Microbiology Spectrum · 2022 · 87 citations · 21 references
Life SciencesInfectious DiseasesMicrobiologyInflammationMedical MicrobiologyMicrobiome ResearchGastrointestinal InfectionsGut MicrobiomeGut MicrobiotaMicrobial Community ProfilingMicrobiome CompositionMicrobiome DynamicsCommensal MicrobiotaFecal Microbiome AnalysisGut Microbiome AlterationsGut Microbiota CompositionGut Microbiota DysbiosisHuman Gut MetagenomicsMicrobiota BiomarkersSystemic Inflammation Markers
There is growing evidence that the commensal microbiota of the gastrointestinal and respiratory tracts regulates local and systemic inflammation (gut-lung axis). COVID-19 is primarily a respiratory disease, but the involvement of microbiota changes in the pathogenesis of this disease remains unclear. The composition of the gut microbiota of patients with COVID-19 changed over time during hospitalization, and the intestines tended to be an aerobic environment in hospitalized COVID-19 patients. These changes in gut microbiota may induce increased intestinal permeability, called leaky gut, allowing bacteria and toxins to enter the circulatory system and further aggravate the systemic inflammatory response. Since gut microbiota composition correlates with levels of proinflammatory cytokines, this finding highlights the need to understand how pathology relates to the gut environment, including the temporal changes in specific gut microbiota observed in COVID-19 patients.
21
Scikit-learn: Machine Learning in Python
Fabián Pedregosa, Gaël Varoquaux, Alexandre Gramfort et al. · arXiv (Cornell University) · 2012 · 63.7K citations · Full text
DADA2: High-resolution sample inference from Illumina amplicon data
Benjamin J. Callahan, Paul J. McMurdie, Michael Rosen et al. · Nature Methods · 2016 · 36.3K citations
Metagenomic biomarker discovery and explanation
Nicola Segata, Jacques Izard, Levi Waldron et al. · Genome biology · 2011 · 16.7K citations · Full text