[sverma]

Hi qsonica,

Thanks for replying. I will contact you directly with more details.

Suman

[qsonica]

Hi Sverma,
You can contact me directly at [email protected].
We have many different sonicator models and accessories. After we discuss the details of your unit and your particular type of sample and volume, we can go over optimal settings. Thank you.

[sverma]

QSonica Sonicator

Hi All,

I am new to the forum. I wanted to say hello to everyone. I had question about sonicator. I am planning to do do library prep using Agilent sureselect XT2 kit and tragte enrichment. We do not have Covaris in-house. But, we have Qsonica. I was wondering if anyone has used QSonica for shearing DNA and what will be the settings for optimum 150-200 bp fragment size.

[crocky]

I have been using the Covaris (S series) for my chromatin fragmentation and I am very happy with it. It works very fast and reproducible. For the fragmentation I need 3 min, whereas I used to sonicate for more than 30 min with the Bioruptor. Therefore one can do multiple samples, even if you can sonicate only 1 sample at a time.

[maxell]

do you have any idea how we can test q800r in europe ?

[qsonica]

It is application specific. For ChIP/dna shearing the answer is yes, cup horn is much more effective.

[maxell]

so can we say that multi probe like 96 tips are not effective as cup horn ?

[qsonica]

Water baths send random sound waves through the tank and generally give inconsistant results. Standard water baths operate at 40kHz which is low intensity and too weak for sample processing. These are really made for cleaning.
Cup horns are made to deliver sonication directly to the area where the sample tubes are located plus cup horns offer adjustable intensity settings. You can dial in the setting needed for your particular sample.

Newer high intensity cup horns are now sold specifically for ChIP and DNA shearing and work very well.

[maxell]

but still I cant see any comments about differences between cup horn and water bath ? . which one is better do you think ? and is it comparable with the multi tip horns or cup horn is better than that ? thanks

[cement_head]

If you're doing anything more than one sample, this gadget will be a big pain.

Yeah, that's the conclusion I came to after speaker with a number of genome centres - the reproducibility from sample to sample is a major concern.

- CH

[bilyl]

Hello,

I am curious as to why so many people are using Covaris as opposed to a handheld rig like this: http://shop.midsci.com/productdetail...des_6mm_probe/

Is this because of reproducibility? Protocols? The price difference is about $20,000; which is not trivial.

I am completely new to sonication for NGS protocols, so any advice would be helpful.

Thanks,
Andor

If you're doing anything more than one sample, this gadget will be a big pain.

[qsonica]

new shearing device options

Qsonica now offers a high through-put Dna shearing system. Works as well as the competition and costs less. Sorry for advertising here but its a new option to consider. Can't hurt to check it out and speak to some references.

[NextGenSeq]

Probe based sonicators give inconsistent results and heat the sample. The Covaris gives far more consistent results and doesn't boil your sample.

[cement_head]

Ok, thanks - that's what I suspected. It would really be a huge disappointment to destroy samples due to bad sonication, and/or inability to replicate sonication.

[kwaraska]

The most obvious difference is the ability to walk away. A Covaris-you put the tube in-hit start and walk away. For a sonication of 30 minutes-that alone is huge.

In addition, any time you introduce humans into the equation, the results will be less reproducible. A hand held sonicator is going to be different in every persons hands-literally and figuratively.

We have customers that used to use a probe sonicator and is completely switched over to Covaris after seeing the results.

As for the comment about reproducability, you should look at the Covaris website. We just hosted a seminar detailing this exact topic. The outcome is that the same cell line cultured differently will shear differently, so once you determine the best conditions (usually a time course) you can stay with those as long as you don't change the growth conditions.