Question: Best approach to quantify specific bacteria strain
0
gravatar for CY
21 months ago by
CY310
United States
CY310 wrote:

I have a project asking to quantify a specific bacteria strain from a sample using qPCR. First I need to design one or more primers. Since I am new to primer design, I got several questions while designing the protocol.

  1. Should I use 16S hypervariable region as PCR template?
  2. Should I use Primer-BLAST as primer design tool? and should I used Genome database (reference assembly from selected organisms) as database for the design?
  3. If I got multiple hits, does it mean they are qualified as PCR primers?
  4. How many pairs of primer should I use to be sufficient to specifically target particular strain?

Can anyone has this kind of experience share some insight? Really appreciate!

snp qpcr alignment sequence • 567 views
ADD COMMENTlink written 21 months ago by CY310
2

This isn't really a bioinformatics question. You might get more useful responses from the SEQanswers forum (mention that it's cross-posted here).

ADD REPLYlink modified 21 months ago • written 21 months ago by harold.smith.tarheel4.3k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 818 users visited in the last hour