DNA, Bacterial

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  Subject Areas on Research

  • A 'Semi-Protected Oligonucleotide Recombination' Assay for DNA Mismatch Repair in vivo Suggests Different Modes of Repair for Lagging Strand Mismatches. 
  • A Bacterial Chromosome Structuring Protein Binds Overtwisted DNA to Stimulate Type II Topoisomerases and Enable DNA Replication. 
  • A case-control study of nosocomial ampicillin-resistant enterococcal infection and colonization at a university hospital. 
  • A colony color method identifies the vulnerability of mitochondria to oxidative damage. 
  • A comparison of a new rapid real-time polymerase chain reaction system to traditional culture in determining group B streptococcus colonization. 
  • A heteroduplex method for detection of targeted sub-populations of bacterial communities. 
  • A histidine protein kinase homologue required for regulation of bacterial cell division and differentiation. 
  • A methylation-dependent electrostatic switch controls DNA repair and transcriptional activation by E. coli ada. 
  • A new autocatalytic activation mechanism for cysteine proteases revealed by Prevotella intermedia interpain A. 
  • A novel relaxase homologue is involved in chromosomal DNA processing for type IV secretion in Neisseria gonorrhoeae. 
  • A novel thermostable branching enzyme from an extremely thermophilic bacterial species, Rhodothermus obamensis. 
  • A preliminary gene map for the Van der Woude syndrome critical region derived from 900 kb of genomic sequence at 1q32-q41. 
  • A role for immunogenic DNA in the pathogenesis of systemic lupus erythematosus. 
  • Actionable diagnosis of neuroleptospirosis by next-generation sequencing. 
  • Adenylate cyclase toxin (ACT) from Bordetella hinzii: characterization and differences from ACT of Bordetella pertussis. 
  • Aerobic biodegradation of organic compounds in hydraulic fracturing fluids. 
  • Amplification of bacterial 16S ribosomal DNA with polymerase chain reaction. 
  • Antagonism between Staphylococcus epidermidis and Propionibacterium acnes and its genomic basis. 
  • Antibodies to DNA: infection or genetics? 
  • Antibody responses to DNA in normal immunity and aberrant immunity. 
  • Antigens and surface components associated with virulence of Actinomyces viscosus. 
  • Arabidopsis CAND1, an unmodified CUL1-interacting protein, is involved in multiple developmental pathways controlled by ubiquitin/proteasome-mediated protein Degradation. 
  • Arabidopsis DDB1-CUL4 ASSOCIATED FACTOR1 forms a nuclear E3 ubiquitin ligase with DDB1 and CUL4 that is involved in multiple plant developmental processes. 
  • Architecture and inherent robustness of a bacterial cell-cycle control system. 
  • Arrest of replication by mammalian DNA polymerases alpha and beta caused by chromium-DNA lesions. 
  • Assessing the complex sponge microbiota: core, variable and species-specific bacterial communities in marine sponges. 
  • Assessment of soil microbial community structure by use of taxon-specific quantitative PCR assays. 
  • Association between 16S-23S internal transcribed spacer sequence groups of Mycobacterium avium complex and pulmonary disease. 
  • Atomic force microscopy captures MutS tetramers initiating DNA mismatch repair. 
  • Atomic force microscopy captures the initiation of methyl-directed DNA mismatch repair. 
  • Bacillus anthracis peptidoglycan stimulates an inflammatory response in monocytes through the p38 mitogen-activated protein kinase pathway. 
  • Bacterial DNA induces murine interferon-gamma production by stimulation of interleukin-12 and tumor necrosis factor-alpha. 
  • Bacterial plasmid partition machinery: a minimalist approach to survival. 
  • Bamboo Specialists from Two Mammalian Orders (Primates, Carnivora) Share a High Number of Low-Abundance Gut Microbes. 
  • Bartonella vinsonii subsp. berkhoffii subsp. nov., isolated from dogs; Bartonella vinsonii subsp. vinsonii; and emended description of Bartonella vinsonii. 
  • Benefits and harms of doxycycline treatment for Gulf War veterans' illnesses: a randomized, double-blind, placebo-controlled trial. 
  • Bidirectional excision in methyl-directed mismatch repair. 
  • Biological charge transfer via flickering resonance. 
  • Broad host range vectors for stable genomic library construction. 
  • Broad-range (pan) Salmonella and Salmonella serotype typhi-specific real-time PCR assays: potential tools for the clinical microbiologist. 
  • Burkholderia glumae infection in an infant with chronic granulomatous disease. 
  • Cellular requirements for anti-DNA production induced in mice by immunization with bacterial DNA. 
  • Central venous catheters coated with minocycline and rifampin for the prevention of catheter-related colonization and bloodstream infections. A randomized, double-blind trial. The Texas Medical Center Catheter Study Group. 
  • Chain-length-dependent microwave absorption of DNA. 
  • Characteristics of Rhizobium tianshanense sp. nov., a moderately and slowly growing root nodule bacterium isolated from an arid saline environment in Xinjiang, People's Republic of China. 
  • Characterization of Mycobacterium montefiorense sp. nov., a novel pathogenic Mycobacterium from moray eels that is related to Mycobacterium triplex. 
  • Characterization of antibodies to bacterial double-stranded DNA in the sera of normal human subjects. 
  • Characterization of the DNA- and metal-binding properties of Vibrio anguillarum fur reveals conservation of a structural Zn(2+) ion. 
