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Oligonucleotide Synthesis

Gene Synthesis & Molecular Biology

Sanger Sequencing

Next Generation Sequencing

Genotyping & Gene Expression

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Identify the microbial community in your sample



Our INVIEW Microbiome Profiling 3.0 offers a highly sensitive identification and classification of the microbial population in a variety of environmental, food or clinical samples.

To accomplish that, Eurofins Genomics is amplifying and Illumina MiSeq sequencing the hypervariable regions of the 16S rRNA gene or the fungal internal transcribed spacer (ITS) gene.








Microbiome Profiling with 1-4 targets


  • Generation of 1 – 4 amplicons per sample (choose from our target list) using a two-step PCR protocol
  • Pooling & normalisation of amplicons
  • Sequencing on MiSeq with the 2 x 300 bp paired-end read module
  • Delivery of guaranteed 60.000 cluster (read pairs) per amplicon
  • Sorting of reads according indices & primer sequence clipping
  • Merging of overlapping paired reads
  • Data delivery via FTP server upload
  • Minimum sample number: 1

2nd PCR Microbiome Profiling


  • You perform a target specific PCR in your own lab and purify the DNA (preferred in EB buffer)
  • Indexing of all samples @ Eurofins Genomics
  • Pooling, Sequencing, etc. as described above
  • Minimum sample number: 1






Product Specifications & Ordering


Target list

Bacterial taxonomic profiling:

  • 16S V1-V3
  • 16S V3-V4
  • 16S V3-V5 


Fungal taxonomic profiling:

  • ITS1
  • ITS2


Archeael taxonomic profiling:

  • 16S target

DNA Extraction & Bio-IT Options

DNA Extraction

As an additional service we offer extraction of high molecular weight DNA from various starting material

  • Fermented products, cheese or yoghurt
  • Enrichment cultures / starter cultures
  • Buccal swabs
  • Human and animal faeces
  • Water & waste water
  • Earthy soil samples (no sand, sandy soil or sediment


Bioinformatics Analysis

If required we also offer advanced bioinformatic analysis:

  • Pre-processing of reads & chimera filtering
  • Picking of OTU representative sequences (Operational Taxonomic Unit)
  • Taxonomical assignment and read abundance estimation for all detected OTUs down to species level (if possible)
  • Normalised abundance estimation of bacterial and archaeal OTUs considering lineage-specific copy numbers of marker genes


Ordering Microbiome Profiling

Here we summarised all important information that you might need to know, when planning to order the INVIEW Microbiome Profiling 3.0.


General Information

Each 16S and ITS primer combination fails to amplify certain species. The use of multiple primer combinations is recommended to capture the entire community (e.g. Ihrmark et al., 2012; Toju et al., 2012).


DNA Extraction

For all projects where DNA extraction is required please read our sample submission guide carefully in order to avoid unwanted waiting times due to insufficient sample material.


Bioinformatic Related Information

  • Although sequencing 300 bp from each side, these 300 bp also include base calls with poor quality. After clipping the reads will be approximately 40 bp shorter (also depending on the sample and the sequencing quality).
  • Taxonomical read assignment down to species level is dependent on several factors like: sample quality, sequencing quality, diversity in the specific genus / family and the nucleotide database. Due to these reasons, a determination down to genus or family might only be possible for certain organisms.
  • Taxonomical analysis will not be able to determine cyano bacteria due to the current primer setup.

For more information please also have a look at our FAQs.












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Quality is important for us

Our products and services are produced and performed under strict quality management and quality assurance systems.

Find certificates here