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-   -   Ribozero Bacteria discontinued - alternatives? (http://seqanswers.com/forums/showthread.php?t=85943)

Genetic Librarian 12-03-2018 01:11 AM

Ribozero Bacteria discontinued - alternatives?
 
With the discontinuation of the Ribozero Bacteria kit Illumina left the whole field of bacterial transcriptomics out in the rain. People in the field, what alternatives do you use now?

ikripp 12-04-2018 07:23 PM

I had a meeting with our Qiagen rep recently who indicated that they may be working on a bacterial rRNA removal kit.

Definitely hoping to find a suitable alternative!

yeyue 12-04-2018 11:31 PM

Vazyme.bio tech

Genetic Librarian 12-06-2018 06:36 AM

Just found that NuGen has a metatranscriptome kit based on their AnyDeplete Technology. Needs to be tested how good/bad the capture efficiency is.

siTOOLs 01-18-2019 08:31 AM

We just started making riboPOOLs for affordable, custom depletion of ribosomal RNA
https://www.sitoolsbiotech.com/ribopools.php

Contact us to make a custom riboPOOL to suit your needs - info (at) sitools.de

evan_seq24 01-30-2019 03:27 PM

It was recommended that we use Ribominus or Microbexpress as an alternative, but I am having no success with either kit. I sequenced some samples that passed Bioanalyzer qc (no visible residual rRNA) but in both cases anywhere from 70-90% rRNA mapped and very low feature coverage. Has anyone had success with these products or implemented a solid alternative to Ribo-Zero?

MU Core 01-31-2019 08:21 AM

Our group has obtained similar results with the RiboMinus kit. rRNA mapping at ~80%. Alternatives are still needed.

GenoMax 02-01-2019 04:00 AM

Just to be sure do you mean 70-90% of final reads are still rRNA? @MU_Core and @evan_seq24?

MU Core 02-01-2019 05:50 AM

Yes, final reads which are rRNA.

furor 09-17-2019 01:04 AM

Any update on this?

Several sequencing centers have discouraged MICROBExpress.

I'm interested in the riboPOOL kit (siTOOLs), but they don't reply.
Has anyone experience with this kit? Especially a combination riboPOOL foor soils/sediments (targeting prokaryotes and eukaryotes (plants/chloroplasts, protists, fungi, ...)?

thanks!

siTOOLs 09-17-2019 02:17 AM

riboPOOLs by siTOOLs
 
Hi Furor, sorry if you haven't been able to get a reply. If you contact us through our website you should be contacted within 1-2 days. You can also obtain riboPOOLs through our US distributor, Galen Lab Supplies: https://galenmolecular.com/genetic-tools/ribopools/

kmcarr 09-18-2019 05:56 AM

Quote:

Originally Posted by furor (Post 228411)
Any update on this?

Several sequencing centers have discouraged MICROBExpress.

I'm interested in the riboPOOL kit (siTOOLs), but they don't reply.
Has anyone experience with this kit? Especially a combination riboPOOL foor soils/sediments (targeting prokaryotes and eukaryotes (plants/chloroplasts, protists, fungi, ...)?

thanks!

According to Illumina (https://www.illumina.com/products/se...ion-guide.html) they have a new product pending for bacteria and plant leaf tissues. They state to contact Tech Support

cement_head 11-11-2019 06:13 PM

Has anyone tried this kit from ZYMO? Usually ZYMO stuff is pretty good...

https://www.zymoresearch.com/product...ersal-cdna-kit

cement_head 11-11-2019 07:26 PM

Quote:

Originally Posted by furor (Post 228411)
Any update on this?

Several sequencing centers have discouraged MICROBExpress.

I'm interested in the riboPOOL kit (siTOOLs), but they don't reply.
Has anyone experience with this kit? Especially a combination riboPOOL foor soils/sediments (targeting prokaryotes and eukaryotes (plants/chloroplasts, protists, fungi, ...)?

thanks!

Interesting...micrboEXPRESS looks to be an Ambion Kit (originally). But Ambion basically got destroyed when Thermo Fisher bought it...

cement_head 11-12-2019 04:17 AM

Ha! Talk of the Devil!

New kit by Qiagen...

http://cloud.go.qiagen.com/e/es?s=87...d=6008&elqat=1

GenoMax 11-12-2019 04:59 AM

Illumina is going to re-introduce ribozero equivalent kits in 2020.

MU Core 11-12-2019 06:45 AM

For those seeking a bacterial rRNA depletion kit, NEB has just released a kit that works very well in our hands.

https://www.neb.com/products/e7850-n...%20Information


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