EcoFINDERS soil protist metabarcoding

Dataset

Description

We created a mock community of common free-living soil protists (amoebae, flagellates, ciliates), extracted DNA and amplified it in the presence of metazoan DNA using 454 HTS. We aimed at evaluating whether HTS quantitatively reveals true relative abundances of soil protists and to investigate whether the expected protist community structure is altered by the co-amplification of metazoan-associated protist taxa. Indeed, HTS revealed fundamentally different protist communities from those expected. Ciliate sequences were highly overrepresented, while those of most amoebae and flagellates were underrepresented or totally absent. These results underpin the biases introduced by HTS that prevent reliable quantitative estimations of free-living protist communities. Furthermore, we detected a wide range of non-added protist taxa likely introduced along with metazoan DNA, which altered the protist community structure. Among those, 20 taxa most closely resembled parasitic, often pathogenic taxa.
Date made available18 Sep 2015
PublisherWageningen UR

Research Output

Not all are free-living: high-throughput DNA metabarcoding reveals a diverse community of protists parasitizing soil metazoa

Geisen, S., Laros, I., Vizcaino, A., Bonkowski, M. & de Groot, G. A., 2015, In : Molecular Ecology. 24, 17, p. 4556-4569

Research output: Contribution to journalArticleAcademicpeer-review

  • 62 Citations (Scopus)

    Cite this

    Geisen, S. (Creator), Laros, I. (Creator), Vizcaino, A. (Creator), Bonkowski, M. (Creator), de Groot, G. A. (Creator) (18 Sep 2015). EcoFINDERS soil protist metabarcoding. Wageningen UR.