View Single Post
Old 06-09-2015, 03:11 AM   #3
nucacidhunter
Jafar Jabbari
 
Location: Melbourne

Join Date: Jan 2013
Posts: 1,232
Default

Quote:
Originally Posted by neokao View Post
My lab has been working on bacterial 16S-based microbiome analysis in mouse gut and fecal samples. Recently I've been thinking to move on to Illumina shotgun metagenomic sequencing if we could afford. So I'd like to collect some information to see if it is affordable to my lab.

Assuming there are 20 dominant bacterial species to be assembled,
we will need 20 * 100x (depth for de novo assembling) * 4Mb (estimated size of bacterial genome) = ~8Gb per mouse sample ?

Is the above estimate OK?
I guess one should also allow some reads for DNA from mouse and also gut contents.
nucacidhunter is offline   Reply With Quote