mutation rate per generation per base

[KWAN]

Hi dartR people, 

I have dartseq SNP data from known parent-offspring. Is there a way to calculate mutation rate per site per generation? 

Cheers 

Kwan

[Jose Luis Mijangos]

Hi Kwan,

Estimating mutation rates using parents-offspring trios and DArTseq should be technically possible. DArTseq surveys 5-10% of the genome and typically there are around 1 to 50 de novo mutations in offsprings. It would be a matter of finding those SNPS in which both parents are homozygous for the same allele and the offspring is heterozygous. However, there are many other factors to take into account in the estimation of mutation rates, see for example a recent review from Bergeron, Lucie A., et al. "Evolution of the germline mutation rate across vertebrates." Nature 615.7951 (2023): 285-291.

Cheers,

Luis