Specific re-distribution of SARS-CoV-2 variants in the respiratory system and intestinal tract.

Intra-host analysis of SARS-CoV-2 genomic sequences identified two viral haplotypes that comprised of three genetically linked mutations from the respiratory and intestinal tracts of a patient with COVID-19. Spatiotemporal data suggest that this patient initially had dual-infection of two SARS-CoV-2 variants, which subsequently re-distributed into the two systems.