Genetic metric | Definition | Transmission reflected | Expectation |
---|---|---|---|
Polygenomic fraction | Proportion of infections that are polygenomic | Superinfection and cotransmission | Increase with transmission intensity |
Complexity of infection (COI) | Number of strains per infection | Superinfection and cotransmission | Increase with transmission intensity |
The fraction of non-unique monogenomic clones | Proportion of monogenomic infections carrying a clone that was sampled elsewhere in the population | Clonal transmission | Decrease with transmission intensity |
RH | Estimate of polygenomic inbreeding based on intra-host heterozygosity | Superinfection and cotransmission | Decrease with transmission intensity |
Cotransmission fraction | Proportion of polygenomics resulting from cotransmission | Cotransmission | Decrease with transmission intensity |