  • Characterization of the cysJIH regions of Salmonella typhimurium and Escherichia coli B. DNA sequences of cysI and cysH and a model for the siroheme-Fe4S4 active center of sulfite reductase hemoprotein based on amino acid homology with spinach nitrite reductase. 
  • Characterization of the genetic locus encoding Haemophilus influenzae type b surface fibrils. 
  • Characterization of the multiple transferable resistance repressor, MtrR, from Neisseria gonorrhoeae. 
  • Characterization of the variable-number tandem repeats in vrrA from different Bacillus anthracis isolates. 
  • Chlamydia pneumoniae and acute chest syndrome in patients with sickle cell disease. 
  • Chlamydia pneumoniae and acute coronary syndrome. 
  • Cloning and molecular characterization of the HgiCI restriction/modification system from Herpetosiphon giganteus Hpg9 reveals high similarity to BanI. 
  • Cloning, overexpression, purification, and immunobiology of an 85-kilodalton outer membrane protein from Haemophilus ducreyi. 
  • Community structure of free-floating filamentous cyanobacterial mats from the Wonder Lake geothermal springs in the Philippines. 
  • Comparative evaluation of a new magnetic bead-based DNA extraction method from fecal samples for downstream next-generation 16S rRNA gene sequencing. 
  • Comparison of methods based on different molecular epidemiological markers for typing of Mycobacterium tuberculosis complex strains: interlaboratory study of discriminatory power and reproducibility. 
  • Comparison of seven techniques for typing international epidemic strains of Clostridium difficile: restriction endonuclease analysis, pulsed-field gel electrophoresis, PCR-ribotyping, multilocus sequence typing, multilocus variable-number tandem-repeat analysis, amplified fragment length polymorphism, and surface layer protein A gene sequence typing. 
  • Conformational changes of purine repressor DNA-binding domain upon complexation with DNA. 
  • Conservation of the chitin utilization pathway in the Vibrionaceae. 
  • Correlation of doxorubicin footprints with deletion endpoints in lacO of E. coli. 
  • Critical role of chromium (Cr)-DNA interactions in the formation of Cr-induced polymerase arresting lesions. 
  • Cryptococcus neoformans virulence gene discovery through insertional mutagenesis. 
  • Crystal structure of the lactose operon repressor and its complexes with DNA and inducer. 
  • Crystal structures of SarA, a pleiotropic regulator of virulence genes in S. aureus. 
  • Crystallization and preliminary X-ray analysis of an Escherichia coli purine repressor-hypoxanthine-DNA complex. 
  • Culture-negative prosthetic valve endocarditis with concomitant septicemia due to a nontoxigenic Corynebacterium diphtheriae biotype gravis isolate in a patient with multiple risk factors. 
  • Cyanobacterial ribosomal RNA genes with multiple, endonuclease-encoding group I introns. 
  • DNA and the immune system. 
  • DNA bending near the replication origin of IncFII plasmid NR1. 
  • DNA binds and activates complement via residues 14-26 of the human C1q A chain. 
  • DNA determinants important in sequence recognition by Eco RI endonuclease. 
  • DNA mismatch correction in a defined system. 
  • DNA nicks inflicted by restriction endonucleases are repaired by a RecA- and RecB-dependent pathway in Escherichia coli. 
  • DNA repair synthesis after x-irradiation in E. coli. 
  • DNA sequence specificity of doxorubicin-induced mutational damage in uvrB- Escherichia coli. 
  • DNA sequences of structural genes for Eco RI DNA restriction and modification enzymes. 
  • DNA synthesis in strains of Escherichia coli K12 with temperature-sensitive DNA ligase and DNA polymerase I. 
  • Decay of mutualistic potential in aphid endosymbionts through silencing of biosynthetic loci: Buchnera of Diuraphis. 
  • Deciphering the molecular basis of multidrug recognition: crystal structures of the Staphylococcus aureus multidrug binding transcription regulator QacR. 
  • Deep divergence and rapid evolutionary rates in gut-associated Acetobacteraceae of ants. 
  • Deficient expression of antibodies specific for bacterial DNA by patients with systemic lupus erythematosus. 
  • Della proteins and gibberellin-regulated seed germination and floral development in Arabidopsis. 
  • Detection and genetic characterization of diverse Bartonella genotypes in the small mammals of Singapore. 
  • Detection of Bartonella species in the blood of veterinarians and veterinary technicians: a newly recognized occupational hazard? 
  • Detection of Helicobacter pylori gastritis by PCR: correlation with inflammation scores and immunohistochemical and CLOtest findings. 
  • Detection of bacterial pathogen DNA using an integrated complementary metal oxide semiconductor microchip system with capillary array electrophoresis. 
  • Detection of culture-resistant bacterial pathogens by amplification and sequencing of ribosomal DNA. 
  • Determinations of restriction fragment length polymorphism in bacteria using ribosomal RNA genes. 
  • Development of pooled suppression subtractive hybridization to analyze the pangenome of Staphylococcus aureus. 
  • Development of resistance in Pseudomonas aeruginosa to imipenem, norfloxacin, and ciprofloxacin during therapy: proof provided by typing with a DNA probe. 
  • Differentiation of strains in Mycobacterium tuberculosis complex by DNA sequence polymorphisms, including rapid identification of M. bovis BCG. 
