Universität zu Köln

Fiore-Donno, Anna Maria ORCID: 0000-0001-6265-1907, Weinert, Jan, Wubet, Tesfaye ORCID: 0000-0001-8572-4486 and Bonkowski, Michael ORCID: 0000-0003-2656-1183 (2016). Metacommunity analysis of amoeboid protists in grassland soils. Sci Rep, 6. LONDON: NATURE PUBLISHING GROUP. ISSN 2045-2322

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Abstract

This study reveals the diversity and distribution of two major ubiquitous groups of soil amoebae, the genus Acanthamoeba and the Myxomycetes (plasmodial slime-moulds) that are rarely, if ever, recovered in environmental sampling studies. We analyzed 150 grassland soil samples from three Biodiversity Exploratories study regions in Germany. We developed specific primers targeting the V2 variable region in the first part of the small subunit of the ribosomal RNA gene for high-throughput pyrotag sequencing. From ca. 1 million reads, applying very stringent filtering and clustering parameters to avoid overestimation of the diversity, we obtained 273 acanthamoebal and 338 myxomycete operational taxonomic units (OTUs, 96% similarity threshold). This number is consistent with the genetic diversity known in the two investigated lineages, but unequalled to date by any environmental sampling study. Only very few OTUs were identical to already known sequences. Strikingly different OTUs assemblages were found between the three German regions (PerMANOVA p. value = 0.001) and even between sites of the same region (multiple-site Simpson-based similarity indices <0.4), showing steep biogeographical gradients.

Item Type:	Journal Article
Creators:	Creators Email ORCID ORCID Put Code Fiore-Donno, Anna Maria UNSPECIFIED orcid.org/0000-0001-6265-1907 UNSPECIFIED Weinert, Jan UNSPECIFIED UNSPECIFIED UNSPECIFIED Wubet, Tesfaye UNSPECIFIED orcid.org/0000-0001-8572-4486 UNSPECIFIED Bonkowski, Michael UNSPECIFIED orcid.org/0000-0003-2656-1183 UNSPECIFIED
URN:	urn:nbn:de:hbz:38-287392
DOI:	10.1038/srep19068
Journal or Publication Title:	Sci Rep
Volume:	6
Date:	2016
Publisher:	NATURE PUBLISHING GROUP
Place of Publication:	LONDON
ISSN:	2045-2322
Language:	English
Faculty:	Unspecified
Divisions:	Unspecified
Subjects:	no entry
Uncontrolled Keywords:	Keywords Language SUBUNIT RIBOSOMAL-RNA; RARE BIOSPHERE; MICROBIAL COMMUNITIES; GENETIC DIVERSITY; NAKED AMEBAS; ACANTHAMOEBA; SEQUENCE; BACTERIA; PROTOZOA; IDENTIFICATION Multiple languages Multidisciplinary Sciences Multiple languages
Refereed:	Yes
URI:	http://kups.ub.uni-koeln.de/id/eprint/28739