| scholarly article | Q13442814 |
| P50 | author | Claire Chewapreecha | Q56796221 |
| Josephine M Bryant | Q56815996 | ||
| Stephen D Bentley | Q87466237 | ||
| P2860 | cites work | Salmonella bongori provides insights into the evolution of the Salmonellae | Q21131414 |
| Citrobacter rodentium is an unstable pathogen showing evidence of significant genomic flux | Q21131422 | ||
| The early stage of bacterial genome-reductive evolution in the host | Q21131555 | ||
| The CRISPRdb database and tools to display CRISPRs and to generate dictionaries of spacers and repeats | Q21284230 | ||
| The Minimal Gene Complement of Mycoplasma genitalium | Q22065573 | ||
| Repetitive DNA and next-generation sequencing: computational challenges and solutions | Q22122001 | ||
| Environments shape the nucleotide composition of genomes | Q24489465 | ||
| Accelerated evolution and Muller's rachet in endosymbiotic bacteria | Q24568178 | ||
| Evolutionary dynamics of Clostridium difficile over short and long time scales | Q24622076 | ||
| Second-order selection for evolvability in a large Escherichia coli population | Q24635911 | ||
| Nucleotide sequence of the iap gene, responsible for alkaline phosphatase isozyme conversion in Escherichia coli, and identification of the gene product | Q24679073 | ||
| The genome sequence of Brucella pinnipedialis B2/94 sheds light on the evolutionary history of the genus Brucella | Q27496555 | ||
| Comparative genomics of the bacterial genus Listeria: Genome evolution is characterized by limited gene acquisition and limited gene loss | Q27496585 | ||
| Whole-genome random sequencing and assembly of Haemophilus influenzae Rd | Q27860765 | ||
| Continuing evolution of Burkholderia mallei through genome reduction and large-scale rearrangements | Q28277593 | ||
| Comparisons of dN/dS are time dependent for closely related bacterial genomes | Q28278192 | ||
| The population dynamics and control of tuberculosis | Q28282446 | ||
| Rapid evolution of virulence and drug resistance in the emerging zoonotic pathogen Streptococcus suis | Q28475752 | ||
| Whole genome sequencing and complete genetic analysis reveals novel pathways to glycopeptide resistance in Staphylococcus aureus | Q28478770 | ||
| Calibrating bacterial evolution | Q28776463 | ||
| CRISPR/Cas, the immune system of bacteria and archaea | Q29614423 | ||
| Evolution of MRSA during hospital transmission and intercontinental spread | Q29615141 | ||
| Genetic adaptation by Pseudomonas aeruginosa to the airways of cystic fibrosis patients | Q29615301 | ||
| Rapid pneumococcal evolution in response to clinical interventions | Q29616646 | ||
| CRISPR interference: RNA-directed adaptive immunity in bacteria and archaea | Q29617488 | ||
| Evidence for time dependency of molecular rate estimates | Q29618705 | ||
| Evidence for several waves of global transmission in the seventh cholera pandemic | Q30406370 | ||
| Detection of recombination events in bacterial genomes from large population samples | Q30409108 | ||
| Parallel bacterial evolution within multiple patients identifies candidate pathogenicity genes. | Q30426714 | ||
| Genome assembly forensics: finding the elusive mis-assembly | Q30482123 | ||
| Phylogenomic analysis of natural selection pressure in Streptococcus genomes | Q30833778 | ||
| Phylogeographic reconstruction of a bacterial species with high levels of lateral gene transfer | Q30891438 | ||
| Evidence that mutation is universally biased towards AT in bacteria | Q30989309 | ||
| Evolution of competence and DNA uptake specificity in the Pasteurellaceae. | Q33260272 | ||
| Bayesian modeling of recombination events in bacterial populations | Q33374425 | ||
| Co-evolution of genomes and plasmids within Chlamydia trachomatis and the emergence in Sweden of a new variant strain | Q33449883 | ||