  • Directed evolution of a pyruvate aldolase to recognize a long chain acyl substrate. 
  • Dissimilatory sulphite reductase from Archaeoglobus fulgidus: physico-chemical properties of the enzyme and cloning, sequencing and analysis of the reductase genes. 
  • Distinct microbial communities within the endosphere and rhizosphere of Populus deltoides roots across contrasting soil types. 
  • Distinct single amino acid replacements in the control of virulence regulator protein differentially impact streptococcal pathogenesis. 
  • Diversity and detection of nitrate assimilation genes in marine bacteria. 
  • Dominant bacteria and biomass in the Kuytun 51 Glacier. 
  • Early-life skin microbiota in hospitalized preterm and full-term infants. 
  • Effect of sex on the induction of anti-DNA antibodies in normal mice immunized with bacterial DNA. 
  • Effects of bacterial DNA on cytokine production by (NZB/NZW)F1 mice. 
  • Effects of high levels of DNA adenine methylation on methyl-directed mismatch repair in Escherichia coli. 
  • Elicitation of epithelial cell-derived immune effectors by outer membrane vesicles of nontypeable Haemophilus influenzae. 
  • Emancipating Chlamydia: Advances in the Genetic Manipulation of a Recalcitrant Intracellular Pathogen. 
  • Endocarditis in a dog due to infection with a novel Bartonella subspecies. 
  • Endonuclease-independent DNA mismatch repair processes on the lagging strand. 
  • Engineering of obligate intracellular bacteria: progress, challenges and paradigms. 
  • Enhancer-origin interaction in plasmid R6K involves a DNA loop mediated by initiator protein. 
  • Environmental controls on the landscape-scale biogeography of stream bacterial communities. 
  • Enzymatic characterization of a mutant of Escherichia coli with an altered DNA ligase. 
  • Epidemiology of highly endemic multiply antibiotic-resistant shigellosis in children in the Peruvian Amazon. 
  • Epigenetic regulation of the nitrosative stress response and intracellular macrophage survival by extraintestinal pathogenic Escherichia coli. 
  • Escherichia coli K-12 clones that overproduce dam methylase are hypermutable. 
  • Escherichia coli mutS-encoded protein binds to mismatched DNA base pairs. 
  • Escherichia coli mutY gene encodes an adenine glycosylase active on G-A mispairs. 
  • Escherichia coli mutants thermosensitive for deoxyribonucleic acid gyrase subunit A: effects on deoxyribonucleic acid replication, transcription, and bacteriophage growth. 
  • Escherichia coli purine repressor: key residues for the allosteric transition between active and inactive conformations and for interdomain signaling. 
  • Evaluation of the accuracy and reproducibility of a practical PCR panel assay for rapid detection and differentiation of Mycobacterium avium subspecies. 
  • Evidence for capsule gene sequences among pharyngeal isolates of nontypeable Haemophilus influenzae. 
  • Evolutionary bottlenecks in the agents of tuberculosis, leprosy, and paratuberculosis. 
  • Examination of type IV pilus expression and pilus-associated phenotypes in Kingella kingae clinical isolates. 
  • Excision and transposition of Tn5 as an SOS activity in Escherichia coli. 
  • Excision repair reduces doxorubicin-induced genotoxicity. 
  • Extensive DNA sequence conservation throughout the Mycobacterium tuberculosis complex. 
  • Formation and resolution of DNA catenanes by DNA gyrase. 
  • Forward genetic approaches in Chlamydia trachomatis. 
  • Functions that Protect Escherichia coli from Tightly Bound DNA-Protein Complexes Created by Mutant EcoRII Methyltransferase. 
  • Gastrointestinal microbiota alteration induced by Mucor circinelloides in a murine model. 
  • Gene structure and amino acid sequences of alcohol dehydrogenases of Bacillus stearothermophilus. 
  • GeneXpert MTB/Rif to Diagnose Tuberculous Meningitis: Perhaps the First Test but not the Last. 
  • Generation of isogenic K54 capsule-deficient Escherichia coli strains through TnphoA-mediated gene disruption. 
  • Genetic analysis of susceptibility to Chlamydia trachomatis in mouse. 
  • Genetic analysis of the requirements for SOS induction by nalidixic acid in Escherichia coli. 
  • Genetic and enzymatic characterization of a conditional lethal mutant of Escherichia coli K12 with a temperature-sensitive DNA ligase. 
  • Genetic composition of the Bacillus subtilis SOS system. 
  • Genetic diversity among Mycobacterium avium complex strains recovered from children with and without human immunodeficiency virus infection. 
  • Genetic diversity in the Mycobacterium tuberculosis complex based on variable numbers of tandem DNA repeats. 
  • Genetic relatedness of Streptococcus pneumoniae isolates from paired blood and respiratory specimens. 
  • Genetic structure and DNA sequences at junctions involved in the rearrangements of Bacillus subtilis strains carrying the trpE26 mutation. 
  • Genetic variability of Bacillus anthracis and related species. 
  • Genome mapping by fluorescent fingerprinting. 
  • Genotypic characteristics of Staphylococcus aureus isolates from a multinational trial of complicated skin and skin structure infections. 
  • Genotypic diversity of anaerobic isolates from bloodstream infections. 
  • Genotypic diversity of coagulase-negative staphylococci causing endocarditis: a global perspective. 
