates Kaposi’s sarcoma-associated herpesvirus gene expression late in infection. PLOS Pathogens 2023, 19: e1011163. PMID: 37068108, PMCID: PMC10138851, DOI: 10.1371/journal.ppat.1011163.Peer-Reviewed Original ResearchConceptsKaposi's sarcoma-associated herpesvirusGene expressionViral transcriptionKSHV gene expressionCellular RNA polymerasesHerpesvirus gene expressionTranscriptional activator proteinViral DNA packaging motorsPotential gene expressionTranscriptional activation complexLate gene expressionDNA packaging motorRNA polymeraseProximity labelingHost transcriptionSiRNA screenSarcoma-associated herpesvirusLate genesTranscription complexLate proteinsCatalytic subunitActivator proteinPackaging motorORF29Viral packaging
2022
DNA processing by the Kaposi's sarcoma-associated herpesvirus alkaline exonuclease SOX contributes to viral gene expression and infectious virion production
Hartenian E, Mendez A, Didychuk A, Khosla S, Glaunsinger B. DNA processing by the Kaposi's sarcoma-associated herpesvirus alkaline exonuclease SOX contributes to viral gene expression and infectious virion production. Nucleic Acids Research 2022, 51: 182-197. PMID: 36537232, PMCID: PMC9841436, DOI: 10.1093/nar/gkac1190.Peer-Reviewed Original ResearchConceptsKaposi's sarcoma-associated herpesvirusAlkaline exonucleaseInfectious virion productionViral gene expressionDNA processingStructure-guided functional analysesGene expressionDNA substrate preferenceVirion productionKingdoms of lifeCleavage of mRNAGammaherpesvirus Kaposi's sarcoma-associated herpesvirusViral DNA processingLifecycles of virusesBacteriophage LSoxS mutantFunctional conservationGenome replicationGenetic conservationSarcoma-associated herpesvirusPhage LSubstrate preferenceDNA bindingHuman gammaherpesviruses Kaposi's sarcoma-associated herpesvirusSOX activityA Two-tiered functional screen identifies herpesviral transcriptional modifiers and their essential domains
Morgens D, Nandakumar D, Didychuk A, Yang K, Glaunsinger B. A Two-tiered functional screen identifies herpesviral transcriptional modifiers and their essential domains. PLOS Pathogens 2022, 18: e1010236. PMID: 35041709, PMCID: PMC8797222, DOI: 10.1371/journal.ppat.1010236.Peer-Reviewed Original ResearchConceptsViral DNA replicationKaposi's sarcoma-associated herpesvirusViral genomeDsDNA virusesLate genesDNA replicationTranscriptional activityViral sequencesViral transcriptional activityCatalytic domainIndividual mutantsSgRNA librarySarcoma-associated herpesvirusTiling screensDNA bindingDeep sequencingBase pairsFunctional screeningCut sitePooled screeningTranscriptional modifiersDNA virusesGenomeEssential domainsGene expression
2018
The life of U6 small nuclear RNA, from cradle to grave
Didychuk A, Butcher S, Brow D. The life of U6 small nuclear RNA, from cradle to grave. RNA 2018, 24: 437-460. PMID: 29367453, PMCID: PMC5855946, DOI: 10.1261/rna.065136.117.Peer-Reviewed Original ResearchConceptsU6 small nuclear RNASmall nuclear RNAPre-mRNANuclear RNAProcess of RNA splicingCatalyzes intron removalEukaryotic gene expressionPre-mRNA substrateUridine-rich small nuclear RNAsRemoval of intronsPrecursor messenger RNACryo-EM structureSplicing cycleNoncoding transcriptsCatalytic coreProtein partnersRNA splicingIntron removalSplice siteGenetic dataMacromolecular machinesSpliceosomeGene expressionSplicingConformational changes