2008
Evolution and Dynamics of Regulatory Architectures Controlling Polymyxin B Resistance in Enteric Bacteria
Mitrophanov AY, Jewett MW, Hadley TJ, Groisman EA. Evolution and Dynamics of Regulatory Architectures Controlling Polymyxin B Resistance in Enteric Bacteria. PLOS Genetics 2008, 4: e1000233. PMID: 18949034, PMCID: PMC2565834, DOI: 10.1371/journal.pgen.1000233.Peer-Reviewed Original ResearchConceptsRegulatory architectureComplex genetic networksDirect transcriptional controlEnteric bacteriaPolymyxin B resistanceEvolutionary historyTranscriptional controlGenetic networksRegulatory proteinsRegulatory pathwaysCellular responsesStructural modulesIndirect regulationRapid activationB resistanceExpression levelsMRNA expression levelsAntibiotic polymyxin BRegulation circuitBacteriaInducible resistanceFunctional propertiesProteinSystem postTransitional stage
2006
An RNA Sensor for Intracellular Mg2+
Cromie MJ, Shi Y, Latifi T, Groisman EA. An RNA Sensor for Intracellular Mg2+. Cell 2006, 125: 71-84. PMID: 16615891, DOI: 10.1016/j.cell.2006.01.043.Peer-Reviewed Original ResearchMeSH Keywords5' Untranslated RegionsAdenosine TriphosphatasesBacterial ProteinsBiosensing TechniquesConserved SequenceCytoplasmGene Expression Regulation, BacterialMagnesiumMembrane Transport ProteinsModels, GeneticMutationNucleic Acid ConformationOpen Reading FramesPhylogenyPromoter Regions, GeneticRegulatory Sequences, Nucleic AcidRibonucleasesRNA, BacterialRNA, MessengerTerminator Regions, GeneticTranscription, GeneticConceptsMost RNA moleculesDifferent cellular compartmentsStem-loop structureOnly protein componentSalmonella enterica serovar TyphimuriumDifferent stem-loop structuresTransporter MgtAMgtA geneEnterica serovar TyphimuriumMgtA transcriptionRNA polymeraseCellular compartmentsGene transcriptionRNA moleculesTranscription systemUntranslated regionProtein componentsTranscriptionRNA sensorsEnzymatic propertiesSerovar TyphimuriumMgtACytoplasmicDisparate stepsSingular exampleA Mg2+-responding RNA That Controls the Expression of a Mg2+ Transporter
GROISMAN EA, CROMIE MJ, SHI Y, LATIFI T. A Mg2+-responding RNA That Controls the Expression of a Mg2+ Transporter. Cold Spring Harbor Symposia On Quantitative Biology 2006, 71: 251-258. PMID: 17381304, DOI: 10.1101/sqb.2006.71.005.Peer-Reviewed Original ResearchConceptsDifferent cellular compartmentsAbundant divalent cationPhoP/PhoQStem-loop structureDifferent stem-loop structuresSensor PhoQTransporter MgtAMgtA geneMgtA transcriptionCellular compartmentsGene transcriptionTranscriptionPhoPPhoQMgtATransportersDisparate stepsBiological systemsDivalent cationsAdditional Mg2Singular exampleExpressionEnzymatic reactionsRiboswitchCytoplasmic Mg2
1999
The SPI-3 Pathogenicity Island ofSalmonella enterica
Blanc-Potard A, Solomon F, Kayser J, Groisman E. The SPI-3 Pathogenicity Island ofSalmonella enterica. Journal Of Bacteriology 1999, 181: 998-1004. PMID: 9922266, PMCID: PMC93469, DOI: 10.1128/jb.181.3.998-1004.1999.Peer-Reviewed Original ResearchMeSH KeywordsAdenosine TriphosphatasesAdhesins, Escherichia coliAmino Acid SequenceBacterial ProteinsBase CompositionCarrier ProteinsCation Transport ProteinsChromosomes, BacterialDNA PrimersDNA-Binding ProteinsEscherichia coliEvolution, MolecularMolecular Sequence DataMultigene FamilyOpen Reading FramesOperonPhylogenyPolymerase Chain ReactionRNA, BacterialRNA, TransferSalmonella entericaSequence AlignmentTranscription FactorsTranscription, GeneticVibrio choleraeVirulenceConceptsOpen reading framePathogenicity islandReading framePathogen-specific virulence genesSubspecies of SalmonellaFour-gene clusterMolecular genetic structureSalmonella enterica serovar TyphimuriumGenetic structureTranscriptional unitsChromosomal clustersEnterica serovar TyphimuriumTRNA locusSequence similaritySalmonella genomeRegulatory proteinsEnteropathogenic Escherichia coliSPI-3Escherichia coliSerovar TyphimuriumInsertion sequenceVibrio choleraeVirulence genesMultistep processSubspecies
