Published in J Clin Microbiol on August 17, 2011
When whole-genome alignments just won't work: kSNP v2 software for alignment-free SNP discovery and phylogenetics of hundreds of microbial genomes. PLoS One (2013) 2.92
Pathotype and genetic diversity amongst Indian isolates of Xanthomonas oryzae pv. oryzae. PLoS One (2013) 0.90
Using complete genome comparisons to identify sequences whose presence accurately predicts clinically important phenotypes. PLoS One (2013) 0.88
Limited Sexual Reproduction and Quick Turnover in the Population Genetic Structure of Phytophthora infestans in Fujian, China. Sci Rep (2015) 0.83
Evaluation of ERIC-PCR as genotyping method for Corynebacterium pseudotuberculosis isolates. PLoS One (2014) 0.83
Clustering acinetobacter strains by optical mapping. Genome Biol Evol (2013) 0.81
Corynebacterium pseudotuberculosis may be under anagenesis and biovar Equi forms biovar Ovis: a phylogenic inference from sequence and structural analysis. BMC Microbiol (2016) 0.77
Not seeing the forest for the trees: size of the minimum spanning trees (MSTs) forest and branch significance in MST-based phylogenetic analysis. PLoS One (2015) 0.76
Characterisation of Clostridium difficile strains isolated from Groote Schuur Hospital, Cape Town, South Africa. Eur J Clin Microbiol Infect Dis (2016) 0.76
Genetic diversity of Brucella ovis isolates from Rio Grande do Sul, Brazil, by MLVA16. BMC Res Notes (2014) 0.75
Toxin A-negative toxin B-positive ribotype 017 Clostridium difficile is the dominant strain type in patients with diarrhoea attending tuberculosis hospitals in Cape Town, South Africa. Eur J Clin Microbiol Infect Dis (2016) 0.75
MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics (2003) 130.85
Arlequin (version 3.0): an integrated software package for population genetics data analysis. Evol Bioinform Online (2007) 54.21
eBURST: inferring patterns of evolutionary descent among clusters of related bacterial genotypes from multilocus sequence typing data. J Bacteriol (2004) 17.92
Inference of population structure using multilocus genotype data: dominant markers and null alleles. Mol Ecol Notes (2007) 10.11
Frequent emergence and limited geographic dispersal of methicillin-resistant Staphylococcus aureus. Proc Natl Acad Sci U S A (2008) 3.52
Using allele frequencies and geographic subdivision to reconstruct gene trees within a species: molecular variance parsimony. Genetics (1994) 3.16
Usefulness of multilocus sequence typing for characterization of clinical isolates of Candida albicans. J Clin Microbiol (2002) 3.01
Geographic uniformity of the Lyme disease spirochete (Borrelia burgdorferi) and its shared history with tick vector (Ixodes scapularis) in the Northeastern United States. Genetics (2002) 2.92
Multiple-locus variable-number tandem repeat analysis of Dutch Bordetella pertussis strains reveals rapid genetic changes with clonal expansion during the late 1990s. J Bacteriol (2004) 2.58
Molecular epidemiology of pneumococci obtained from Gambian children aged 2-29 months with invasive pneumococcal disease during a trial of a 9-valent pneumococcal conjugate vaccine. BMC Infect Dis (2008) 1.43
Mechanisms of tandem repeat instability in bacteria. Mutat Res (2006) 1.23
Use of the minimum spanning tree model for molecular epidemiological investigation of a nosocomial outbreak of hepatitis C virus infection. J Clin Microbiol (2004) 1.19
Reconstruction of the Sudden Oak Death epidemic in California through microsatellite analysis of the pathogen Phytophthora ramorum. Mol Ecol (2008) 1.09
Molecular epidemiologic investigation of Campylobacter coli in swine production systems, using multilocus sequence typing. Appl Environ Microbiol (2006) 1.08
Genetic diversity of human isolates of Mycobacterium bovis assessed by spoligotyping and Variable Number Tandem Repeat genotyping. Infect Genet Evol (2010) 0.96
Spoligotype-based comparative population structure analysis of multidrug-resistant and isoniazid-monoresistant Mycobacterium tuberculosis complex clinical isolates in Poland. J Clin Microbiol (2010) 0.94
Phylogeographical and molecular characterization of an emerging Mycobacterium tuberculosis clone in Trinidad and Tobago. Infect Genet Evol (2009) 0.92
Genetic epidemiology of the sudden oak death pathogen Phytophthora ramorum in California. Mol Ecol (2009) 0.92
Predicting evolutionary potential: in vitro evolution accurately reproduces natural evolution of the tem beta-lactamase. Genetics (2002) 1.95
Origin and evolution of the AmpC beta-lactamases of Citrobacter freundii. Antimicrob Agents Chemother (2002) 1.75
Phylogenetic analysis shows that the OXA beta-lactamase genes have been on plasmids for millions of years. J Mol Evol (2002) 1.43
Experimental prediction of the evolution of cefepime resistance from the CMY-2 AmpC beta-lactamase. Genetics (2003) 1.29
Revised Ambler classification of {beta}-lactamases. J Antimicrob Chemother (2005) 1.27
Experimental prediction of the natural evolution of antibiotic resistance. Genetics (2003) 1.21
Comparative genomic analyses of 17 clinical isolates of Gardnerella vaginalis provide evidence of multiple genetically isolated clades consistent with subspeciation into genovars. J Bacteriol (2012) 1.13
Comparative supragenomic analyses among the pathogens Staphylococcus aureus, Streptococcus pneumoniae, and Haemophilus influenzae using a modification of the finite supragenome model. BMC Genomics (2011) 1.11
Structure-based phylogeny of the metallo-beta-lactamases. Antimicrob Agents Chemother (2005) 1.00
Determining the limits of the evolutionary potential of an antibiotic resistance gene. Mol Biol Evol (2003) 0.98
GeneHunter, a transposon tool for identification and isolation of cryptic antibiotic resistance genes. Antimicrob Agents Chemother (2003) 0.95
Designing antibiotic cycling strategies by determining and understanding local adaptive landscapes. PLoS One (2013) 0.94
Remembrances of Walter M. Fitch. Mol Biol Evol (2011) 0.83
Retraction: Measures of clade confidence do not correlate with accuracy of phylogenetic trees. PLoS Comput Biol (2007) 0.79
Towards the molecular epidemiology of Mycobacterium leprae: strategies, successes, and shortcomings. Infect Genet Evol (2011) 0.78
A Mycobacterium leprae VNTR database. Lepr Rev (2010) 0.78
α-Galacturonidase(s): a new class of Family 4 glycoside hydrolases with strict specificity and a unique CHEV active site motif. FEBS Lett (2013) 0.77