Revisiting the taxonomy and evolution of pathogenicity of the genus Leptospira through the prism of genomics

Biodiversity of Environmental Leptospira: Improving Identification and Revisiting the Diagnosis

(2018) Roman Thibeaux et al.   Frontiers in Microbiology

Salmonella enterica Phylogeny Based on Whole-Genome Sequencing Reveals Two New Clades and Novel Patterns of Horizontally Acquired Genetic Elements

(2018) Jay Worley et al.   mBio

Leptospira species molecular epidemiology in the genomic era

(2017) K. Caimi et al.   INFECTION GENETICS AND EVOLUTION

Characterization of Leptospira species isolated from soil collected in Japan

(2017) Toshiyuki Masuzawa et al.   MICROBIOLOGY AND IMMUNOLOGY

Fast Genome-Wide Functional Annotation through Orthology Assignment by eggNOG-Mapper

(2017) Jaime Huerta-Cepas et al.   MOLECULAR BIOLOGY AND EVOLUTION

UFBoot2: Improving the Ultrafast Bootstrap Approximation

(2017) Diep Thi Hoang et al.   MOLECULAR BIOLOGY AND EVOLUTION

Virulence of the zoonotic agent of leptospirosis: still terra incognita?

(2017) Mathieu Picardeau   NATURE REVIEWS MICROBIOLOGY

Advances and challenges in barcoding pathogenic and environmental Leptospira

(2017) VANINA GUERNIER et al.   PARASITOLOGY

What Makes a Bacterial Species Pathogenic?:Comparative Genomic Analysis of the Genus Leptospira

(2016) Derrick E. Fouts et al.   PLoS Neglected Tropical Diseases

Emerging Infectious Disease Implications of Invasive Mammalian Species: The Greater White-Toothed Shrew (Crocidura russula) Is Associated With a Novel Serovar of Pathogenic Leptospira in Ireland

(2016) Jarlath E. Nally et al.   PLoS Neglected Tropical Diseases

AMAS: a fast tool for alignment manipulation and computing of summary statistics

(2016) Marek L. Borowiec   PeerJ

Whole genome sequencing revealed host adaptation-focused genomic plasticity of pathogenic Leptospira

(2016) Yinghua Xu et al.   Scientific Reports

Waterborne Leptospirosis: Survival and Preservation of the Virulence of Pathogenic Leptospira spp. in Fresh Water

(2015) Genevieve Andre-Fontaine et al.   CURRENT MICROBIOLOGY

Evidence of Leptospira sp. infection among a diversity of African wildlife species: beyond the usual suspects

(2015) Sarah E. Jobbins et al.   TRANSACTIONS OF THE ROYAL SOCIETY OF TROPICAL MEDICINE AND HYGIENE

Global Morbidity and Mortality of Leptospirosis: A Systematic Review

(2015) Federico Costa et al.   PLoS Neglected Tropical Diseases

Leptospira and Bats: Story of an Emerging Friendship

(2015) Muriel Dietrich et al.   PLoS Pathogens

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

A Proposed Genus Boundary for the Prokaryotes Based on Genomic Insights

(2014) Q.-L. Qin et al.   JOURNAL OF BACTERIOLOGY

Improvement in the DNA sequencing of genomes bearing long repeated elements

(2014) Antony T. Vincent et al.   JOURNAL OF MICROBIOLOGICAL METHODS

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

GET_HOMOLOGUES, a Versatile Software Package for Scalable and Robust Microbial Pangenome Analysis

(2013) Bruno Contreras-Moreira et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

QUAST: quality assessment tool for genome assemblies

(2013) Alexey Gurevich et al.   BIOINFORMATICS

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Pathogenomic Inference of Virulence-Associated Genes in Leptospira interrogans

(2013) Jason S. Lehmann et al.   PLoS Neglected Tropical Diseases

Leptospira interrogans Catalase Is Required for Resistance to H2O2and for Virulence

(2012) Azad Eshghi et al.   INFECTION AND IMMUNITY

Classification of Leptospira genomospecies 1, 3, 4 and 5 as Leptospira alstonii sp. nov., Leptospira vanthielii sp. nov., Leptospira terpstrae sp. nov. and Leptospira yanagawae sp. nov., respectively

(2012) L. Smythe et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Leptospira idonii sp. nov., isolated from environmental water

(2012) M. Saito et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Artemis: an integrated platform for visualization and analysis of high-throughput sequence-based experimental data

(2011) T. Carver et al.   BIOINFORMATICS

A novel combination of selective agents for isolation of Leptospira species

(2011) Antara Chakraborty et al.   MICROBIOLOGY AND IMMUNOLOGY

BMGE (Block Mapping and Gathering with Entropy): a new software for selection of phylogenetic informative regions from multiple sequence alignments

(2010) Alexis Criscuolo et al.   BMC EVOLUTIONARY BIOLOGY

TranslatorX: multiple alignment of nucleotide sequences guided by amino acid translations

(2010) Federico Abascal et al.   NUCLEIC ACIDS RESEARCH

Leptospira: the dawn of the molecular genetics era for an emerging zoonotic pathogen

(2009) Albert I. Ko et al.   NATURE REVIEWS MICROBIOLOGY

Shifting the genomic gold standard for the prokaryotic species definition

(2009) Michael Richter et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA