The need for standardisation: exemplified by a description of the diversity, community structure and ecological indices of soil nematodes

BS Griffiths, GA de Groot, I Laros, DG Stone, S Geisen

Research output: Contribution to journalArticle

10 Citations (Scopus)
40 Downloads (Pure)

Abstract

Molecular approaches are offering a supplement to, or even the possibility of replacing morphological identification of soil fauna, because of advantages for throughput, coverage and objectivity. We determined ecological indices of nematode community data from four sets of duplicate soil cores, based on morphological identification of nematodes after elutriation from 200 g soil and high throughput sequencing (HTS) targeting nematodes both after being elutriated from soils and DNA extracted directly from 10 g soil. HTS (at genus and species level) increased the taxonomic resolution compared to morphology (at family level). DNA extracted from elutriated nematodes identified more nematode taxa than when extracted from soil, due to an enrichment in nematode sequences. Each method also gave a different ecological footprint for the nematode community. Standardisation to previously determined indices based on morphological identification is needed in order to provide more meaningful information about soil quality and for ecological monitoring.
Original languageEnglish
Pages (from-to)43 - 46
Number of pages4
JournalEcological Indicators
Volume87
Early online date22 Dec 2017
DOIs
Publication statusFirst published - 22 Dec 2017

Bibliographical note

1031390

Keywords

  • Biodiversity
  • DNA extraction
  • Metabarcoding
  • Microscopy
  • Molecular approaches
  • Nematodes
  • Standardisation

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