Database Of Cultured Bacterial 16S Rdna Sequences

Question

[vijay]

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.

Answer 1

[skymningen]

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

[vijay]

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

Answer 2

[cts]

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.