2024
Disruption of the bacterial OLE RNP complex impairs growth on alternative carbon sources
Lyon S, Wencker F, Fernando C, Harris K, Breaker R. Disruption of the bacterial OLE RNP complex impairs growth on alternative carbon sources. PNAS Nexus 2024, 3: pgae075. PMID: 38415217, PMCID: PMC10898510, DOI: 10.1093/pnasnexus/pgae075.Peer-Reviewed Original ResearchRNP complexesMinimal mediumWild-type cellsAlternative carbon sourcesUnfavorable growth conditionsOLE RNASuppressor selectionDiverse stressesCarbon/energy sourceProtein secretionCarbon sourceGenetic disruptionCellular adaptationNoncoding RNAsFunctional linkRNAGrowth conditionsRibonucleoproteinImpaired growthPhosphate homeostasisFundamental processesHomeostasisShort-chain alcoholsElevated MgCarbon/energy
2006
Single-cell proteomic analysis of S. cerevisiae reveals the architecture of biological noise
Newman JR, Ghaemmaghami S, Ihmels J, Breslow DK, Noble M, DeRisi JL, Weissman JS. Single-cell proteomic analysis of S. cerevisiae reveals the architecture of biological noise. Nature 2006, 441: 840-846. PMID: 16699522, DOI: 10.1038/nature04785.Peer-Reviewed Original ResearchConceptsSingle-cell proteomic analysisBiological noiseSingle-cell resolutionProtein abundance measurementsDNA microarray analysisProtein noise levelsSingle-cell dataHigh-throughput flow cytometryProtein-specific differencesProteomic analysisS. cerevisiaeMinimal mediumProtein abundanceMicroarray analysisCellular behaviorCellular responsesProtein synthesisMessenger RNAEnvironmental changesProtein modesProtein levelsProtein expressionFlow cytometryDetailed viewRemarkable structure
2002
Bayesian analysis of gene expression levels: statistical quantification of relative mRNA level across multiple strains or treatments
Townsend JP, Hartl DL. Bayesian analysis of gene expression levels: statistical quantification of relative mRNA level across multiple strains or treatments. Genome Biology 2002, 3: research0071.1. PMID: 12537560, PMCID: PMC151173, DOI: 10.1186/gb-2002-3-12-research0071.Peer-Reviewed Original ResearchMeSH KeywordsBayes TheoremDNA-Binding ProteinsEthanolGene DeletionGene Expression ProfilingGene Expression Regulation, FungalGenotypeModels, GeneticNuclear ProteinsOligonucleotide Array Sequence AnalysisRNA, FungalRNA, MessengerSaccharomyces cerevisiae ProteinsSpecies SpecificityTranscription FactorsZincConceptsGene of interestExpression levelsGene expression levelsTwofold thresholdGene basisTranscriptional responseMicroarray comparisonsMinimal mediumExpression differencesBiological insightsMicroarray analysisEthanol shockMicroarray dataRelative mRNA levelsGenesMRNA levelsMultiple strainsBayesian analysisDevelopmental state
1999
Salmonella typhimurium Encodes a Putative Iron Transport System within the Centisome 63 Pathogenicity Island
Zhou D, Hardt W, Galán J. Salmonella typhimurium Encodes a Putative Iron Transport System within the Centisome 63 Pathogenicity Island. Infection And Immunity 1999, 67: 1974-1981. PMID: 10085045, PMCID: PMC96555, DOI: 10.1128/iai.67.4.1974-1981.1999.Peer-Reviewed Original ResearchConceptsIron transport systemPathogenicity islandGrowth defectMinimal mediumPutative periplasmic binding proteinFur-dependent mannerPutative iron transport systemApparent growth defectS. typhimurium chromosomePeriplasmic binding proteinATP-binding proteinIron uptake systemOpen reading frameWild-type S. typhimuriumIron-restricted environmentNucleotide compositionPutative permeasesTransport systemExtensive homologyABC transportersReading frameSalmonella typhimuriumVirulence phenotypesUptake systemBinding protein
1984
Method for determining whether a gene of Escherichia coli is essential: application to the polA gene
Joyce C, Grindley N. Method for determining whether a gene of Escherichia coli is essential: application to the polA gene. Journal Of Bacteriology 1984, 158: 636-643. PMID: 6233260, PMCID: PMC215477, DOI: 10.1128/jb.158.2.636-643.1984.Peer-Reviewed Original ResearchConceptsPolA geneTarget genesRich mediumEscherichia coliPhage lambda vectorTarget lociBacterial chromosomeHomologous recombinationPhysical mapProphage excisionDNA segmentsMinimal mediumAntibiotic resistance genesPolymerase 3Recombinational eventsLambda vectorGenesResistance genesChromosomal deletionsDeletionFunctional fragmentsExonucleaseMarked deletionPhagesPresence of plasmids
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