Different duplication fraction

[taoqxtaozi]

Hi,

when I simulate, I try two times, first I set gene family numbers=800, and min genome length=100,000,000, and I get 2200 genes, within them 96 families have duplications for non-root taxa, and gennome length =230,000,000. Then I decrease gene family and genome length by factor 4, set gene family numbers=200, and min genome length=25,000,000, other parameters are not changed, and I get 850 genes, within them 76 families have duplications for non-root taxa, and gennome length =65,000,000. The fraction of duplications are very different, like 96/2200 and 76/850, I only changed the length, so I am wondering why this situation happen.

Thanks for replying!

[Theo Tricou]

Hi taoqxtaozi,

What you observed is normal for Zombi. The number of genome-wise events such as duplication, transfer, and loss is only controlled by the event rate and not "the size" of the genome that is simulated (genome length or number of genes).
Meaning that, for a set of parameters the expected number of events is the same if 1000 or 10 genes are simulated.

I hope that this answers your question.

Theo