Related references
Note: Only part of the references are listed.Antibacterial antibodies gain traction
Chris Morrison
NATURE REVIEWS DRUG DISCOVERY (2015)
Transmission and Microevolution of USA300 MRSA in US Households: Evidence from Whole-Genome Sequencing
Md Tauqeer Alam et al.
MBIO (2015)
Model-driven discovery of synergistic inhibitors against E-coli and S-enterica serovar Typhimurium targeting a novel synthetic lethal pair, aldA and prpC
Ramy K. Aziz et al.
FRONTIERS IN MICROBIOLOGY (2015)
Use of Adaptive Laboratory Evolution To Discover Key Mutations Enabling Rapid Growth of Escherichia coli K-12 MG1655 on Glucose Minimal Medium
Ryan A. LaCroix et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2015)
InParanoid 8: orthology analysis between 273 proteomes, mostly eukaryotic
Erik L. L. Sonnhammer et al.
NUCLEIC ACIDS RESEARCH (2015)
Comparisons of Shewanella strains based on genome annotations, modeling, and experiments
Wai Kit Ong et al.
BMC SYSTEMS BIOLOGY (2014)
DuctApe: A suite for the analysis and correlation of genomic and OmniLog (TM) Phenotype Microarray data
Marco Galardini et al.
GENOMICS (2014)
Predicting the Minimal Translation Apparatus: Lessons from the Reductive Evolution of Mollicutes
Henri Grosjean et al.
PLOS GENETICS (2014)
Novel Organization of the Arginine Catabolic Mobile Element and Staphylococcal Cassette Chromosome mec Composite Island and Its Horizontal Transfer between Distinct Staphylococcus aureus Genotypes
Artur J. Sabat et al.
ANTIMICROBIAL AGENTS AND CHEMOTHERAPY (2013)
MetaNetX.org: a website and repository for accessing, analysing and manipulating metabolic networks
Mathias Ganter et al.
BIOINFORMATICS (2013)
COBRApy: COnstraints-Based Reconstruction and Analysis for Python
Ali Ebrahim et al.
BMC SYSTEMS BIOLOGY (2013)
Functional Modularity of the Arginine Catabolic Mobile Element Contributes to the Success of USA300 Methicillin-Resistant Staphylococcus aureus
Lance R. Thurlow et al.
CELL HOST & MICROBE (2013)
Ribosome heterogeneity: another level of complexity in bacterial translation regulation
Konstantin Byrgazov et al.
CURRENT OPINION IN MICROBIOLOGY (2013)
Evolution of Pan-Genomes of Escherichia coli, Shigella spp., and Salmonella enterica
Evgeny N. Gordienko et al.
JOURNAL OF BACTERIOLOGY (2013)
Genome-scale metabolic reconstructions of multiple Escherichia coli strains highlight strain-specific adaptations to nutritional environments
Jonathan M. Monk et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2013)
Emergence of the Epidemic Methicillin-Resistant Staphylococcus aureus Strain USA300 Coincides with Horizontal Transfer of the Arginine Catabolic Mobile Element and speG-mediated Adaptations for Survival on Skin
Paul J. Planet et al.
MBIO (2013)
Estimating variation within the genes and inferring the phylogeny of 186 sequenced diverse Escherichia coli genomes
Rolf S. Kaas et al.
BMC GENOMICS (2012)
The distribution of plasmids that carry virulence and resistance genes in Staphylococcus aureus is lineage associated
Alex J. McCarthy et al.
BMC MICROBIOLOGY (2012)
Inactivation of Ribosomal Protein Genes in Bacillus subtilis Reveals Importance of Each Ribosomal Protein for Cell Proliferation and Cell Differentiation
Genki Akanuma et al.
JOURNAL OF BACTERIOLOGY (2012)
Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods
Nathan E. Lewis et al.
NATURE REVIEWS MICROBIOLOGY (2012)
VFDB 2012 update: toward the genetic diversity and molecular evolution of bacterial virulence factors
Lihong Chen et al.
NUCLEIC ACIDS RESEARCH (2012)
KEGG for integration and interpretation of large-scale molecular data sets
Minoru Kanehisa et al.
NUCLEIC ACIDS RESEARCH (2012)
Phylogenomics of Prokaryotic Ribosomal Proteins
Natalya Yutin et al.
PLOS ONE (2012)
Evolutionary blueprint for host- and niche-adaptation in Staphylococcus aureus clonal complex CC30
Martin J. McGavin et al.
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY (2012)
Predictors of Clinical Virulence in Community-Onset Methicillin-Resistant Staphylococcus aureus Infections: The Importance of USA300 and Pneumonia
Bala Hota et al.
