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

Genetic Librarian 12-03-2018 12:11 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 06:23 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 10:31 PM

Vazyme.bio tech

Genetic Librarian 12-06-2018 05:36 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 07:31 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 02:27 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 07:21 AM

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

GenoMax 02-01-2019 03:00 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 04:50 AM

Yes, final reads which are rRNA.

furor 09-17-2019 12:04 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 01:17 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 04:56 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 05:13 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 06:26 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 03:17 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 03:59 AM

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

MU Core 11-12-2019 05:45 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

jjlin 02-05-2020 11:40 AM

Quote:

Originally Posted by cement_head (Post 229353)
Has anyone tried this kit from ZYMO? Usually ZYMO stuff is pretty good...

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

DISCLAIMER: I work for Zymo

We have options for people who are interested in doing probe-free depletion. Contact tech@zymoresearch.com and tell them you'd like to try the RiboFree Total RNA Library Kit. We were offering trial sizes and free samples a few months ago.

luc 02-05-2020 06:00 PM

According to rumors, RiboZero will make a comeback. Not exactly the same products though; it will use a new chemistry.

GenoMax 02-06-2020 04:12 AM

Illumina did release a new version of RiboZero+ yesterday: https://www.illumina.com/products/by...depletion.html


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