1997
How Salmonella became a pathogen
Groisman E, Ochman H. How Salmonella became a pathogen. Trends In Microbiology 1997, 5: 343-349. PMID: 9294889, DOI: 10.1016/s0966-842x(97)01099-8.Peer-Reviewed Original Research
1996
Distribution of pathogenicity islands in Salmonella spp
Ochman H, Groisman EA. Distribution of pathogenicity islands in Salmonella spp. Infection And Immunity 1996, 64: 5410-5412. PMID: 8945597, PMCID: PMC174539, DOI: 10.1128/iai.64.12.5410-5412.1996.Peer-Reviewed Original Research
1995
The evolution off invasion by enteric bacteria
Ochman H, Groisman EA. The evolution off invasion by enteric bacteria. Canadian Journal Of Microbiology 1995, 41: 555-561. PMID: 7641138, DOI: 10.1139/m95-074.Peer-Reviewed Original ResearchMeSH KeywordsAntigens, BacterialEnterobacteriaceaeGenes, BacterialMultigene FamilyPhylogenyVirulenceConceptsPhylogenetic distributionGenomic locationPlant pathogensDivergent pathogensSecretory pathwayVirulence proteinsGene complexHost rangeHost cellsSimilar machineryEnteric bacteriaPathogensProteinDisease pathologyEnteric pathogensMachineryBacteriaPathwayShigella sppSppAnalogous structuresSequenceInvasionCellsComplexes
1994
The origin and evolution of species differences in Escherichia coli and Salmonella typhimurium
Ochman H, Groisman EA. The origin and evolution of species differences in Escherichia coli and Salmonella typhimurium. EXS 1994, 69: 479-493. PMID: 7994120, DOI: 10.1007/978-3-0348-7527-1_27.Peer-Reviewed Original ResearchConceptsSpecies-specific sequencesSalmonella chromosomeEscherichia coliCodon usage patternsOpen reading frameHost epithelial cellsCommon ancestorMap positionPhenotypic charactersReading frameBase compositionHorizontal transferSalmonella typhimuriumMutant strainGenetic differencesEnteric speciesBacterial speciesGenomePoint mutationsPhenotypic characteristicsSpeciesCorresponding regionChromosomesSpecies differencesEpithelial cells
1993
Molecular, functional, and evolutionary analysis of sequences specific to Salmonella.
Groisman EA, Sturmoski MA, Solomon FR, Lin R, Ochman H. Molecular, functional, and evolutionary analysis of sequences specific to Salmonella. Proceedings Of The National Academy Of Sciences Of The United States Of America 1993, 90: 1033-1037. PMID: 8430070, PMCID: PMC45805, DOI: 10.1073/pnas.90.3.1033.Peer-Reviewed Original ResearchConceptsAtypical base compositionIndependent evolutionary eventsPhenotypic characteristicsOpen reading frameLac gene fusionsWild-type parentLysR familyEvolutionary eventsDeletion strainEvolutionary analysisTranscriptional regulatorsReading frameSalmonella genomeNucleotide sequenceBase compositionHorizontal transferDNA fragmentsGene fusionsBacterial speciesEnteric bacteriaStructural similaritySpeciesVirulenceSequenceUnprecedented array
1992
Horizontal transfer of a phosphatase gene as evidence for mosaic structure of the Salmonella genome.
Groisman EA, Saier MH, Ochman H. Horizontal transfer of a phosphatase gene as evidence for mosaic structure of the Salmonella genome. The EMBO Journal 1992, 11: 1309-1316. PMID: 1339343, PMCID: PMC556579, DOI: 10.1002/j.1460-2075.1992.tb05175.x.Peer-Reviewed Original ResearchMeSH KeywordsAcid PhosphataseAmino Acid SequenceBase CompositionBase SequenceChromosomes, BacterialCloning, MolecularCodonDNAEscherichia coliGenes, BacterialGenome, BacterialMolecular Sequence DataMosaicismPhylogenyPlasmidsRestriction MappingSalmonella typhimuriumSequence Homology, Nucleic AcidTransfectionConceptsBase compositionPhoN geneNon-specific acid phosphatase activityAtypical base compositionSpacing of genesOverall base compositionNon-specific acid phosphataseCodon usage patternsGram-negative speciesChromosome sizeBacterial genomesPhosphatase geneKb regionSalmonella chromosomeSalmonella genomeGenetic basisHorizontal transferAcid phosphatase activityTrinucleotide frequenciesHigh similarityGenomeGenesEscherichia coliPhosphatase activityOriT region