De-biasing microbiome sequencing data: bacterial morphology-based correction of extraction bias and correlates of chimera formation
Our results indicate that higher DNA density increases chimera formation during PCR amplification. Furthermore, we show that computational correction of extraction bias based on bacterial cell morphology would be feasible using appropriate positive controls, thus constituting an important step toward overcoming protocol biases in microbiome analysis. Video Abstract.
Authors
- Claudia Traidl‐Hoffmann (ORCID: https://orcid.org/0000-0001-5085-5179)
- Claudia Hülpüsch (ORCID: https://orcid.org/0000-0002-5711-1356)
- Avidan U. Neumann (ORCID: https://orcid.org/0000-0002-2149-5917)
- Christian L. Müller (ORCID: https://orcid.org/0000-0002-3821-7083)
- Amedeo De Tomassi (ORCID: https://orcid.org/0009-0002-4287-3005)
- Matthias Reiger (ORCID: https://orcid.org/0000-0002-6173-2104)
- Luise Rauer (ORCID: https://orcid.org/0000-0001-7970-2678)
Institutions
- University of Augsburg (DE)
- Helmholtz Zentrum München (DE)
- CK-CARE (CH)
- Leibniz-Institute for Food Systems Biology at the Technical University of Munich (DE)
- Flatiron Health (United States) (US)
- Flatiron Institute (US)
- Technical University of Munich (DE)
- Ludwig-Maximilians-Universität München (DE)
Publication Details
- Journal
- Microbiome
- Published
- 2025-02-04
- DOI
- https://doi.org/10.1186/s40168-024-01998-4
- Citations
- 7
- Primary Topic
- Bacterial Identification and Susceptibility Testing
- Type
- article
- Field-Weighted Citation Impact
- 9.23