  • Glu-111 is required for activation of the DNA cleavage center of EcoRI endonuclease. 
  • Granulomatous skin lesions in moray eels caused by a novel Mycobacterium species related to Mycobacterium triplex. 
  • Hallucinations, sensory neuropathy, and peripheral visual deficits in a young woman infected with Bartonella koehlerae. 
  • Helicobacter canis bacteremia in a patient with fever of unknown origin. 
  • Helicobacter infection decreases reproductive performance of IL10-deficient mice. 
  • High-level expression of Escherichia coli NADPH-sulfite reductase: requirement for a cloned cysG plasmid to overcome limiting siroheme cofactor. 
  • How the EcoRI endonuclease recognizes and cleaves DNA. 
  • Human colonic biota studied by ribosomal DNA sequence analysis. 
  • Hydrolysis of template and newly synthesized deoxyribonucleic acid by the 3' to 5' exonuclease activity of the T4 deoxyribonucleic acid polymerase. 
  • Hydroxyl radical footprints and half-site arrangements of binding sites for the CysB transcriptional activator of Salmonella typhimurium. 
  • Identification of a W variant outbreak of Mycobacterium tuberculosis via population-based molecular epidemiology. 
  • Identification of a region of genetic variability among Bacillus anthracis strains and related species. 
  • Identification of a second family of high-molecular-weight adhesion proteins expressed by non-typable Haemophilus influenzae. 
  • Immune activation by bacterial DNA: a new genetic code. 
  • Immune responses to DNA in normal and aberrant immunity. 
  • Immunological properties of bacterial DNA. 
  • Immunostimulatory DNA: a clear and present danger? 
  • Immunostimulatory properties of genomic DNA from different bacterial species. 
  • Impact of change to molecular testing for Clostridium difficile infection on healthcare facility-associated incidence rates. 
  • Importance of the tmRNA system for cell survival when transcription is blocked by DNA-protein cross-links. 
  • Important cellular targets for antimicrobial photodynamic therapy. 
  • In vitro inhibition of murine IFN gamma production by phosphorothioate deoxyguanosine oligomers. 
  • In-vivo studies on the cis-acting replication initiator protein of IncFII plasmid NR1. 
  • IncFII plasmid incompatibility product and its target are both RNA transcripts. 
  • Increased gut microbial translocation in HIV-infected children persists in virologic responders and virologic failures after antiretroviral therapy. 
  • Increased rectal microbial richness is associated with the presence of colorectal adenomas in humans. 
  • Indole-3-acetic acid biosynthesis is deficient in Gluconacetobacter diazotrophicus strains with mutations in cytochrome c biogenesis genes. 
  • Induction of anti-double stranded DNA antibodies in normal mice by immunization with bacterial DNA. 
  • Induction of cross-reactive anti-dsDNA antibodies in preautoimmune NZB/NZW mice by immunization with bacterial DNA. 
  • Induction of immune-mediated glomerulonephritis in normal mice immunized with bacterial DNA. 
  • Initiation of methyl-directed mismatch repair. 
  • Insight into F plasmid DNA segregation revealed by structures of SopB and SopB-DNA complexes. 
  • Instability of rRNA operons in Bacillus subtilis. 
  • Integration specificities of two lambdoid phages (21 and e14) that insert at the same attB site. 
  • Integron diversity in heavy-metal-contaminated mine tailings and inferences about integron evolution. 
  • Interaction of dihydrofolate reductase with methotrexate: ensemble and single-molecule kinetics. 
  • Interactions of VirB9, -10, and -11 with the membrane fraction of Agrobacterium tumefaciens: solubility studies provide evidence for tight associations. 
  • Interplay between DNA replication and recombination in prokaryotes. 
  • Intracellular expression of Peptide fusions for demonstration of protein essentiality in bacteria. 
  • Invasive disease caused by nontuberculous mycobacteria, Tanzania. 
  • Investigating deep phylogenetic relationships among cyanobacteria and plastids by small subunit rRNA sequence analysis. 
  • Involvement of the S-layer proteins Hpi and SlpA in the maintenance of cell envelope integrity in Deinococcus radiodurans R1. 
  • Isolation and analysis of recombinant DNA molecules containing yeast DNA. 
  • Isolation and characterization of a novel Helicobacter species, Helicobacter jaachi sp. nov., from common marmosets (Callithrix jaachus). 
  • Isolation and characterization of the Escherichia coli mutH gene product. 
  • Isolation and characterization of the Haemophilus influenzae uvrA gene. 
  • Isolation and characterization of the replicon of a Thiobacillus intermedius plasmid. 
  • Isolation and genetic structure of the AvaII isoschizomeric restriction-modification system HgiBI from Herpetosiphon giganteus Hpg5: M.HgiBI reveals high homology to M.BanI. 
  • Isolation of SOS constitutive mutants of Escherichia coli. 
  • Landscape position influences microbial composition and function via redistribution of soil water across a watershed. 
  • Left-handed DNA helices, supercoiling, and the B-Z junction. 
  • Leptotrichia endocarditis: report of two cases from the International Collaboration on Endocarditis (ICE) database and review of previous cases. 
  • Limited genetic diversity of recent invasive isolates of non-serotype b encapsulated Haemophilus influenzae. 
  • Linking patterns of net community production and marine microbial community structure in the western North Atlantic. 