| Tracking insertion mutants within libraries by deep sequencing and a genome-wide screen for Haemophilus genes required in the lung | Q33508764 | ||
| Short-term signatures of evolutionary change in the Salmonella enterica serovar typhimurium 14028 genome | Q33586060 | ||
| Evolutionary microbial genomics: insights into bacterial host adaptation | Q33592109 | ||
| Identification, variation and transcription of pneumococcal repeat sequences | Q33824198 | ||
| Assessing the benefits of using mate-pairs to resolve repeats in de novo short-read prokaryotic assemblies | Q33870636 | ||
| Deletional bias and the evolution of bacterial genomes | Q33955011 | ||
| Recombination and population structure in Salmonella enterica. | Q33987523 | ||
| Simultaneous assay of every Salmonella Typhi gene using one million transposon mutants | Q34019749 | ||
| Selection in coastal Synechococcus (cyanobacteria) populations evaluated from environmental metagenomes | Q34023328 | ||
| The rate of synonymous substitution in enterobacterial genes is inversely related to codon usage bias | Q34049602 | ||
| A universal TagModule collection for parallel genetic analysis of microorganisms | Q34058413 | ||
| Gene decay in Shigella as an incipient stage of host-adaptation | Q34081810 | ||
| The CRISPR system: small RNA-guided defense in bacteria and archaea | Q34096589 | ||
| Diversity of CRISPR loci in Escherichia coli | Q34096997 | ||
| Microbial minimalism: genome reduction in bacterial pathogens | Q34118332 | ||
| The phage-related chromosomal islands of Gram-positive bacteria. | Q34126277 | ||
| Behavior and target site selection of conjugative transposon Tn916 in two different strains of toxigenic Clostridium difficile | Q34135544 | ||
| Comparative analysis of the genome sequences of Bordetella pertussis, Bordetella parapertussis and Bordetella bronchiseptica | Q34221221 | ||
| A set of lacZ mutations in Escherichia coli that allow rapid detection of each of the six base substitutions | Q34290231 | ||
| Bacterial virulence: can we draw the line? | Q34303616 | ||
| Diversity and mobility of integrative and conjugative elements in bovine isolates of Streptococcus agalactiae, S. dysgalactiae subsp. dysgalactiae, and S. uberis | Q34432185 | ||
| Genome-scale identification of resistance functions in Pseudomonas aeruginosa using Tn-seq | Q34504913 | ||
| Heterogeneity of Tn5253-like composite elements in clinical Streptococcus pneumoniae isolates | Q34737570 | ||
| Use of whole genome sequencing to estimate the mutation rate of Mycobacterium tuberculosis during latent infection | Q35006626 | ||
| Flagellar phase variation in Salmonella enterica is mediated by a posttranscriptional control mechanism | Q35021032 | ||
| Limitations of next-generation genome sequence assembly | Q35047159 | ||
| Neutral mutations and neutral substitutions in bacterial genomes | Q35209355 | ||
| Impact of small repeat sequences on bacterial genome evolution. | Q35253340 | ||
| Targeted bacterial immunity buffers phage diversity | Q35274944 | ||
| Whole-genome sequencing of rifampicin-resistant Mycobacterium tuberculosis strains identifies compensatory mutations in RNA polymerase genes. | Q35635595 | ||
| Population structure in the Neisseria, and the biological significance of fuzzy species | Q35954300 | ||
| A novel non-homologous recombination-mediated mechanism for Escherichia coli unilateral flagellar phase variation | Q36044816 | ||
| Evolutionary paths to antibiotic resistance under dynamically sustained drug selection | Q36500996 | ||
| The impact of the neisserial DNA uptake sequences on genome evolution and stability | Q36678612 | ||
| Whole-genome mutational biases in bacteria | Q36976728 | ||
| High frequency of hotspot mutations in core genes of Escherichia coli due to short-term positive selection. | Q37282428 | ||