CLINICAL INFECTIOUS DISEASES (2011)
A Very Early-Branching Staphylococcus aureus Lineage Lacking the Carotenoid Pigment Staphyloxanthin
Deborah C. Holt et al.
GENOME BIOLOGY AND EVOLUTION (2011)
High prevalence of the arginine catabolic mobile element in carriage isolates of methicillin-resistant Staphylococcus epidermidis
Francois Barbier et al.
JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY (2011)
Systematic Chromosomal Deletion of Bacterial Ribosomal Protein Genes
Shinichiro Shoji et al.
JOURNAL OF MOLECULAR BIOLOGY (2011)
A comprehensive genome-scale reconstruction of Escherichia coli metabolism-2011
Jeffrey D. Orth et al.
MOLECULAR SYSTEMS BIOLOGY (2011)
Molecular differentiation of historic phage-type 80/81 and contemporary epidemic Staphylococcus aureus
Frank R. DeLeo et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2011)
BiGG: a Biochemical Genetic and Genomic knowledgebase of large scale metabolic reconstructions
Jan Schellenberger et al.
BMC BIOINFORMATICS (2010)
Nutritional immunity beyond iron: a role for manganese and zinc
Thomas E. Kehl-Fie et al.
CURRENT OPINION IN CHEMICAL BIOLOGY (2010)
Molecular epidemiology of community-associated meticillin-resistant Staphylococcus aureus in Europe
Jonathan A. Otter et al.
LANCET INFECTIOUS DISEASES (2010)
Ribosome rescue by Escherichia coli ArfA (YhdL) in the absence of trans-translation system
Yuhei Chadani et al.
MOLECULAR MICROBIOLOGY (2010)
High-throughput generation, optimization and analysis of genome-scale metabolic models
Christopher S. Henry et al.
NATURE BIOTECHNOLOGY (2010)
What is flux balance analysis?
Jeffrey D. Orth et al.
NATURE BIOTECHNOLOGY (2010)
A protocol for generating a high-quality genome-scale metabolic reconstruction
Ines Thiele et al.
NATURE PROTOCOLS (2010)
Pan-genome analysis provides much higher strain typing resolution than multi-locus sequence typing
Barry G. Hall et al.
MICROBIOLOGY-SGM (2010)
The NCBI BioSystems database
Lewis Y. Geer et al.
NUCLEIC ACIDS RESEARCH (2010)
Analysis of Ultra Low Genome Conservation in Clostridium difficile
Joy Scaria et al.
PLOS ONE (2010)
A type III-like restriction endonuclease functions as a major barrier to horizontal gene transfer in clinical Staphylococcus aureus strains
Anna R. Corvaglia et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2010)
Comprehensive identification of essential Staphylococcus aureus genes using Transposon-Mediated Differential Hybridisation (TMDH)
Roy R. Chaudhuri et al.
BMC GENOMICS (2009)
Comparative Genome-Scale Metabolic Reconstruction and Flux Balance Analysis of Multiple Staphylococcus aureus Genomes Identify Novel Antimicrobial Drug Targets
Deok-Sun Lee et al.
JOURNAL OF BACTERIOLOGY (2009)
Reclassification of Staphylococcus aureus Nasal Carriage Types
Alex van Belkum et al.
JOURNAL OF INFECTIOUS DISEASES (2009)
Reconstruction of biochemical networks in microorganisms
Adam M. Feist et al.
NATURE REVIEWS MICROBIOLOGY (2009)
Waves of resistance: Staphylococcus aureus in the antibiotic era
Henry F. Chambers et al.
NATURE REVIEWS MICROBIOLOGY (2009)
GenBank
Dennis A. Benson et al.
NUCLEIC ACIDS RESEARCH (2009)
Evaluation of genomic island predictors using a comparative genomics approach
Morgan G. I. Langille et al.
BMC BIOINFORMATICS (2008)
Comparative genomics: the bacterial pan-genome
Herve Tettelin et al.
CURRENT OPINION IN MICROBIOLOGY (2008)
Gene content of LUCA, the last universal common ancestor
Arcady Mushegian
FRONTIERS IN BIOSCIENCE-LANDMARK (2008)
Role of Staphylococcus aureus catalase in niche competition against Streptococcus pneumoniae
Bonggoo Park et al.
JOURNAL OF BACTERIOLOGY (2008)
The pangenome structure of Escherichia coli:: Comparative genomic analysis of E-coli commensal and pathogenic isolates
David A. Rasko et al.
JOURNAL OF BACTERIOLOGY (2008)
Epidemic community-associated methicillin-resistant Staphylococcus aureus:: Recent clonal expansion and diversification
Adam D. Kennedy et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2008)
Horizontal gene transfer and the evolution of transcriptional regulation in Escherichia coli
Morgan N. Price et al.
GENOME BIOLOGY (2008)
The MetaCyc Database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases
Ron Caspi et al.