  • Liposome-mediated DNA uptake and transient expression in Thermotoga. 
  • Looking for Darwin's footprints in the microbial world. 
  • Loop mediated isothermal amplification (LAMP) assay for detection of coconut root wilt disease and arecanut yellow leaf disease phytoplasma. 
  • Lung transplantation for cystic fibrosis patients with Burkholderia cepacia complex. Survival linked to genomovar type. 
  • Macroscale spatial variation in chronic wound microbiota: a cross-sectional study. 
  • Maternal periodontitis and prematurity. Part II: Maternal infection and fetal exposure. 
  • Maternal vernalization and vernalization-pathway genes influence progeny seed germination. 
  • Mating pair formation homologue TraG is a variable membrane protein essential for contact-independent type IV secretion of chromosomal DNA by Neisseria gonorrhoeae. 
  • Mechanism of corepressor-mediated specific DNA binding by the purine repressor. 
  • Mechanisms of immune stimulation by bacterial DNA. 
  • Mecillinam/clavulanate combination: a possible option for the treatment of community-acquired uncomplicated urinary tract infections caused by extended-spectrum β-lactamase-producing Escherichia coli. 
  • Methicillin-resistant Staphylococcus aureus outbreak in an intensive care nursery: potential for interinstitutional spread. 
  • Methicillin-susceptible Staphylococcus aureus endocarditis isolates are associated with clonal complex 30 genotype and a distinct repertoire of enterotoxins and adhesins. 
  • Methyl-directed DNA mismatch correction. 
  • Methyl-directed DNA mismatch repair in Escherichia coli. 
  • Methyl-directed mismatch repair is bidirectional. 
  • Microbial activity and diversity during extreme freeze-thaw cycles in periglacial soils, 5400 m elevation, Cordillera Vilcanota, Perú. 
  • Microbial community succession in an unvegetated, recently deglaciated soil. 
  • Microwave-field-driven acoustic modes in DNA. 
  • Mismatch repair and genetic stability in human cells. 
  • Mispair specificity of methyl-directed DNA mismatch correction in vitro. 
  • Modulation of MutS ATP hydrolysis by DNA cofactors. 
  • Modulation of renal disease in autoimmune NZB/NZW mice by immunization with bacterial DNA. 
  • Molecular basis for a protein-mediated DNA-bridging mechanism that functions in condensation of the E. coli chromosome. 
  • Molecular biology as a tool for taxonomy. 
  • Molecular characterization of anti-DNA antibodies induced in normal mice by immunization with bacterial DNA. Differences from spontaneous anti-DNA in the content and location of VH CDR3 arginines. 
  • Molecular characterization of mucosal adherent bacteria and associations with colorectal adenomas. 
  • Molecular detection and analysis of spotted fever group Rickettsia in patients with fever and rash at a tertiary care centre in Tamil Nadu, India. 
  • Molecular mechanism by which the nucleoid occlusion factor, SlmA, keeps cytokinesis in check. 
  • Molecular mechanisms of HipA-mediated multidrug tolerance and its neutralization by HipB. 
  • Molecular phylogeny of the Mycobacterium avium complex demonstrates clinically meaningful divisions. 
  • Molecular properties of anti-DNA induced in preautoimmune NZB/W mice by immunization with bacterial DNA. 
  • Moraxella osloensis bacteremia in a kidney transplant recipient. 
  • Multicenter evaluation of the LightCycler methicillin-resistant Staphylococcus aureus (MRSA) advanced test as a rapid method for detection of MRSA in nasal surveillance swabs. 
  • Multicenter evaluation of the Vitek 2 anaerobe and Corynebacterium identification card. 
  • Multicenter evaluation of the new Vitek 2 Neisseria-Haemophilus identification card. 
  • Multicentre surveillance of the prevalence and molecular epidemiology of macrolide resistance among pharyngeal isolates of group A streptococci in the USA. 
  • Multiple origins of high reciprocal symbiotic specificity at an intercontinental spatial scale among gelatinous lichens (Collemataceae, Lecanoromycetes). 
  • Multiplex 5' nuclease-quantitative PCR for diagnosis of relapsing fever in a large Tanzanian cohort. 
  • Multiplexed real-time polymerase chain reaction on a digital microfluidic platform. 
  • Mutation detection with MutH, MutL, and MutS mismatch repair proteins. 
  • Mutational analysis of active site residues in the Staphylococcus aureus transpeptidase SrtA. 
  • Mutations within the mepA operator affect binding of the MepR regulatory protein and its induction by MepA substrates in Staphylococcus aureus. 
  • Mycobacterial interspersed repetitive-unit-variable-number tandem-repeat analysis and Beijing/W family of Mycobacterium tuberculosis. 
  • Naturally produced outer membrane vesicles from Pseudomonas aeruginosa elicit a potent innate immune response via combined sensing of both lipopolysaccharide and protein components. 
  • Niche-specific contribution to streptococcal virulence of a MalR-regulated carbohydrate binding protein. 
  • Norfloxacin-induced DNA gyrase cleavage complexes block Escherichia coli replication forks, causing double-stranded breaks in vivo. 
  • Nucleotide sequence of a gene cluster involved in entry of E colicins and single-stranded DNA of infecting filamentous bacteriophages into Escherichia coli. 
  • Nucleotide sequence of the LYS2 gene of Saccharomyces cerevisiae: homology to Bacillus brevis tyrocidine synthetase 1. 
