ZymoBIOMICS Targeted Sequencing Service: 16S/ITS

Q2001 / Q2012 / Q2003 / Q2013


ZymoBIOMICS Targeted Sequencing Service: 16S/ITS

Q2001 / Q2012 / Q2003 / Q2013

Cat # Name Size Price Quantity
Q2001 16S (With DNA Extraction) 1 sample €85,00
- +
Q2012 16S (Without DNA Extraction) 1 sample €70,00
- +
Q2003 ITS (With DNA Extraction) 1 sample €85,00
- +
Q2013 ITS (Without DNA Extraction) 1 sample €70,00
- +

A minimum of 10 samples is required for service orders.
3 Page Report

Highlights

  • Complete Solution: Simply submit samples and receive a comprehensive, user-friendly data report with publication-ready plots and figures.
  • Quality Ensured: A mock microbial community standard is included with each run to ensure accurate data processing.
  • Superior Taxonomic Resolution: Species-level resolution with 16S rRNA gene sequencing.
Description

Precisely and accurately identify microbial composition. The full service includes unbiased DNA extraction (optional), library preparation, post-library QC, sequencing using the Illumina MiSeq® platform (2x300bp), and bioinformatics analysis. All steps of the process, including library preparation, are performed with a microbial standard for quality control. Bioinformatics analysis is performed using an upgraded pipeline with an in-house curated database to resolve most microbes to the species level and provide increased coverage of organisms. The final report includes publication-ready compositional bar plots, taxonomy heat maps, alpha-diversity plots, beta-diversity plots, LEfSe biomarker discovery, and Taxa2SV decomposer analysis.


Minimum Samples per Order 10
Sample Preparation • Label sample tubes with numbers (i.e. 1, 2, 3…) that match the Sample Information File. Do NOT label with unique sample names/IDs.

• Ship all samples together.

• Keep an aliquot of each sample at your facility.

• Dilute DNA samples to 5-20 ng/µl microbial DNA. DNA samples must be suspended in ≥ 20 µl of either DNase/RNase-Free Water or TE Buffer (or similar). For projects with ≤ 20 samples, store in 1.5 mL centrifuge tubes. For projects with > 20 samples, store in clear PCR plates. Ship DNA samples on ice.

• Raw samples (e.g. fecal, soil, swab) without preservative solution must be shipped on dry ice. Raw samples stored in DNA/RNA Shield can be shipped at room temperature. No other preservative solution will be accepted.
Sample Report Download Sample Report
Turnaround Time Guaranteed 6-8 weeks; most projects are completed within 4 weeks. Expedited services are available at additional cost. Please contact zymobiomics-services@zymoresearch.com for expedited service requests and for large sample number orders.

Q1: How do I ship my raw samples?

Raw samples should be shipped frozen in dry ice. Alternately, raw samples could be stored in DNA/RNA Shield reagent which can preserve the microbial profile of samples at room temperature for over 1 month. Multiple collection tubes option is available.

Q2: What is microbial standard, how does it serve as a control?

Microbial standard includes easy-to-lyse and tough-to-lyse bacteria and yeast to ensure the data generated is bias-free and representative of the microbial sample.

Q3: What extraction method does this service use?

ZymoBIOMICS DNA extraction kit is used to guaranteed to provide unbiased lysis of all of the organisms in a sample, including tough-to-lyse organism.

Q4: What primers set does this service use for targeted sequencing?

For the 16S service, an in-house optimized 16S V3-V4 primers set is used by default to introduce coverage for both archaea and bacteria. For the ITS service, an in-house optimized ITS primer set is used by default. Please contact zymobiomics-services@zymoresearch.com if a different primer set is desired.

Q5: What is the taxonomy resolution for this service?

Our upgraded pipeline is able to resolve most microbes to the species level, and our in-house curated database provides increased coverage of organisms.


Bullman et al. used the ZymoBIOMICS Targeted Sequencing Service to show that Fusobacterium and other pathogenic microbes are frequently found in both the primary and distant metastatic sites of the most aggressive and deadliest colon cancers. The authors demonstrated the potential for antibiotics to help fight Fusobacterium-positive metastatic colon cancer in a mouse model containing patient-derived xenografts.

Bullman, S., Pedamallu, C.S., Sicinska, E., Clancy, T.E., Zhang, X., Cai, D., … Meyerson, M. (2017). Analysis of Fusobacterium persistence and antibiotic response in colorectal cancer. Science, 358(6369), 1443-1448. doi: 10.1126/science.aal5240

Akyol et al. performed 16S and 18S analysis of anaerobic digestates using the ZymoBIOMICS Targeted Sequencing Service to assess microbial diversity in lignocellulose-rich digestates. The most abundant bacterial and fungal genera were consistent across digestate samples.

Akyol, Ç., Ince, O., and Ince, B. (2019). Crop-based composting of lignocellulosic digestates: Focus on bacterial and fungal diversity. Bioresour. Technol., 121549. doi: 10.1016/j.biortech.2019.121549

The authors investigated the role of the mucosal immune system, the commensal gut microbiota, and the intestinal epithelium in the loss of intestinal homeostasis that drives inflammatory bowel disease (IBD). The ZymoBIOMICS Targeted Sequencing Service was used to determine altered microbiome diversity in mice with different types of inflammation and to demonstrate that rapamycin, the drug used to inhibit mTOR signaling in mice in vivo, did not affect the commensal gut microbiota.

Lyons, J., Ghazi, P.C., Starchenko, A., Tovaglieri, A., Baldwin, K.R., Poulin, E.J., … Haigis, K.M. (2018). The colonic epithelium plays an active role in promoting colitis by shaping the tissue cytokine profile. PLOS Biology, 16(3), e2002417. doi: 10.1371

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"We had a positive experience with ZymoBIOMICS Services. They did a good job in terms of report quality, turnaround time, trouble shooting, etc. Overall, we were very satisfied."

- Beilei G. (FDA)

"Very happy, thank you!"

- Swati C. (Calysta)

"Excellent customer and technical support."

- Ali K. (California Institute of Technology)

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