| Use of high throughput sequencing to observe genome dynamics at a single cell level | Q37469631 | ||
| Rapidly evolving genes in pathogens: methods for detecting positive selection and examples among fungi, bacteria, viruses and protists | Q37482440 | ||
| Genome flexibility in Neisseria meningitidis | Q37499451 | ||
| Computational methods for discovering structural variation with next-generation sequencing | Q37618538 | ||
| Genome structural variation discovery and genotyping | Q37848057 | ||
| Antibiotic and antiseptic resistance genes are linked on a novel mobile genetic element: Tn6087. | Q38390674 | ||
| Genetic diversity of Tn916-related transposons among drug-resistant Streptococcus pneumoniae isolates colonizing healthy children in Venezuela | Q38627345 | ||
| Molecular mechanisms of tetracycline and macrolide resistance and emm characterization of Streptococcus pyogenes isolates in Tunisia | Q39080582 | ||
| Transfer of TN916-like elements in microcosm dental plaques. | Q39478656 | ||
| Natural transfer of conjugative transposon Tn916 between gram-positive and gram-negative bacteria | Q39938325 | ||
| The competitive cost of antibiotic resistance in Mycobacterium tuberculosis | Q40311130 | ||
| Tn2009, a Tn916-like element containing mef(E) in Streptococcus pneumoniae | Q40882823 | ||
| Whole-Genome Sequencing of Sordaria macrospora Mutants Identifies Developmental Genes | Q41435196 | ||
| Antagonistic coevolution accelerates molecular evolution | Q41813977 | ||
| Population genomics of early events in the ecological differentiation of bacteria. | Q42136525 | ||
| New functional identity for the DNA uptake sequence in transformation and its presence in transcriptional terminators | Q42845597 | ||
| Diversity of the tetracycline resistance gene tet(M) and identification of Tn916- and Tn5801-like (Tn6014) transposons in Staphylococcus aureus from humans and animals | Q44803731 | ||
| Molecular diversity and transferability of the tetracycline resistance gene tet(M), carried on Tn916-1545 family transposons, in enterococci from a total food chain. | Q46067992 | ||
| Identification of Tn5397-like and Tn916-like transposons and diversity of the tetracycline resistance gene tet(M) in enterococci from humans, pigs and poultry | Q48094921 | ||
| Hyper-recombination, diversity, and antibiotic resistance in pneumococcus. | Q51821002 | ||
| Transcription profile of Thermus thermophilus CRISPR systems after phage infection. | Q52422306 | ||
| Molecular evolution as predicted by natural selection. | Q53853033 | ||
| Enterococcus faecalis from patients with chronic periodontitis: virulence and antimicrobial resistance traits and determinants | Q84325788 | ||
| P433 | issue | 11 | |
| P921 | main subject | bacterial evolution | Q115395667 |
| P1104 | number of pages | 14 | |
| P304 | page(s) | 1283-1296 | |
| P577 | publication date | 2012-11-01 | |
| P1433 | published in | Future Microbiology | Q15759961 |
| P1476 | title | Developing insights into the mechanisms of evolution of bacterial pathogens from whole-genome sequences | |
| P478 | volume | 7 |
| Q39051351 | A brief primer on genomic epidemiology: lessons learned from Mycobacterium tuberculosis. |
| Q39510305 | A profile-based method for identifying functional divergence of orthologous genes in bacterial genomes. |
| Q48336744 | Adaptation of genetically monomorphic bacteria: evolution of copper resistance through multiple horizontal gene transfers of complex and versatile mobile genetic elements. |
| Q92974374 | Bartonella gene transfer agent: Evolution, function, and proposed role in host adaptation |
| Q88988565 | Characterization, phylogenetic distribution and evolutionary trajectories of diverse hydrocarbon degrading microorganisms isolated from refinery sludge |
