What’s the answer? (soil metagenomes)
BioStar is a site for asking, answering and discussing bioinformatics questions. We are members of thecommunity and find it very useful. Often questions and answers arise at BioStar that are germane to our readers (end users of genomics resources). Every Thursday we will be highlighting one of those questions and answers here in this thread. You can ask questions in this thread, or you can always join in at BioStar.
This week’s question:
Are there any raw data available for whole genome shotgun of soil metagenomes? There are a few studies here and there, but these are mostly 16S rRNA studies, not full sequencing.
I know MGRAST contains a few studies and I stumbled across Terragenome initiative, however the former doesn’t always provide raw data, and the latter doesn’t seem to provide any data at all.
EDIT: To make things clear: I’m looking for raw data of systematically defined “soil” metagenomes (some rhizosphere metagenomes qualify as well)
I’m not just highlighting it because I had the selected answer . No, really: IMG/M* is a great resource, as is the companion IMG*, and it always surprises us that people seeking microbial genome information don’t know about it. Check out the full discussion here.
*OpenHelix tutorials for these resources available for individual purchase or through a subscription.