BIP: a validated high-throughput sequencing test for the identification of bacteria
Authors/Creators
-
Raaymakers, Tom M.
(Project leader)1, 2, 3
-
Pel, Michiel J.C.
(Project member)1, 2, 3
- van den Berg, Marlies (Project member)1, 2, 3
- Rensen, Stephanie T.G. (Project member)1, 2, 3
- van der Ven, Karen A. (Project member)1, 2, 3
-
van den Bosch, Tijs J.M.
(Project member)1, 2, 3
- Gorkink-Smits, Peggy P.M.A. (Project member)1, 2, 3
- den Teuling, Pepijn T.L.B. (Project member)1, 2, 3
-
Berbers, Bas
(Project member)1, 2, 3
- Visser, Michael (Project member)1, 2, 3
- 1. Netherlands Institute for Vectors, Invasive plants and Plant health (NIVIP)
- 2. National Plant Protection Organization of the Netherlands (NPPO-NL)
- 3. Netherlands Food and Consumer Product Safety Authority (NVWA)
Description
Bacterial identification methods like PCR and MALDI-TOF MS face limitations due to their targeted nature and database constraints. To overcome these limitations, we developed the Bacterial Identification Pipeline (BIP), an automated, untargeted test using Illumina sequencing. BIP utilizes a Snakemake workflow for automated quality control, de novo assembly, and annotation. It identifies species via the Genome Taxonomy Database and NCBI taxonomy check and provides context by generating phylogenetic trees based on average nucleotide identity (ANI). Ultimately, BIP offers a comprehensive, user-friendly, and high-resolution solution for the identification of bacteria, regardless of prior knowledge.
Files
2026_ibws_poster_tom.pdf
Files
(2.3 MB)
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