I am not sure what you mean by your request, as all plasmid isolation protocols that involve Sera-Mag beads, do not involve guanidine salts.

https://bomb.bio/wp-content/uploads/2019/09/BOMB-protocol-5.3-plasmid-extraction-using-Sera-Mag-beads_cc_V_1_1.pdf

Guanidine salts don’t play nicely with the Sera-Mag beads, this is why in all…Read more

My personal experience (especially with SeraMag Beads) is that the binding capacity of the carboxylated beads in guanidine buffers is more reduced. When I was using SeraMag carboxylated beads to purify plasmid DNA according to the protocols described here (#5.1) I always got low amount of plasmid-DNA recovered compared to a control (like…Read more

Maybe you will find this question stupid, but I am curious if the magnetic bar used for stirring is in the NaOH solution, or in the water bath. I expect it to be in the NaOH solution (to mix it) but on the drawing it seems to be in the water bath which holds the round bottom flask…Read more

We are not able to synthesize these beads as we don’t have the required anaerobic conditions. However, I was trying to optimize the protocol for the Sera-mag beads and it seems that for us, with our current protocol, it works well. I am even able to use it for midiprep. If anybody is interested, I am happy to share my protocol with…Read more

Sorry it was a confusion. I was referring to the printed rack for 8 tubes the “BOMB microtube rack”.

In the end I managed to fix it, by completely re-designing the rack from scratch. Sorry it wasn’t my intention to be rude or something, but some of the links which you have are not anymore available, and editing directly .stl files is…Read more

I noticed that on thingverse, there is a link to tinkercad to edit the same rack design. However, the link is not working anymore. If you have the model on tinkercad, could you please share it with us in order to edit it?

Thank you,

Sebastian

I would be curious if the magnetic rack for 8 microcentrifuge tubes could be adjusted to fit different magnets. I would like to use 15×10 mm magnets. I tried tinkercad but I am unable to align any blocks with your current holes. It seems that the angle of your holes is specific. Precisely, if somebody from your team would be willing to…Read more

Plasmid extraction.

At least for the plasmid purification I don’t think the beads amount is an issue. I used the same amount of beads for both your #5.1 protocol and my current protocol. The only difference is that in my protocol I don’t have GuHcl in the N3 buffer, but instead is the N3 buffer from #5.2 (2.3 M KoAc). And for the binding…Read more

I did exactly what you said, I diluted them 1:50, since many other protocols suggest the same thing. Also the washing was written on other protocols which I found on the internet.

Now I have some other questions specifically related to carboxyl beads. While the clean-up works perfectly and it is a good protocol, the other two…Read more

First at all thank you for these great protocols!

I would like to try your BOMB protocols for our nucleic acid isolation and maybe use it as our main methods in the near future.

However I would like to ask a few questions before I start.

We don’t really have the means to synthesize the beads, since you require kinda anaerobic…Read more