Two New Rapid SNP-Typing Methods for Classifying Mycobacterium tuberculosis Complex into the Main Phylogenetic Lineages

Unipro UGENE: a unified bioinformatics toolkit

(2012) Konstantin Okonechnikov et al.   BIOINFORMATICS

SITVITWEB – A publicly available international multimarker database for studying Mycobacterium tuberculosis genetic diversity and molecular epidemiology

(2012) Christophe Demay et al.   INFECTION GENETICS AND EVOLUTION

Human cerebral malaria and Plasmodium falciparum genotypes in Malawi

(2012) Danny A Milner et al.   MALARIA JOURNAL

Single-Nucleotide Polymorphism Genotyping Identifies a Locally Endemic Clone of Methicillin-Resistant Staphylococcus aureus

(2012) Ulrich Nübel et al.   PLoS One

The Genome of Mycobacterium Africanum West African 2 Reveals a Lineage-Specific Locus and Genome Erosion Common to the M. tuberculosis Complex

(2012) Stephen D. Bentley et al.   PLoS Neglected Tropical Diseases

Relationship Between Mycobacterium tuberculosis Phylogenetic Lineage and Clinical Site of Tuberculosis

(2011) E. S. Click et al.   CLINICAL INFECTIOUS DISEASES

Genotyping ofMycobacterium tuberculosis: application in epidemiologic studies

(2011) Midori Kato-Maeda et al.   Future Microbiology

DNA fingerprinting of Mycobacterium tuberculosis: From phage typing to whole-genome sequencing

(2011) Anita C. Schürch et al.   INFECTION GENETICS AND EVOLUTION

Evaluation of a Single-Tube Multiplex Real-Time PCR for Differentiation of Members of the Mycobacterium tuberculosis Complex in Clinical Specimens

(2011) Tanya A. Halse et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Matrix-Assisted Laser Desorption Ionization-Time of Flight Mass Spectrometry-Based Single Nucleotide Polymorphism Genotyping Assay Using iPLEX Gold Technology for Identification of Mycobacterium tuberculosis Complex Species and Lineages

(2011) C. Bouakaze et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Mycobacterium tuberculosis Transmission in a Country with Low Tuberculosis Incidence: Role of Immigration and HIV Infection

(2011) L. Fenner et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Microbead-Based Immunoassay for Simultaneous Detection of Shiga Toxins and Isolation of Escherichia coli O157 in Foods

(2011) LAURIE M. CLOTILDE et al.   JOURNAL OF FOOD PROTECTION

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods

(2011) K. Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

Phylogeny of Mycobacterium tuberculosis Beijing Strains Constructed from Polymorphisms in Genes Involved in DNA Replication, Recombination and Repair

(2011) Olga Mestre et al.   PLoS One

Genotypic Diversity and Drug Susceptibility Patterns among M. tuberculosis Complex Isolates from South-Western Ghana

(2011) Dorothy Yeboah-Manu et al.   PLoS One

“Pseudo-Beijing”: Evidence for Convergent Evolution in the Direct Repeat Region of Mycobacterium tuberculosis

(2011) Lukas Fenner et al.   PLoS One

Human Macrophage Responses to Clinical Isolates from the Mycobacterium tuberculosis Complex Discriminate between Ancient and Modern Lineages

(2011) Damien Portevin et al.   PLoS Pathogens

Resolving lineage assignation on Mycobacterium tuberculosis clinical isolates classified by spoligotyping with a new high-throughput 3R SNPs based method

(2010) Edgar Abadia et al.   INFECTION GENETICS AND EVOLUTION

Identification and Genotyping of Mycobacterium tuberculosis Complex Species by Use of a SNaPshot Minisequencing-Based Assay

(2010) C. Bouakaze et al.   JOURNAL OF CLINICAL MICROBIOLOGY

High-Resolution Typing by Integration of Genome Sequencing Data in a Large Tuberculosis Cluster

(2010) A. C. Schurch et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Development and Evaluation of a Novel Single-Nucleotide-Polymorphism Real-Time PCR Assay for Rapid Detection of Fluoroquinolone-Resistant Mycoplasma bovis

(2010) M. Ben Shabat et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Possible underlying mechanisms for successful emergence of the Mycobacterium tuberculosis Beijing genotype strains

(2010) Ida Parwati et al.   LANCET INFECTIOUS DISEASES

Human T cell epitopes of Mycobacterium tuberculosis are evolutionarily hyperconserved

(2010) Iñaki Comas et al.   NATURE GENETICS

Mycobacterium africanum—Review of an Important Cause of Human Tuberculosis in West Africa

(2010) Bouke C. de Jong et al.   PLoS Neglected Tropical Diseases

Functional Genetic Diversity among Mycobacterium tuberculosis Complex Clinical Isolates: Delineation of Conserved Core and Lineage-Specific Transcriptomes during Intracellular Survival

(2010) Susanne Homolka et al.   PLoS Pathogens

A rapid multiplex assay for nucleic acid-based diagnostics

(2009) Alina Deshpande et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Myths and misconceptions: the origin and evolution of Mycobacterium tuberculosis

(2009) Noel H. Smith et al.   NATURE REVIEWS MICROBIOLOGY

Genotyping of Genetically Monomorphic Bacteria: DNA Sequencing in Mycobacterium tuberculosis Highlights the Limitations of Current Methodologies

(2009) Iñaki Comas et al.   PLoS One

Human MLPA Probe Design (H-MAPD): a probe design tool for both electrophoresis-based and bead-coupled human multiplex ligation-dependent probe amplification assays

(2008) Jizu Zhi et al.   BMC GENOMICS

Relationship between Mycobacterium tuberculosis Genotype and the Clinical Phenotype of Pulmonary and Meningeal Tuberculosis

(2008) G. Thwaites et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Evaluation and Strategy for Use of MIRU-VNTRplus, a Multifunctional Database for Online Analysis of Genotyping Data and Phylogenetic Identification of Mycobacterium tuberculosis Complex Isolates

(2008) C. Allix-Beguec et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Progression to Active Tuberculosis, but Not Transmission, Varies byMycobacterium tuberculosisLineage in The Gambia

(2008) Bouke C. de Jong et al.   JOURNAL OF INFECTIOUS DISEASES

The clinical consequences of strain diversity in Mycobacterium tuberculosis

(2008) Mark P. Nicol et al.   TRANSACTIONS OF THE ROYAL SOCIETY OF TROPICAL MEDICINE AND HYGIENE

High Functional Diversity in Mycobacterium tuberculosis Driven by Genetic Drift and Human Demography

(2008) Ruth Hershberg et al.   PLOS BIOLOGY

The Influence of Host and Bacterial Genotype on the Development of Disseminated Disease with Mycobacterium tuberculosis

(2008) Maxine Caws et al.   PLoS Pathogens