Journal of Virology · 2020 · 44 citations · 30 references
Life SciencesGeneticsInfectious DiseasesEmerging Infectious DiseasesMolecular VirologyVirologyEmerging Viral DiseasesGenomic EpidemiologyViral EvolutionViral GeneticsViral GenomicsViral InfectionsGenomic Diversity AnalysisGenomic Dna AnalysisMolecular Epidemiology Of VirusesMolecular Marker ApplicationsOutbreak GenomicsPandemic Spread PatternsSars-cov-2 InfectionVariant Emergence Studies
Understanding the introduction, spread, and establishment of SARS-CoV-2 within distinct human populations as well as the evolution of the pandemics is crucial to implement effective control strategies. In this work, we report that the initial virus strains introduced in Mexico came from Europe and the United States and that the virus was circulating locally in the country as early as mid-March. We also found evidence for early local transmission of strains with a H49Y mutation in the Spike protein, which could be further used as a molecular marker to follow viral spread within the country and the region.
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Fast gapped-read alignment with Bowtie 2
Ben Langmead, Steven L. Salzberg · Nature Methods · 2012 · 61.1K citations
fastp: an ultra-fast all-in-one FASTQ preprocessor
Shifu Chen, Yanqing Zhou, Yaru Chen et al. · Bioinformatics · 2018 · 29.7K citations · Full text