  • On the role of deoxyribonucleic acid polymerase in determining mutation rates. Characterization of the defect in the T4 deoxyribonucleic acid polymerase caused by the ts L88 mutation. 
  • One nutritional symbiosis begat another: phylogenetic evidence that the ant tribe Camponotini acquired Blochmannia by tending sap-feeding insects. 
  • Ovarian cycling and reproductive state shape the vaginal microbiota in wild baboons. 
  • OxyR: a molecular code for redox-related signaling. 
  • P1 partition complex assembly involves several modes of protein-DNA recognition. 
  • PCR identification of Mycobacterium bovis BCG. 
  • Parallel acceleration of evolutionary rates in symbiont genes underlying host nutrition. 
  • Partial NH2- and cooh-terminal sequence analyses of Eco RI DNA restriction and modification enzymes. 
  • Patterns of gut bacterial colonization in three primate species. 
  • Patterns of heavy and light chain utilization in the antibody response to single-stranded bacterial DNA in normal human subjects and patients with systemic lupus erythematosus. 
  • Performance of a commercial polymerase chain reaction test for endocervical Chlamydia trachomatis infection in a university hospital population. 
  • Performance of the cobas MRSA/SA Test for Simultaneous Detection of Methicillin-Susceptible and Methicillin-Resistant Staphylococcus aureus From Nasal Swabs. 
  • Persistent bacteremia due to methicillin-resistant Staphylococcus aureus infection is associated with agr dysfunction and low-level in vitro resistance to thrombin-induced platelet microbicidal protein. 
  • Phenotypic and genotypic characterization of Mycobacterium africanum isolates from West Africa. 
  • Phosphoprotein Crh-Ser46-P displays altered binding to CcpA to effect carbon catabolite regulation. 
  • Photoautotrophic symbiont and geography are major factors affecting highly structured and diverse bacterial communities in the lichen microbiome. 
  • Phylogenetic analysis identifies a 'Candidatus Phytoplasma oryzae'-related strain associated with yellow leaf disease of areca palm (Areca catechu L.) in India. 
  • Phylogeny of Wolbachia pipientis based on gltA, groEL and ftsZ gene sequences: clustering of arthropod and nematode symbionts in the F supergroup, and evidence for further diversity in the Wolbachia tree. 
  • Phylogeny of the Whipple's-disease-associated bacterium. 
  • Plant host and soil origin influence fungal and bacterial assemblages in the roots of woody plants. 
  • Plasmid models for bacteriophage T4 DNA replication: requirements for fork proteins. 
  • Plasmid pRQ7 from the hyperthermophilic bacterium Thermotoga species strain RQ7 replicates by the rolling-circle mechanism. 
  • Plasmid protein TubR uses a distinct mode of HTH-DNA binding and recruits the prokaryotic tubulin homolog TubZ to effect DNA partition. 
  • Polyphasic characterization of four soil-derived phenanthrene-degrading Acidovorax strains and proposal of Acidovorax carolinensis sp. nov. 
  • Presence of plasmid-mediated quinolone resistance in Klebsiella pneumoniae and Escherichia coli isolates possessing blaVIM-1 in Greece. 
  • Prevalence and characterization of metallo-beta-lactamases in clinical isolates of pseudomonas aeruginosa. 
  • Prevalence and distribution of adhesins in invasive non-type b encapsulated Haemophilus influenzae. 
  • Prevalence and distribution of the hmw and hia genes and the HMW and Hia adhesins among genetically diverse strains of nontypeable Haemophilus influenzae. 
  • Prochlorococcus ecotype abundances in the North Atlantic Ocean as revealed by an improved quantitative PCR method. 
  • Pulse Field Gel Electrophoresis. 
  • Rapid 16S ribosomal DNA sequencing from a single colony without DNA extraction or purification. 
  • Rapid identification of laboratory contamination with Mycobacterium tuberculosis using variable number tandem repeat analysis. 
  • Rapid mapping of deletion and duplication mutations by the polymerase chain reaction. 
  • Real-time PCR assays compared to culture-based approaches for identification of aerobic bacteria in chronic wounds. 
  • Recognition sequence of the dam methylase of Escherichia coli K12 and mode of cleavage of Dpn I endonuclease. 
  • Recurrent Staphylococcus aureus bacteremia: pulsed-field gel electrophoresis findings in 29 patients. 
  • Replication of the Escherichia coli chromosome in RNase HI-deficient cells: multiple initiation regions and fork dynamics. 
  • Requirement for d(GATC) sequences in Escherichia coli mutHLS mismatch correction. 
  • Ribosomal DNA sequence analysis of mucosa-associated bacteria in Crohn's disease. 
  • Ribosomal protein S4 acts in trans as a translational repressor to regulate expression of the alpha operon in Escherichia coli. 
  • Role of ATP in DNA synthesis in Escherichia coli. 
  • Role of the heat shock protein 90 in immune response stimulation by bacterial DNA and synthetic oligonucleotides. 
  • RsaL, a novel repressor of virulence gene expression in Pseudomonas aeruginosa. 
  • SCALEs: multiscale analysis of library enrichment. 
  • SIV-induced instability of the chimpanzee gut microbiome. 
  • Sakacin P non-producing Lactobacillus sakei strains contain homologues of the sakacin P gene cluster. 
