home Technical Information Request – Information on Places that do rRNA sequencing as a service

Request – Information on Places that do rRNA sequencing as a service

I have gotten many outside requests for the following information – what places (companies, Universities, government agencies, etc) provide contract services for rRNA PCR and sequencing?

I know that uBiome will do this (full disclosure – I am on their SAB).

The UC Davis Host-Microbe Systems Biology Core will do this (more disclosure – I am the Assistant Director).

Science Exchange has a list of some places that do this too: https://www.scienceexchange.com/services/16s-rrna-seq.  But there are only six places listed there.  There must be many many more.

Here are some other places I found in a quick Google search that seem to do such service:

I am sure there are many others out there.  It seems that it would be good to compile a list of places that do this and information about costs, quality, etc.  So I am hoping to do that here with some crowdsourcing help.

rRna sequencingWhere have people gotten such sequencing done?
Did you like the results?
What did it cost?
Any / all information would be useful.

Cataloguing responses on Twitter:

22 thoughts on “Request – Information on Places that do rRNA sequencing as a service

  1. I work at Micromon (the NGS core facility in the Dept. of Microbiology at Monash University in Melbourne, Australia). We do this type of sequencing using (typically) 500b amplicons on the MiSeq.

  2. We sequence at CGR, Univ of Liverpool (http://www.liv.ac.uk/genomic-research/). Costs us £1700 per lane of Illumina MiSeq (including QA/QC). We sequence about 100 samples per lane. Have done 4 lanes with them this year with 7 million – 12 million paired end reads per lane. Good quality data, but turn around times slow (4 + weeks).

  3. We do this in a spin-off company from our university. Had too many requests to keep handling it internally on the university…

    MiSeq 2×300 bp. Min 10.000 quality filtered reads / sample.

    The service includes everything from DNA extraction to bioinformatics. 140 Euro / sample (min 10 samples).

    rgds
    Mads Albertsen
    Aalborg University, Denmark
    http://www.dnasense.com

  4. The U of Michigan microbiome sequencing core does MiSeq sequencing for external researchers. If you’re interested in 16S, they follow the Kozich protocol that we developed. They are also able to do some more custom things. There’s no static price list at the moment, but if people are interested, please feel free to shoot me an email at pschloss at umich and I can direct them where they need to be.

    Pat

  5. We at the University of Illinois DNA Sequencing Laboratory offer preparation of amplicons using one or several primer sets, for example any 16s rRNA region, archaea, ITS, functional genes, etc, using the Fluidigm. The amplicon pools are sequenced on the MiSeq with 2x300nt runs. Now we have the newest 2x250nt runs on the HiSeq so this is also a possibility for those researchers that use high multiplexing.
    We have 4 HiSeq and 3 MiSeq, which enables us a very fast turnaround time. Most customer-prepared amplicon pools are sequenced in less than 2 weeks.
    The High Performance Computing in Biology (HPCbio) facility has extensive experience in post-sequencing analysis of microbial datasets using Tornardo, Qiime, Mothur, etc, and they can do as much work as needed by the PI.
    You can see the description of our services and prices in our website http://www.biotech.illinois.edu/htdna
    For sequencing services, please contact Alvaro Hernandez (aghernan@illinois.edu) or Chris Wright (clwright@illinois.edu)

    Thanks!

  6. Thank-you for the invite by twitter to post here with more information about our services:

    We offer fee-for-service targeted microbial profiling at Contango with in-house Illumina sequencing. Targets include 16S rRNA, as well as archaea, fungal/yeast, cyanobacteria, functional genes, etc. We also perform metagenomic sequencing (WGS) and will be offering metatranscriptomic services and profiling of algal communities soon.

    We have been performing targeted profiling, metagenomics, and metatranscriptomics analyses for several years as part of our larger passive water treatment and bioremediation projects, but have just recently started offering the targeted profiling as a fee-for-service. As such, we have put a lot of effort into developing extraction and processing methods for a wide range of sample types, as well as integration of results with metadata. We have bioinformaticians and biostatisticians on staff if additional analyses, correlations, or interpretations are desired. All our sequencing runs contain quality control samples of pure organisms and mock communities.

    Our standard 16S rRNA microbial profile is $350 (CAD) per sample, which includes DNA extraction, library prep, sequencing, quality filtering, generation of OTU table and basic statistics, as well as delivery of raw data if desired. If you want more than one target (e.g., fungi, archaea) profiled on the same sample, it is an additional $250 for each target. Our standard turn-around time is 4-6 weeks, with rush pricing available upon request. Most customers submit a ‘raw’ sample, such as soil or water, however, we offer discounted services if extracted DNA is submitted rather than the sample itself. Bulk pricing is also available. Metagenomics and metatranscriptomic pricing is currently based by project.

    You can see a description of our microbial community profiling services and prices here:
    http://contangostrategies.com/Contango%20Strategies%20Microbial%20Community%20Profiling%20Handout.pdf

    Please contact Vanessa Pittet or Monique Haakensen at sequencing@contangostrategies.com for additional information.

  7. We do v4 16S sequencing as a service for both UConn and external users. Here are our current prices for internal Uconn users (external non-profit will be ~160% of those prices, I will provide individual quotes for external users) http://mars.uconn.edu/rates/ We can also help with other amplicons (i.e. ITS, targeted 18S, etc) with prices negotiated depending on how much of our current pipeline can be maintained.

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