Journal of Clinical Microbiology · 2018 · 43 citations · 30 references
Life SciencesBiologyMicrobiologyDiagnostic MicrobiologyGenomicsMedical MicrobiologyBacterial IdentificationBacterial SerologyMolecular TypingPathogen DetectionBacterial TypingBiochemical Identification TestsGenotypic Characterization Of IsolatesMicrobiological DiagnosticsMolecular Typing Of BacteriaMolecular Typing Of PathogensSerological TypingWhole-genome Sequencing Analysis
O1 classical variants belonging to ST73. A phylogeny of isolates belonging to ST69 from U.K. travelers clustered geographically, with isolates from India and Pakistan located on separate branches. Moving forward, WGS data from U.K. travelers will contribute to global surveillance programs and the monitoring of emerging threats to public health and the global dissemination of pathogenic lineages. At the national level, these WGS data will inform the timely reinforcement of direct public health messaging to travelers and mitigate the impact of imported infections and the associated risks to public health.
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Trimmomatic: a flexible trimmer for Illumina sequence data
Anthony Bolger, Marc Lohse, Björn Usadel · Bioinformatics · 2014 · 69.7K citations · Full text
Fast and accurate short read alignment with Burrows–Wheeler transform
Heng Li, Richard Durbin · Bioinformatics · 2009 · 62.8K citations · Full text
Fast gapped-read alignment with Bowtie 2
Ben Langmead, Steven L. Salzberg · Nature Methods · 2012 · 61.1K citations