| Q28355754 | Comparative Genomics of H. pylori and Non-Pylori Helicobacter Species to Identify New Regions Associated with Its Pathogenicity and Adaptability |
| Q59335718 | Comparative genomic and functional analyses of four sequenced Bacillus cereus genomes reveal conservation of genes relevant to plant-growth-promoting traits |
| Q52368463 | Comparative genomics of Mycobacterium reveals evolutionary trends of M. avium complex. |
| Q50028007 | Comparative genomics shows Mycobacterium ulcerans migration and expansion has preceded the rise of Buruli ulcer in south-eastern Australia. |
| Q38120560 | Copy number change: evolving views on gene amplification. |
| Q55709851 | Emergence of Resistance to Colistin During the Treatment of Bloodstream Infection Caused by Klebsiella pneumoniae Carbapenemase-Producing Klebsiella pneumoniae. |
| Q47135274 | Environmental Burkholderia cenocepacia Strain Enhances Fitness by Serial Passages during Long-Term Chronic Airways Infection in Mice |
| Q52580362 | Evolution of Genome Architecture in Archaea: Spontaneous Generation of a New Chromosome in Haloferax volcanii. |
| Q57154621 | Evolutionary Emergence of Drug Resistance in Candida Opportunistic Pathogens |
| Q35865998 | Functional Analysis of Porphyromonas gingivalis W83 CRISPR-Cas Systems. |
| Q47795238 | Gene Duplication in Pseudomonas aeruginosa Improves Growth on Adenosine |
| Q34424565 | Genetic Diversity of Tick-Borne Rickettsial Pathogens; Insights Gained from Distant Strains |
| Q54229654 | Genetic exchange and reassignment in Porphyromonas gingivalis. |
| Q42370912 | Genetic plasticity of the Shigella virulence plasmid is mediated by intra- and inter-molecular events between insertion sequences |
| Q40700459 | Genome Structural Diversity among 31 Bordetella pertussis Isolates from Two Recent U.S. Whooping Cough Statewide Epidemics |
| Q44508072 | Genome-wide screening of pathogenicity islands in Mycobacterium tuberculosis based on the genomic barcode visualization |
| Q35598365 | Identification and functional analysis of genome mutations in a fluoride-resistant Streptococcus mutans strain |
| Q42063741 | Insight into the evolution of Vibrio vulnificus biotype 3's genome |
| Q49497963 | Investigation of the Role of Genes Encoding Zinc Exporters zntA, zitB, and fieF during Salmonella Typhimurium Infection |
| Q45345601 | Key Metabolites and Mechanistic Changes for Salt Tolerance in an Experimentally Evolved Sulfate-Reducing Bacterium, Desulfovibrio vulgaris. |
| Q36051105 | Local transmission and global dissemination of New Delhi Metallo-Beta-Lactamase (NDM): a whole genome analysis. |
| Q38437227 | Mechanisms and impact of genetic recombination in the evolution of Streptococcus pneumoniae |
| Q38642072 | Multi-omics Analysis Sheds Light on the Evolution and the Intracellular Lifestyle Strategies of Spotted Fever Group Rickettsia spp. |
| Q35023934 | Multilocus sequence analysis of xanthomonads causing bacterial spot of tomato and pepper plants reveals strains generated by recombination among species and recent global spread of Xanthomonas gardneri |
| Q57802938 | Prophage-driven genomic structural changes promote Bartonella vertical evolution |
| Q89750624 | Sub-lethal Concentrations of Phytochemicals (Carvacrol and Oregano) Select for Reduced Susceptibility Mutants of Escherichia coli O23:H52 |
| Q92850072 | Synteny footprints provide clearer phylogenetic signal than sequence data for prokaryotic classification |
| Q30393531 | Tackling Drug Resistant Infection Outbreaks of Global Pandemic Escherichia coli ST131 Using Evolutionary and Epidemiological Genomics |
| Q54208415 | The membrane transporter PotE is required for virulence in avian pathogenic Escherichia coli (APEC). |
| Q37231213 | Whole-genome sequencing in bacteriology: state of the art. |
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