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Old 12-03-2018, 12:11 AM   #1
Genetic Librarian
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Default 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?
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Old 12-04-2018, 06:23 PM   #2
ikripp
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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!
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Old 12-04-2018, 10:31 PM   #3
yeyue
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Vazyme.bio tech
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Old 12-06-2018, 05:36 AM   #4
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Just found that NuGen has a metatranscriptome kit based on their AnyDeplete Technology. Needs to be tested how good/bad the capture efficiency is.
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Old 01-18-2019, 07:31 AM   #5
siTOOLs
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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

Last edited by siTOOLs; 01-18-2019 at 07:34 AM.
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Old 01-30-2019, 02:27 PM   #6
evan_seq24
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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?
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Old 01-31-2019, 07:21 AM   #7
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Our group has obtained similar results with the RiboMinus kit. rRNA mapping at ~80%. Alternatives are still needed.
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Old 02-01-2019, 03:00 AM   #8
GenoMax
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Just to be sure do you mean 70-90% of final reads are still rRNA? @MU_Core and @evan_seq24?
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Old 02-01-2019, 04:50 AM   #9
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Yes, final reads which are rRNA.
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Old 09-17-2019, 12:04 AM   #10
furor
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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!
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Old 09-17-2019, 01:17 AM   #11
siTOOLs
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Default 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/
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Old 09-18-2019, 04:56 AM   #12
kmcarr
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Quote:
Originally Posted by furor View Post
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
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