Cost-effective, species-level microbiome profiling

The Ion AmpliSeq Microbiome Health Research Kit is a next-generation sequencing (NGS) assay that allows for cost-effective yet comprehensive profiling of microbial diversity in the human gut microbiome. This new assay offers increased resolution and specificity of species-level detection compared with traditional 16S rRNA sequencing for key organisms associated with cancer, as well as immunological and gastrointestinal (GI) disorder research.

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Currently, most 16S panels target only 2–4 hypervariable (HV) regions of the 16S rRNA gene, while the panel included in the Ion AmpliSeq Microbiome Health Research Kit targets 8 out of the 9 HV regions for highly comprehensive and sensitive microbial profiling.

Combined with a set of high-resolution markers for increased species-level identification and fully integrated data analysis tools, a complete end-to-end solution is available to help simplify your research (Figure 1).

Figure 1. Workflow using the Ion AmpliSeq Microbiome Health Research Kit
  • Targeted sequencing—with comprehensive content that has 100% sensitivity and specificity at a species level at standard thresholds
  • Panel targeting 8 out of 9 HV regions—the most comprehensive 16S rRNA gene panel
  • Species-level resolution—detection of 73 key bacterial species associated with immuno-oncology as well as immunological and GI disorder research
While shotgun metagenomics offers higher functional resolution, it comes at a higher cost and takes more time. The Ion AmpliSeq Microbiome Health Research panel offers a cost-effective solution with species-level specificity for research of immuno-oncology and key gut-related disorders as well as autoimmune diseases (Figure 2).

Both the 16S panel as well as the highly curated species-specific panel allow for 100% specificity and sensitivity. Using stool samples, we show high reproducibility from experiment to experiment (Figure 3).

The Ion AmpliSeq Microbiome Health Research Kit aoffers a complete end-to-end solution with the Ion AmpliSeq Microbiome Health Analysis plug-in within Torrent Suite Software. In addition, an analysis tool within Ion Reporter Software is optimized for microbiome health research and allows for multi-sample analysis, with additional visualization options to come.


1. Routy B, et al. Gut microbiome influences efficacy of PD-1-based immunotherapy against epithelial tumors. Science. 2018 Jan 5;359(6371):91-97.
2. Matson V, Fessler J, Bao R, Chongsuwat T, Zha Y, Alegre ML, Luke JJ, Gajewski TF. The commensal microbiome is associated with anti-PD-1 efficacy in metastatic melanoma patients. Science. 2018 Jan 5;359(6371):104-108.
3. Gopalakrishnan V, et al. Gut microbiome modulates response to anti-PD-1 immunotherapy in melanoma patients. Science. 2018 Jan 5;359(6371):97-103.