A schematic illustration of the steps used in calling and filtering the candidate mutations.
Chromatograms from the identified target offspring and its parents for each region containing a candidate de novo mutation.
Summary of the pedigrees used for whole-genome sequencing.
N.A. = Not available.
Summary of the de novo mutations identified in Atlantic herring.
*Same mutation detected in two progeny.
†Number of siblings carrying the de novo mutation; - the frequency of transmission was only estimated when two or more progeny with the de novo mutation was detected.
‡M:Maternal, P:Paternal, N.A. = Not available
§TV = Transversion, TS = Transition
Summary of mutation rates measured to date.
*MA = Mutation Accumulation, PO = Parent-Offspring. The values are from the following sources: 1. Dettman et al. (2016); 2. Dillon et al. (2015); 3. Lee et al. (2012); 4. Ness et al. (2012); 5. Zhu et al. (2014); 6. Farlow et al. (2015); 7. Ossowski et al. (2010); 8. Weller et al. (2014); 9. Denver et al. (2012); 10. Keightley et al. (2009); 11. Keightley et al. (2014); 12. Keightley et al. (2015); 13. Keith et al. (2016); 14. Smeds et al. (2016); 15. Lindsay et al. (2016); 16. Uchimura et al. (2015); 17. Harland et al. (2016); 18. Venn et al. (2014); 19. Kong et al. (2012).
†Ne is calculated as π/4μ. The underlying π estimates are all from Lynch et al. (2016) except for herring (present study), collared flycatcher (Ellegren et al., 2012) and cattle (Daetwyler et al., 2014).
Estimated population size of major stocks of Atlantic herring in the North East Atlantic Ocean including the Baltic Sea.
Summary statistics of the SNP calls underlying the estimation of the false negative rate by means of simulation.
Estimates of generation time for different stocks of herring.