Fig. 2: Descriptive and temporal dynamics of SARS-CoV-2 lineages in Hong Kong.
From: Genomic epidemiology of SARS-CoV-2 under an elimination strategy in Hong Kong
a Time to most recent common ancestor (tMRCA) among the five earliest circulating local lineages of SARS-CoV-2 during waves 1 and 2 in Hong Kong. b Number of SARS-CoV-2 genomic samples per lineage identified over time using a maximum clade credibility phylogeny. Lineage size is ordered on a log10 scale and plotted by earliest confirmation date. c Correlation between the detection lag of locally circulating lineages and the final lineage duration with overlapping points showing uncertainty in lineage detection and duration. Detection lag over time as a function of tMRCA across three epidemic periods d waves one and two, e wave three, f wave four. Overall, a significant reduction in detection lag was observed over time and across each epidemic wave. Points in panels c–f represent a random sample of 1000 lineages from a Bayesian posterior tree distribution (n = 8000).
