On the founder effect in COVID-19 outbreaks: how many infected travelers may have started them all?

Abstract

How many incoming travelers (I0 at time 0, equivalent to the ‘founders’ in evolutionary genetics) infected with SARS-CoV-2 who visit or return to a region could have started the epidemic of that region? I0 would be informative about the initiation and progression of epidemics. To obtain I0, we analyze the genetic divergence among viral populations of different regions. By applying the ‘individual-output’ model of genetic drift to the SARS-CoV-2 diversities, we obtain I0 <10, which could have been achieved by one infected traveler in a long-distance flight.The conclusion is robust regardless of the source population, the continuation of inputs (It for t>0) or the fitness of the variants.With such a tiny trickle of human movement igniting many outbreaks, the crucial stage of repressing an epidemic in any region should, therefore, be the very first sign of local contagion when positive cases first become identifiable.The implications of the highly ‘portable’ epidemics, including their early evolution prior to any outbreak, are explored in the companion study (Ruan et al., personal communication).

Yongsen Ruan

Assistant Professor

My research interests include population genetics, evolutionary genomics, origin and evolution of virus，somatic evolution