ARPHA Conference Abstracts :
Conference Abstract
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Corresponding author: Emese Meglécz (emese.meglecz@imbe.fr)
Received: 19 Feb 2021 | Published: 04 Mar 2021
© 2021 Emese Meglécz, Vincent Dubut, Emmanuel Corse, Aitor González
This is an open access article distributed under the terms of the Creative Commons Attribution License (CC BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
Citation:
Meglécz E, Dubut V, Corse E, González A (2021) VTAM: A robust pipeline for validating metabarcoding data using optimized parameters based on internal controls. ARPHA Conference Abstracts 4: e64659. https://doi.org/10.3897/aca.4.e64659
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Metabarcoding has become a powerful approach to study biodiversity from environmental samples but it is still prone to some pitfalls. Several papers have called for good practice in study design, data production and analyses to ensure repeatability and comparability between studies. Notably, the importance of mock community samples, negative controls, and replicates is frequently highlighted (
In order to evaluate VTAM, we compared it with two other pipelines: a pipeline based on DADA2 (
VTAM therefore constitutes a complete pipeline to filter and validate metabarcoding data, from raw FASTQ data to Amplicon Sequence Variant tables with taxonomic assignments. Our pipeline aggregates a series of features rarely grouped in a single pipeline and performs a non-arbitrary parameter optimization based on internal control samples to generate conservative but informative metabarcoding datasets. We believe VTAM provides a very valuable tool for the validation of metabarcoding data, which is essential for conducting robust analyses of biodiversity.
metabarcoding, mock sample, negative control, replicates, taxonomic assignation, false positives, false negatives
Emese Meglécz
1st DNAQUA International Conference (March 9-11, 2021)