Antimicrobial Agents and Chemotherapy · 2020 · 87 citations · 41 references
Life SciencesInfectious DiseasesMicrobiologyBacteriologyMedical MicrobiologyMicrobial GeneticsAntibiotic ResistanceAntibiotic Resistance GeneticsBacterial EpidemiologyBacterial InfectionsCarbapenem ResistancePathogen GenomicsAcinetobacter Baumannii ResistanceAntibiotic Resistance GenesAntibiotic Susceptibility TestingAntimicrobial Resistance PatternsCarbapenem AntibioticsCore Genome Multilocus Sequence TypingMultilocus Sequence AnalysisStrain Diversity Analysis
Over the past two decades, Acinetobacter baumannii has emerged as a leading cause of nosocomial infections worldwide. Of particular concern are panresistant strains, leading the World Health Organization (WHO) to designate carbapenem-resistant A. baumannii as a priority 1 (critical) pathogen for research and development of new antibiotics. A key component in supporting this effort is accessibility to diverse and clinically relevant strains for testing. Here, we describe a panel of 100 diverse A. baumannii strains for use in this endeavor.
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FLASH: fast length adjustment of short reads to improve genome assemblies
Tanja Magoč, Steven L. Salzberg · Bioinformatics · 2011 · 15.7K citations · Full text
Anna-Pelagia Magiorakos, Arjun Srinivasan, Roberta B. Carey et al. · Clinical Microbiology and Infection · 2011 · 14K citations
Improved metagenomic analysis with Kraken 2
Derrick E. Wood, Jennifer Lu, Ben Langmead · Genome biology · 2019 · 7.1K citations · Full text