Sequencing of the 16S rRNA (gene) for bacteria or ITS2 for fungi allows to investigate the microbiota profile of a specific habitat (“who is there”). We focus on the variable regions v1-v2 or v3-v4, but sequencing of ITS2 for fungi is also available. This amplicon sequencing is performed on the MiSeq and samples are mostly processed in pools of 384 samples. If you submit fewer samples, we will try to pool them with others, but this may then take longer.

In order to look for the whole microbial gene content (“who is there and what are they doing”), we offer metagenomic shotgun sequencing. Depending on the sequencing platform, metagenomes are mostly processed in pools of 10-120 samples.

Supported sequencers

16S sequencing:

• MiSeq

Metagenomics:

• NovaSeq 6000

Supported protocols

16S sequencing:

• custom protocol for variable regions v1-v2
• custom protocol for variable regions v3-v4

ITS2 sequencing:

• custom protocol for ITS2 region

Metagenomics:

• Nextera DNA Flex

You can download the sequencing request for microbiome sequencing here.

Please send the filled sequencing request to c.bang [at] ikmb.uni-kiel.de.