16S Metabarcoding for insect species (Hillinger et al.)

Description

Sequencing parameters:

• Platform: Illumina, IonTorrent and Nanopore
• Read-length: paired-end 150bp or longer, single-end with 200bp or longer
• Targets: insects

Relevant publications:

• Development of a DNA Metabarcoding Method for the Identification of Insects in Food

Official Methods:

• Not currently an official method.

Run with:

--primer_set 16S_ILM_hillinger_insects (Illumina)

--primer_set 16S_IT_hillinger_insects (Iontorrent)

--primer_set 16S_ONT_hillinger_insects (Nanopore)

For example:

nextflow run bio-raum/FooDMe2 \
  -r main \
  -profile myprofile \ # (1)!
  --input samples.tsv \
  --primer_set 16S_ILM_hillinger_insects

1. See the installation guide for more details on this parameter

Primer sequence(s)

The following primer sequences are used:

>AGI_FWD
TWACGCTGTTATCCCTAAGG
>AGI_REV
GACGAGAAGACCCTATAGA

Configuration

Check the relevant configuration file under conf/primers/ for an list of parameters (e.g. 16S_ILM_hillinger_insects.conf).