Clustering of Vibrio parahaemolyticus Isolates Using MLST and Whole-Genome Phylogenetics and Protein Motif Fingerprinting

Defining a Core Genome Multilocus Sequence Typing Scheme for the Global Epidemiology of Vibrio parahaemolyticus

(2017) Narjol Gonzalez-Escalona et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Genomic Variation and Evolution of Vibrio parahaemolyticus ST36 over the Course of a Transcontinental Epidemic Expansion

(2017) Jaime Martinez-Urtaza et al.   mBio

Failure of phylogeny inferred from multilocus sequence typing to represent bacterial phylogeny

(2017) Alan K. L. Tsang et al.   Scientific Reports

Galleria mellonella as an infection model to investigate virulence of Vibrio parahaemolyticus

(2017) Sariqa Wagley et al.   Virulence

Characterization of Pathogenic Vibrio parahaemolyticus from the Chesapeake Bay, Maryland

(2017) Arlene J. Chen et al.   Frontiers in Microbiology

A Nonautochthonous U.S. Strain of Vibrio parahaemolyticus Isolated from Chesapeake Bay Oysters Caused the Outbreak in Maryland in 2010

(2016) Julie Haendiges et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Molecular evolution of epizootic hemorrhagic disease viruses in North America based on historical isolates using motif fingerprints

(2016) W. C. Wilson et al.   VIRUS GENES

ggtree: anrpackage for visualization and annotation of phylogenetic trees with their covariates and other associated data

(2016) Guangchuang Yu et al.   Methods in Ecology and Evolution

Genomic evidence of adaptive evolution in emergent Vibrio parahaemolyticus ecotypes

(2016) Jeffrey W. Turner et al.   Elementa-Science of the Anthropocene

Genomic Features of Environmental and Clinical Vibrio parahaemolyticus Isolates Lacking Recognized Virulence Factors Are Dissimilar

(2015) J. Ronholm et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

MeDuSa: a multi-draft based scaffolder

(2015) Emanuele Bosi et al.   BIOINFORMATICS

Crowdsourced direct-to-consumer genomic analysis of a family quartet

(2015) Manuel Corpas et al.   BMC GENOMICS

Use of Whole-Genome Phylogeny and Comparisons for Development of a Multiplex PCR Assay To Identify Sequence Type 36 Vibrio parahaemolyticus

(2015) Cheryl A. Whistler et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Examination of clinical and environmental Vibrio parahaemolyticus isolates by multi-locus sequence typing (MLST) and multiple-locus variable-number tandem-repeat analysis (MLVA)

(2015) Catharina H. M. Lüdeke et al.   Frontiers in Microbiology

Roles of thermostable direct hemolysin (TDH) and TDH-related hemolysin (TRH) in Vibrio parahaemolyticus

(2015) Pendru Raghunath   Frontiers in Microbiology

Characterization of Vibrio parahaemolyticus clinical strains from Maryland (2012–2013) and comparisons to a locally and globally diverse V. parahaemolyticus strains by whole-genome sequence analysis

(2015) Julie Haendiges et al.   Frontiers in Microbiology

Transoceanic Spreading of Pathogenic Strains of Vibrio parahaemolyticus with Distinctive Genetic Signatures in the recA Gene

(2015) Narjol González-Escalona et al.   PLoS One

RASTtk: A modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes

(2015) Thomas Brettin et al.   Scientific Reports

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Epidemiology of foodborne disease outbreaks caused by Vibrio parahaemolyticus, China, 2003–2008

(2014) Yongning Wu et al.   FOOD CONTROL

Phenotypic and Genotypic Characterization of Canadian Clinical Isolates of Vibrio parahaemolyticus Collected from 2000 to 2009

(2014) S. K. Banerjee et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Population Structure of Clinical Vibrio parahaemolyticus from 17 Coastal Countries, Determined through Multilocus Sequence Analysis

(2014) Dongsheng Han et al.   PLoS One

Trends in the Epidemiology of Pandemic and Non-pandemic Strains of Vibrio parahaemolyticus Isolated from Diarrheal Patients in Kolkata, India

(2014) Gururaja P. Pazhani et al.   PLoS Neglected Tropical Diseases

Spread of Pacific Northwest Vibrio parahaemolyticus Strain

(2013) Jaime Martinez-Urtaza et al.   NEW ENGLAND JOURNAL OF MEDICINE

Population Structure of Clinical and Environmental Vibrio parahaemolyticus from the Pacific Northwest Coast of the United States

(2013) Jeffrey W. Turner et al.   PLoS One

Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data

(2012) M. Kearse et al.   BIOINFORMATICS

A review of the current status of cultural and rapid detection of Vibrio parahaemolyticus

(2012) Bledar Bisha et al.   INTERNATIONAL JOURNAL OF FOOD SCIENCE AND TECHNOLOGY

Biochemical, Serological, and Virulence Characterization of Clinical and Oyster Vibrio parahaemolyticus Isolates

(2012) J. L. Jones et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Multilocus Sequence Typing of Total-Genome-Sequenced Bacteria

(2012) M. V. Larsen et al.   JOURNAL OF CLINICAL MICROBIOLOGY

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

(2012) Anton Bankevich et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Emerging Vibrio risk at high latitudes in response to ocean warming

(2012) Craig Baker-Austin et al.   Nature Climate Change

BIGSdb: Scalable analysis of bacterial genome variation at the population level

(2011) Keith A Jolley et al.   BMC BIOINFORMATICS

Genome Sequence of the Clinical O4:K12 Serotype Vibrio parahaemolyticus Strain 10329

(2011) N. Gonzalez-Escalona et al.   JOURNAL OF BACTERIOLOGY

Vibrio parahaemolyticus cell biology and pathogenicity determinants

(2011) Christopher A. Broberg et al.   MICROBES AND INFECTION

Mugsy: fast multiple alignment of closely related whole genomes

(2010) Samuel V. Angiuoli et al.   BIOINFORMATICS

Climate anomalies and the increasing risk of Vibrio parahaemolyticus and Vibrio vulnificus illnesses

(2010) Jaime Martinez-Urtaza et al.   FOOD RESEARCH INTERNATIONAL

A Comparative Genomic Analysis of Diverse Clonal Types of EnterotoxigenicEscherichia coliReveals Pathovar-Specific Conservation

(2010) Jason W. Sahl et al.   INFECTION AND IMMUNITY

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

Serogroup, Virulence, and Genetic Traits of Vibrio parahaemolyticus in the Estuarine Ecosystem of Bangladesh

(2009) M. Alam et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

(2009) S. Capella-Gutierrez et al.   BIOINFORMATICS

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH

Determination of Molecular Phylogenetics of Vibrio parahaemolyticus Strains by Multilocus Sequence Typing

(2008) N. Gonzalez-Escalona et al.   JOURNAL OF BACTERIOLOGY