  • Salmonella typhimurium SA host specificity system is based on deoxyribonucleic acid-adenine methylation. 
  • Segrosome structure revealed by a complex of ParR with centromere DNA. 
  • Sequence-based differentiation of strains in the Mycobacterium avium complex. 
  • Serial isolates of persistent Haemophilus influenzae in patients with chronic obstructive pulmonary disease express diminishing quantities of the HMW1 and HMW2 adhesins. 
  • Simultaneous genotyping and species identification using hybridization pattern recognition analysis of generic Mycobacterium DNA arrays. 
  • Site-specific integration of the Haemophilus influenzae bacteriophage HP1: location of the boundaries of the phage attachment site. 
  • Sliding clamp-DNA interactions are required for viability and contribute to DNA polymerase management in Escherichia coli. 
  • SlmA forms a higher-order structure on DNA that inhibits cytokinetic Z-ring formation over the nucleoid. 
  • Small genome of Candidatus Blochmannia, the bacterial endosymbiont of Camponotus, implies irreversible specialization to an intracellular lifestyle. 
  • Small genome of Candidatus Blochmannia, the bacterial endosymbiont of Camponotus, implies irreversible specialization to an intracellular lifestyle. 
  • Social networks predict gut microbiome composition in wild baboons. 
  • Specificity and immunochemical properties of antibodies to bacterial DNA in sera of normal human subjects and patients with systemic lupus erythematosus (SLE). 
  • Specificity and immunochemical properties of antibodies to bacterial DNA. 
  • Specificity of anti-DNA antibodies induced in normal mice by immunization with bacterial DNA. 
  • Specificity of antibodies to bacterial DNA in the sera of healthy human subjects and patients with systemic lupus erythematosus. 
  • Stepwise cloning and genetic organization of the seemingly unclonable HgiCII restriction-modification system from Herpetosiphon giganteus strain Hpg9, using PCR technique. 
  • Stepwise cloning and molecular characterization of the HgiDI restriction-modification system from Herpetosiphon giganteus Hpa2. 
  • Stimulation and inhibition of 1,3-bis(2-chloroethyl)-1-nitrosourea-induced strand breaks and interstrand cross-linking in Col E1 plasmid deoxyribonucleic acid by polyamines and inorganic cations. 
  • Stimulation of in vitro murine lymphocyte proliferation by bacterial DNA. 
  • Stimulation of in vitro proliferation of murine lymphocytes by synthetic oligodeoxynucleotides. 
  • Stoichiometry of binding of CysB to the cysJIH, cysK, and cysP promoter regions of Salmonella typhimurium. 
  • Structural and biochemical characterization of MepR, a multidrug binding transcription regulator of the Staphylococcus aureus multidrug efflux pump MepA. 
  • Structural basis for ADP-mediated transcriptional regulation by P1 and P7 ParA. 
  • Structural basis for cooperative DNA binding by two dimers of the multidrug-binding protein QacR. 
  • Structural basis for the differential regulation of DNA by the methionine repressor MetJ. 
  • Structural biology of bacterial multidrug resistance gene regulators. 
  • Structural comparison of the free and DNA-bound forms of the purine repressor DNA-binding domain. 
  • Structural determinants of processing and secretion of the Haemophilus influenzae hap protein. 
  • Structural mechanism of ATP-induced polymerization of the partition factor ParF: implications for DNA segregation. 
  • Structural mechanism of transcription regulation of the Staphylococcus aureus multidrug efflux operon mepRA by the MarR family repressor MepR. 
  • Structure and DNA-binding traits of the transition state regulator AbrB. 
  • Structure and functional properties of the Bacillus subtilis transcriptional repressor Rex. 
  • Structure of FitAB from Neisseria gonorrhoeae bound to DNA reveals a tetramer of toxin-antitoxin heterodimers containing pin domains and ribbon-helix-helix motifs. 
  • Structure of an OhrR-ohrA operator complex reveals the DNA binding mechanism of the MarR family. 
  • Structures and mechanisms of DNA restriction and modification enzymes. 
  • Structures of BmrR-drug complexes reveal a rigid multidrug binding pocket and transcription activation through tyrosine expulsion. 
  • Structures of ParB bound to DNA reveal mechanism of partition complex formation. 
  • Structures of carbon catabolite protein A-(HPr-Ser46-P) bound to diverse catabolite response element sites reveal the basis for high-affinity binding to degenerate DNA operators. 
  • Structures of partition protein ParA with nonspecific DNA and ParB effector reveal molecular insights into principles governing Walker-box DNA segregation. 
  • Structures of the Escherichia coli transcription activator and regulator of diauxie, XylR: an AraC DNA-binding family member with a LacI/GalR ligand-binding domain. 
  • Structures of the activator of K. pneumonia biofilm formation, MrkH, indicates PilZ domains involved in c-di-GMP and DNA binding. 
  • Structures of the nucleoid occlusion protein SlmA bound to DNA and the C-terminal domain of the cytoskeletal protein FtsZ. 
  • Studies of IscR reveal a unique mechanism for metal-dependent regulation of DNA binding specificity. 
  • Subspecific differentiation of Mycobacterium avium complex strains by automated sequencing of a region of the gene (hsp65) encoding a 65-kilodalton heat shock protein. 
  • Substrate dependence of the mechanism of EcoRI endonuclease. 
  • Substrate recognition by the EcoRI endonuclease. 
  • Sutterella wadsworthensis gen. nov., sp. nov., bile-resistant microaerophilic Campylobacter gracilis-like clinical isolates. 
  • Temperature-sensitive mutants of the EcoRI endonuclease. 
  • The C-terminal domain of the adenine-DNA glycosylase MutY confers specificity for 8-oxoguanine.adenine mispairs and may have evolved from MutT, an 8-oxo-dGTPase. 
  • The GroES antigens of Mycobacterium avium and Mycobacterium paratuberculosis. 
  • The MerR-like protein BldC binds DNA direct repeats as cooperative multimers to regulate Streptomyces development. 
  • The MetJ regulon in gammaproteobacteria determined by comparative genomics methods. 
  • The antibody response of normal mice to immunization with single-stranded DNA of various species origin. 
  • The antigenic properties of bacterial DNA in normal and aberrant immunity. 
  • The binding of sera of patients with SLE to bacterial and mammalian DNA. 
  • The conformations of the manganese transport regulator of Bacillus subtilis in its metal-free state. 
  • The crystal structure of the TetR family transcriptional repressor SimR bound to DNA and the role of a flexible N-terminal extension in minor groove binding. 
  • The cysP promoter of Salmonella typhimurium: characterization of two binding sites for CysB protein, studies of in vivo transcription initiation, and demonstration of the anti-inducer effects of thiosulfate. 
  • The earliest stages of ecosystem succession in high-elevation (5000 metres above sea level), recently deglaciated soils. 
  • The effect of polyamines on the binding of anti-DNA antibodies from patients with SLE and normal human subjects. 
  • The fine specificity of monoclonal anti-DNA antibodies induced in normal mice by immunization with bacterial DNA. 
  • The immunologic properties of DNA. 
  • The importance of repairing stalled replication forks. 
  • The influence of DNA size on the binding of antibodies to DNA in the sera of normal human subjects and patients with systemic lupus erythematosus (SLE). 
  • The kinetic mechanism of EcoRI endonuclease. 
  • The negative charge of Glu-111 is required to activate the cleavage center of EcoRI endonuclease. 
  • The prevalence and clinical significance of Chlamydia infection in island and mainland populations of Victorian koalas (Phascolarctos cinereus). 
  • The role of bacterial DNA in autoantibody induction. 
  • The role of innate immunity in the induction of autoimmunity. 
  • The role of the macrophage scavenger receptor in immune stimulation by bacterial DNA and synthetic oligonucleotides. 
  • The spatial factor, rather than elevated CO₂, controls the soil bacterial community in a temperate Forest Ecosystem. 
  • The structure of a high fidelity DNA polymerase bound to a mismatched nucleotide reveals an "ajar" intermediate conformation in the nucleotide selection mechanism. 
  • The use of a polymerase chain reaction as a diagnostic test for Rocky Mountain spotted fever. 
  • Thermodynamic evaluation of binding interactions in the methionine repressor system of Escherichia coli using isothermal titration calorimetry. 
  • Tigecycline therapy for carbapenem-resistant Klebsiella pneumoniae (CRKP) bacteriuria leads to tigecycline resistance. 
  • Tn5-mediated bleomycin resistance in Escherichia coli requires the expression of host genes. 
  • Transmission of MRSA between companion animals and infected human patients presenting to outpatient medical care facilities. 
  • Transmission of methicillin-resistant Staphylococcus aureus between human and hamster. 
  • Treponema pallidum infection in the wild baboons of East Africa: distribution and genetic characterization of the strains responsible. 
  • Tropheryma whippelii DNA is rare in the intestinal mucosa of patients without other evidence of Whipple disease. 
  • Two tRNA gene clusters associated with rRNA operons rrnD and rrnE in Bacillus subtilis. 
  • Uncoupling of nucleotide hydrolysis and polymerization in the ParA protein superfamily disrupts DNA segregation dynamics. 
  • Urinary bacteria in adult women with urgency urinary incontinence. 
  • Use of 16S ribosomal RNA gene analyses to characterize the bacterial signature associated with poor oral health in West Virginia. 
  • Vibrio metoecus sp. nov., a close relative of Vibrio cholerae isolated from coastal brackish ponds and clinical specimens. 
  • Visualizing DNA replication in a catalytically active Bacillus DNA polymerase crystal. 
  • Water quality at points-of-use in the Galapagos Islands. 
  • Watershed urbanization alters the composition and function of stream bacterial communities. 
  • Whipple's arthritis: direct detection of Tropheryma whippelii in synovial fluid and tissue. 
  • Whole genome re-sequencing to identify suppressor mutations of mutant and foreign Escherichia coli FtsZ. 
  • Whole genome sequencing identifies circulating Beijing-lineage Mycobacterium tuberculosis strains in Guatemala and an associated urban outbreak. 
  • lac repressor blocks in vivo transcription of lac control region DNA. 
• 

  Keywords of People

  • Cunningham, Coleen Kathryn, Professor of Pediatrics, Pathology
  • Erickson, Harold Paul, James B. Duke Professor of Cell Biology, Biomedical Engineering
  • Gottlin, Elizabeth B., Assistant Professor in Radiology, Radiology
  • Shinohara, Mari L., Associate Professor of Immunology, Immunology
  • Zhang, Zhiquan, Assistant Professor in Anesthesiology, Anesthesiology