identification of catabolic genes in soil metagenome shotgun data

1

Hello.

I have 4 shotgun sequencing data of soil microbial communities. I have compiled a custom database of genes of polyciclic aromatics catabolism and mapped my raw shotgun reads to this database. So from each sample I obtained reads corresponding to PAH catabolic genes. For example:

sample 1 - 100 reads

sample 2 - 200 reads

sample 3 - 300 reads

sample 4 - 150 reads

And the question is: can I, based on the number of reads, make conclusions about the number of genes in the samples? I.e. can I say, that the sample 3 contains more PAH genes than sample 1? Also I have carried out the taxonomic analysis, but as for the genes, it's not so obvious.

Thanks.


shotgun


metagenome

• 71 views

updated 27 minutes ago by

100k

written 7 hours ago by

0



Source link