This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Database Of Cultured Bacterial 16S Rdna Sequences

Dear All,

I would like to know if there is a database or a repository that contains 16s rDNA sequences obtained from cultured bacterial strains alone. I want to avoid the sequences obtained through uncultured environmental samples. Google has not helped me with this!!

Responses are highly appreciated.

database
• 4,690 views • link
updated by skymningen skymningen • written by vijay vijay

2 answers

At the Ribosomal Database project, you can browse for (and download) only isolates.

• 122 views • link
written by skymningen skymningen

Great!!! Thanks!! I have been missing this in RDP..

• 0 views • link
written by vijay vijay

To my knowledge, the big two 16S databases (Greengenes, Silva) do not contain any easily accessible metadata for just the cultured isolates. Perhaps as a proxy you could get the 16S genes from completed genomes from either IMG or NCBI since the vast majority of those will be from cultures.

• 0 views • link
written by cts cts

Log in to answer this question.

More posts like this