primer sets for both bacteria and archaea classification

Theory behind mothur
1

Hi,

I would like to ask if someone has good experience on primer chosen for the 16S rRNA 454 pyrosequencing to classify both bacteria and archaea communities…probably for V3 region, hopefully should be robust for both groups. Thanks for the help!

Cheers,
LisaP

2

Hi,

there is a paper from the SILVA people who evaluated a large number of 16S sequencing primers:

Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies
By: Klindworth, Anna; Pruesse, Elmar; Schweer, Timmy; et al.
NUCLEIC ACIDS RESEARCH Volume: 41 Issue: 1 Article Number: e1 Published: JAN 2013

Hope it helps,

René

3

Thanks a lot! I am goint to check it and belive that will give me some idea for that :slight_smile:

Cheers,
Lisa