Experimental and Applied Acarology

, Volume 71, Issue 3, pp 259–276

The nuclear 28S gene fragment D3 as species marker in oribatid mites (Acari, Oribatida) from German peatlands

Article

DOI: 10.1007/s10493-017-0126-x

Cite this article as:
Lehmitz, R. & Decker, P. Exp Appl Acarol (2017) 71: 259. doi:10.1007/s10493-017-0126-x

Abstract

To make oribatid mites an applicable tool in monitoring programs it is necessary to find a molecular species marker that allows distinct, rapid and easy species identification. In previous studies, the common barcoding sequence COI showed to be too variable to serve as species marker in oribatid mites. The aim of the present study is to evaluate the potential use of the D3 region of the nuclear 28S rDNA gene for species identification. Therefore, we generated a reference DNA library of 28S D3 to identify specimens of the Oribatida from Germany, with focus on species occurring in peatlands being one of the most endangered habitats in Europe. New DNA sequences were obtained from 325 individuals and 64 species (58 genera, 34 families). By adding 28S D3-sequences from GenBank we altogether analysed 385 sequences from 89 German species, 32 of them restricted to peatlands and further 42 occurring in peatlands occasionally, representing 46 and 33% of the oribatids in German peatlands, respectively. P-distances were measured between species within families as well as for intraspecific divergence. 28S D3 showed low intraspecific genetic p-distances between 0 and 0.5%, interspecific distances within families varied between 0 and 9.7%. Most species pairs within families were further separated by one to four indels in addition to substitutions. Altogether, 93% of all analysed species are clearly delineated by 28S D3. Our study emphasises that 28S D3 rDNA is a useful barcode for the identification of oribatid mite specimens and represents an important step in building-up a comprehensive barcode library to allow metabarcoding analyses of environmental peatland samples for Oribatida in Germany as well as in Central Europe.

Keywords

Barcode 28S D3 Indels Mites Peatlands Germany 

Supplementary material

10493_2017_126_MOESM1_ESM.xlsx (33 kb)
Table S1Sample ID, family and species name, origin, collection date and GenBank accession number of the vouchers to all 28S D3 sequences generated in the present project (XLSX 32 kb)
10493_2017_126_MOESM2_ESM.xlsx (14 kb)
Table S2Family and species name, GenBank accession number, country of origin (DE – Germany, AT – Austria, CE – Central Europe), reference and species name in the reference if different from the present nomenclature for all sequences from GenBank that were analysed in the present project (XLSX 13 kb)

Funding information

Funder NameGrant NumberFunding Note
German Federal Ministry for Education and Research
  • FKZ 01 LI 1101 D

Copyright information

© Springer International Publishing Switzerland 2017

Authors and Affiliations

  1. 1.Senckenberg Museum of Natural History GörlitzGörlitzGermany

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