NUCLEIC ACIDS RESEARCH (2008)
Invasive methicillin-resistant Staphylococcus aureus infections in the United States
R. Monina Klevens et al.
JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION (2007)
Genome-scale reconstruction of metabolic network in Bacillus subtilis based on high-throughput phenotyping and gene essentiality data
You-Kwan Oh et al.
JOURNAL OF BIOLOGICAL CHEMISTRY (2007)
Staphylococcus aureus Biofilm metabolism and the influence of arginine on polysaccharide intercellular adhesin synthesis, 14 Biofilm formation, and pathogenesis
Yefei Zhu et al.
INFECTION AND IMMUNITY (2007)
Understanding how leading bacterial pathogens subvert innate immunity to reveal novel therapeutic targets
Victor Nizet
JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY (2007)
Staphylococcus aureus strains that are hypersusceptible to resistance gene transfer from enterococci
Julia M-L Sung et al.
ANTIMICROBIAL AGENTS AND CHEMOTHERAPY (2007)
Polyamine effects on antibiotic susceptibility in bacteria
Dong-Hyeon Kwon et al.
ANTIMICROBIAL AGENTS AND CHEMOTHERAPY (2007)
Epidemiologic distribution of the arginine catabolic mobile element among selected methicillin-resistant and methicillin-susceptible Staphylococcus aureus isolates
Richard V. Goering et al.
JOURNAL OF CLINICAL MICROBIOLOGY (2007)
Essentiality of ribosomal and transcription antitermination proteins analyzed by systematic gene replacement in Escherichia coli
Mikhail Bubunenko et al.
JOURNAL OF BACTERIOLOGY (2007)
Systems approach to refining genome annotation
Jennifer L. Reed et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2006)
Score-based prediction of genomic islands in prokaryotic genomes using hidden Markov models
Stephan Waack et al.
BMC BIOINFORMATICS (2006)
Toward automatic reconstruction of a highly resolved tree of life
FD Ciccarelli et al.
SCIENCE (2006)
Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection
Tomoya Baba et al.
MOLECULAR SYSTEMS BIOLOGY (2006)
In silico genome-scale reconstruction and validation of the Staphylococcus aureus metabolic network
M Heinemann et al.
BIOTECHNOLOGY AND BIOENGINEERING (2005)
The microbial pan-genome
D Medini et al.
CURRENT OPINION IN GENETICS & DEVELOPMENT (2005)
How essential are nonessential genes?
G Fang et al.
MOLECULAR BIOLOGY AND EVOLUTION (2005)
Genome-scale reconstruction of the metabolic network in Staphylococcus aureus N315: an initial draft to the two-dimensional annotation
SA Becker et al.
BMC MICROBIOLOGY (2005)
Inparanoid: a comprehensive database of eukaryotic orthologs
KP O'Brien et al.
NUCLEIC ACIDS RESEARCH (2005)
A high-throughput screening of genes that encode proteins transported into the endoplasmic reticulum in mammalian cells
T Ozawa et al.
NUCLEIC ACIDS RESEARCH (2005)
SIGI: score-based identification of genomic islands
R Merkl
BMC BIOINFORMATICS (2004)
Genetic analysis of a high-level vancomycin-resistant isolate of Staphylococcus aureus
LM Weigel et al.
SCIENCE (2003)
The COG database: an updated version includes eukaryotes
RL Tatusov et al.
BMC BIOINFORMATICS (2003)
How clonal is Staphylococcus aureus?
EJ Feil et al.
JOURNAL OF BACTERIOLOGY (2003)
RNA processing and degradation in Bacillus subtilis
C Condon
MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS (2003)
Essential Bacillus subtilis genes
K Kobayashi et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2003)
Algorithms for computing parsimonious evolutionary scenarios for genome evolution, the last universal common ancestor and dominance of horizontal gene transfer in the evolution of prokaryotes
BG Mirkin et al.
BMC EVOLUTIONARY BIOLOGY (2003)
Comparative genomics, minimal gene-sets and the last universal common ancestor
EV Koonin
NATURE REVIEWS MICROBIOLOGY (2003)
Comparative analysis of ribosomal proteins in complete genomes: an example of reductive evolution at the domain scale
O Lecompte et al.
NUCLEIC ACIDS RESEARCH (2002)
The evolutionary history of methicillin-resistant Staphylococcus aureus (MRSA)
MC Enright et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2002)
Evolutionary genomics of Staphylococcus aureus:: Insights into the origin of methicillin-resistant strains and the toxic shock syndrome epidemic
JR Fitzgerald et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2001)
KEGG: Kyoto Encyclopedia of Genes and Genomes
M Kanehisa et al.
NUCLEIC ACIDS RESEARCH (2000)
Share Paper
