Staff Publications

Staff Publications

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    'Staff publications' is the digital repository of Wageningen University & Research

    'Staff publications' contains references to publications authored by Wageningen University staff from 1976 onward.

    Publications authored by the staff of the Research Institutes are available from 1995 onwards.

    Full text documents are added when available. The database is updated daily and currently holds about 240,000 items, of which 72,000 in open access.

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Record number 497871
Title Molecular identification of soil eukaryotes and focused approaches targeting protist and faunal groups using high-throughput metabarcoding
Author(s) Groot, G.A. de; Laros, I.; Geisen, S.
Source In: Microbial Environmental Genomics (MEG) / Martin, F., Uroz, S., Springer (Methods in Molecular Biology ) - ISBN 9781493933679 - p. 125 - 140.
DOI http://dx.doi.org/10.1007/978-1-4939-3369-3_7
Department(s) Alterra - Animal ecology
Laboratory of Nematology
Publication type Peer reviewed book chapter
Publication year 2015
Abstract While until recently the application of high-throughput sequencing approaches has mostly been restricted to bacteria and fungi, these methods have now also become available to less often studied (eukaryotic) groups, such as fauna and protists. Such approaches allow routine diversity screening for large numbers of samples via DNA metabarcoding. Given the enormous taxonomic diversity within the eukaryote tree of life, metabarcoding approaches targeting a single specific DNA region do not allow to discriminate members of all eukaryote clades at high taxonomic resolution. Here, we report on protocols that enable studying the diversity of soil eukaryotes and, at high taxonomic resolution, of individual faunal and protist groups therein using a tiered approach: first, the use of a general eukaryotic primer set targeting a wide range of eukaryotes provides a rough impression on the entire diversity of protists and faunal groups. Second, more focused approaches enable deciphering subsets of soil eukaryotes in higher taxonomic detail. We provide primers and protocols for two examples: soil microarthropods and cercozoan protists.
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